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MOTIFSIM - Motif Similarity Detection Tool
Version 2.2

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INPUT
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Input Parameters 
Number of files: 5
Number of top significant motifs: 10
Number of best matches: 10
Similarity cutoff: >= 0.75
Matching motif database: UniProbe Mus Musculus
Motif tree: Yes
Combined similar motifs: Yes
Output file type: All
Output file format: All
Input files and motif counts
File name                          Count of motifs     Dataset #      
MEME_DM05.txt                      46                  1              
MEME-ChIP_DM05.txt                 4                   2              
PScanChIP_DM05.txt                 16                  3              
RSAT_peak-motifs_DM05.txt          17                  4              
W-ChIPMotifs_DM05.txt              11                  5              

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RESULTS
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********************************************************************** Best Matches in Database for Each Motif (Highest to Lowest) *****************************************************************

Dataset #: 1		Motif ID: 1		Motif name: Motif 1

Original motif
0.000000    0.598592    0.176056    0.225352    
0.000000    0.626761    0.000000    0.373239    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.408451    0.514084    0.077465    
0.091549    0.823944    0.028169    0.056338    
0.133803    0.690141    0.000000    0.176056    
0.042254    0.281690    0.000000    0.676056    
0.007042    0.683099    0.197183    0.112676    
0.197183    0.000000    0.000000    0.802817    
0.000000    0.084507    0.690141    0.225352    
0.091549    0.605634    0.169014    0.133803    
Consensus sequence: CYTSCCTCTGC

Reserve complement motif
0.091549    0.169014    0.605634    0.133803    
0.000000    0.690141    0.084507    0.225352    
0.802817    0.000000    0.000000    0.197183    
0.007042    0.197183    0.683099    0.112676    
0.676056    0.281690    0.000000    0.042254    
0.133803    0.000000    0.690141    0.176056    
0.091549    0.028169    0.823944    0.056338    
0.000000    0.514084    0.408451    0.077465    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.626761    0.373239    
0.000000    0.176056    0.598592    0.225352    
Consensus sequence: GCAGAGGSAKG


************************************************************************ Best Matches for Motif ID 1 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00043        Bcl6b_secondary                    Original Motif                          Original Motif                          Forward        4              11             0.031301       

Species: Mus musculus

Original motif
0.316572    0.278382    0.152556    0.252490    
0.167141    0.257034    0.259894    0.315931    
0.175523    0.325956    0.259996    0.238525    
0.165052    0.385677    0.239449    0.209822    
0.069489    0.782718    0.072454    0.075339    
0.049943    0.800636    0.031988    0.117433    
0.223382    0.060306    0.552691    0.163621    
0.072944    0.818252    0.034406    0.074398    
0.070535    0.845127    0.062712    0.021626    
0.031035    0.859354    0.055424    0.054187    
0.063668    0.798503    0.067274    0.070554    
0.348488    0.030697    0.197179    0.423636    
0.307220    0.256470    0.181009    0.255301    
0.460933    0.285057    0.090258    0.163752    
0.315798    0.228431    0.171135    0.284637    
0.374527    0.268328    0.198810    0.158335    
Consensus sequence: HBBBCCGCCCCWHHHV

Reverse complement motif
0.158335    0.268328    0.198810    0.374527    
0.284637    0.228431    0.171135    0.315798    
0.163752    0.285057    0.090258    0.460933    
0.255301    0.256470    0.181009    0.307220    
0.423636    0.030697    0.197179    0.348488    
0.063668    0.067274    0.798503    0.070554    
0.031035    0.055424    0.859354    0.054187    
0.070535    0.062712    0.845127    0.021626    
0.072944    0.034406    0.818252    0.074398    
0.223382    0.552691    0.060306    0.163621    
0.049943    0.031988    0.800636    0.117433    
0.069489    0.072454    0.782718    0.075339    
0.165052    0.239449    0.385677    0.209822    
0.175523    0.259996    0.325956    0.238525    
0.315931    0.257034    0.259894    0.167141    
0.252490    0.278382    0.152556    0.316572    
Consensus sequence: BHHHWGGGGCGGBBVH

Alignment:
HBBBCCGCCCCWHHHV
---CYTSCCTCTGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00033        Zfp410_secondary                   Original Motif                          Original Motif                          Backward       3              11             0.031713       

Species: Mus musculus

Original motif
0.162979    0.284781    0.237433    0.314807    
0.182449    0.447584    0.069464    0.300502    
0.298973    0.261014    0.213211    0.226802    
0.136039    0.433062    0.144274    0.286625    
0.180084    0.395933    0.158565    0.265418    
0.069354    0.748510    0.068898    0.113238    
0.060485    0.717828    0.075333    0.146354    
0.023280    0.071762    0.645500    0.259457    
0.166896    0.749762    0.062730    0.020612    
0.050401    0.775248    0.089072    0.085279    
0.103847    0.767557    0.068804    0.059791    
0.064815    0.748318    0.114588    0.072280    
0.340921    0.071942    0.242981    0.344157    
0.301967    0.263512    0.165927    0.268594    
0.479800    0.222955    0.118441    0.178803    
0.229469    0.283621    0.143099    0.343811    
0.261733    0.180191    0.169905    0.388170    
Consensus sequence: BHHBHCCGCCCCDHHHH

Reverse complement motif
0.388170    0.180191    0.169905    0.261733    
0.343811    0.283621    0.143099    0.229469    
0.178803    0.222955    0.118441    0.479800    
0.268594    0.263512    0.165927    0.301967    
0.344157    0.071942    0.242981    0.340921    
0.064815    0.114588    0.748318    0.072280    
0.103847    0.068804    0.767557    0.059791    
0.050401    0.089072    0.775248    0.085279    
0.166896    0.062730    0.749762    0.020612    
0.023280    0.645500    0.071762    0.259457    
0.060485    0.075333    0.717828    0.146354    
0.069354    0.068898    0.748510    0.113238    
0.180084    0.158565    0.395933    0.265418    
0.136039    0.144274    0.433062    0.286625    
0.226802    0.261014    0.213211    0.298973    
0.182449    0.069464    0.447584    0.300502    
0.314807    0.284781    0.237433    0.162979    
Consensus sequence: HHHHDGGGGCGGDBHDV

Alignment:
BHHBHCCGCCCCDHHHH
----CYTSCCTCTGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00013        Gabpa_secondary                    Original Motif                          Original Motif                          Forward        5              11             0.032275       

Species: Mus musculus

Original motif
0.233133    0.551828    0.139009    0.076030    
0.100085    0.525562    0.101688    0.272665    
0.252996    0.198121    0.299171    0.249711    
0.141471    0.195290    0.234560    0.428679    
0.160993    0.442765    0.082653    0.313590    
0.307890    0.127950    0.071713    0.492448    
0.093453    0.148935    0.080288    0.677324    
0.083535    0.634212    0.074652    0.207601    
0.098119    0.639328    0.099957    0.162596    
0.067430    0.451776    0.357188    0.123606    
0.286259    0.466975    0.063013    0.183753    
0.203211    0.422637    0.133368    0.240783    
0.111206    0.315595    0.192833    0.380366    
0.199462    0.324652    0.305491    0.170395    
0.347919    0.292387    0.230724    0.128970    
0.254648    0.294196    0.194942    0.256214    
Consensus sequence: CYDBYWTCCSMHBVVH

Reverse complement motif
0.254648    0.194942    0.294196    0.256214    
0.128970    0.292387    0.230724    0.347919    
0.199462    0.305491    0.324652    0.170395    
0.380366    0.315595    0.192833    0.111206    
0.203211    0.133368    0.422637    0.240783    
0.286259    0.063013    0.466975    0.183753    
0.067430    0.357188    0.451776    0.123606    
0.098119    0.099957    0.639328    0.162596    
0.083535    0.074652    0.634212    0.207601    
0.677324    0.148935    0.080288    0.093453    
0.492448    0.127950    0.071713    0.307890    
0.160993    0.082653    0.442765    0.313590    
0.428679    0.195290    0.234560    0.141471    
0.252996    0.299171    0.198121    0.249711    
0.100085    0.101688    0.525562    0.272665    
0.233133    0.139009    0.551828    0.076030    
Consensus sequence: DBVVDRSGGAWKVHKG

Alignment:
CYDBYWTCCSMHBVVH
----CYTSCCTCTGC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00010        Tcfap2b_secondary                  Original Motif                          Reverse Complement                      Backward       5              11             0.033642       

Species: Mus musculus

Original motif
0.325895    0.099601    0.286848    0.287657    
0.177095    0.035123    0.260876    0.526906    
0.344850    0.211117    0.015725    0.428308    
0.128363    0.059965    0.777560    0.034112    
0.048072    0.881624    0.024842    0.045462    
0.072628    0.872650    0.011271    0.043451    
0.057165    0.162157    0.347719    0.432959    
0.015437    0.448405    0.428425    0.107733    
0.446877    0.336374    0.099940    0.116809    
0.090955    0.023004    0.848240    0.037801    
0.040151    0.015072    0.901303    0.043473    
0.087378    0.817019    0.027876    0.067727    
0.532482    0.021469    0.266773    0.179276    
0.325017    0.271661    0.138860    0.264463    
0.203625    0.179490    0.143885    0.473001    
Consensus sequence: DTWGCCKSMGGCRHH

Reverse complement motif
0.473001    0.179490    0.143885    0.203625    
0.264463    0.271661    0.138860    0.325017    
0.179276    0.021469    0.266773    0.532482    
0.087378    0.027876    0.817019    0.067727    
0.040151    0.901303    0.015072    0.043473    
0.090955    0.848240    0.023004    0.037801    
0.116809    0.336374    0.099940    0.446877    
0.015437    0.428425    0.448405    0.107733    
0.432959    0.162157    0.347719    0.057165    
0.072628    0.011271    0.872650    0.043451    
0.048072    0.024842    0.881624    0.045462    
0.128363    0.777560    0.059965    0.034112    
0.428308    0.211117    0.015725    0.344850    
0.526906    0.035123    0.260876    0.177095    
0.287657    0.099601    0.286848    0.325895    
Consensus sequence: HHKGCCYSRGGCWAD

Alignment:
HHKGCCYSRGGCWAD
CYTSCCTCTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00099        Ascl2_primary                      Reverse Complement                      Reverse Complement                      Forward        6              11             0.034328       

Species: Mus musculus

Original motif
0.168852    0.325948    0.188604    0.316596    
0.150343    0.193286    0.241301    0.415069    
0.091518    0.482905    0.122928    0.302648    
0.472493    0.198776    0.225796    0.102935    
0.294513    0.179919    0.447250    0.078318    
0.014660    0.972080    0.005591    0.007668    
0.954848    0.008107    0.008474    0.028571    
0.006076    0.178912    0.760021    0.054991    
0.052082    0.817415    0.124797    0.005707    
0.019342    0.010406    0.008905    0.961347    
0.005455    0.008073    0.977684    0.008788    
0.042946    0.715551    0.087020    0.154483    
0.116888    0.241739    0.170073    0.471300    
0.315931    0.324343    0.291451    0.068274    
0.199164    0.366921    0.163690    0.270226    
0.218561    0.211076    0.187732    0.382631    
0.145317    0.139808    0.389262    0.325614    
Consensus sequence: BBYVVCAGCTGCBVHHD

Reverse complement motif
0.145317    0.389262    0.139808    0.325614    
0.382631    0.211076    0.187732    0.218561    
0.199164    0.163690    0.366921    0.270226    
0.315931    0.291451    0.324343    0.068274    
0.471300    0.241739    0.170073    0.116888    
0.042946    0.087020    0.715551    0.154483    
0.005455    0.977684    0.008073    0.008788    
0.961347    0.010406    0.008905    0.019342    
0.052082    0.124797    0.817415    0.005707    
0.006076    0.760021    0.178912    0.054991    
0.028571    0.008107    0.008474    0.954848    
0.014660    0.005591    0.972080    0.007668    
0.294513    0.447250    0.179919    0.078318    
0.102935    0.198776    0.225796    0.472493    
0.091518    0.122928    0.482905    0.302648    
0.415069    0.193286    0.241301    0.150343    
0.168852    0.188604    0.325948    0.316596    
Consensus sequence: HHDVVGCAGCTGVBKVB

Alignment:
HHDVVGCAGCTGVBKVB
-----GCAGAGGSAKG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00096        Sox13_secondary                    Original Motif                          Reverse Complement                      Backward       1              11             0.035988       

Species: Mus musculus

Original motif
0.262581    0.115233    0.405525    0.216661    
0.246681    0.142854    0.145056    0.465409    
0.341041    0.154355    0.306628    0.197976    
0.242211    0.263918    0.113187    0.380684    
0.119326    0.241913    0.117198    0.521563    
0.054120    0.036135    0.784219    0.125525    
0.076634    0.048399    0.788586    0.086381    
0.215316    0.044119    0.663927    0.076638    
0.248538    0.159141    0.015452    0.576869    
0.047049    0.083570    0.788798    0.080583    
0.071948    0.035098    0.768849    0.124105    
0.123777    0.030383    0.713425    0.132415    
0.294760    0.182119    0.181553    0.341567    
0.516589    0.129377    0.116698    0.237336    
0.350326    0.186505    0.112598    0.350571    
0.311469    0.198085    0.147986    0.342460    
0.185126    0.130721    0.242572    0.441582    
Consensus sequence: DDDHTGGGTGGGHAHHD

Reverse complement motif
0.441582    0.130721    0.242572    0.185126    
0.342460    0.198085    0.147986    0.311469    
0.350571    0.186505    0.112598    0.350326    
0.237336    0.129377    0.116698    0.516589    
0.341567    0.182119    0.181553    0.294760    
0.123777    0.713425    0.030383    0.132415    
0.071948    0.768849    0.035098    0.124105    
0.047049    0.788798    0.083570    0.080583    
0.576869    0.159141    0.015452    0.248538    
0.215316    0.663927    0.044119    0.076638    
0.076634    0.788586    0.048399    0.086381    
0.054120    0.784219    0.036135    0.125525    
0.521563    0.241913    0.117198    0.119326    
0.380684    0.263918    0.113187    0.242211    
0.197976    0.154355    0.306628    0.341041    
0.465409    0.142854    0.145056    0.246681    
0.262581    0.405525    0.115233    0.216661    
Consensus sequence: DHHTHCCCACCCAHDDH

Alignment:
DDDHTGGGTGGGHAHHD
------CYTSCCTCTGC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00085        Sfpi1_primary                      Original Motif                          Reverse Complement                      Backward       1              11             0.036078       

Species: Mus musculus

Original motif
0.211586    0.273653    0.234763    0.279998    
0.298032    0.104818    0.290385    0.306764    
0.593467    0.048056    0.154602    0.203875    
0.459746    0.052697    0.169949    0.317608    
0.188623    0.155357    0.591543    0.064477    
0.402746    0.286227    0.290285    0.020742    
0.048569    0.001240    0.946397    0.003793    
0.004354    0.001387    0.990819    0.003441    
0.974272    0.001416    0.001466    0.022847    
0.938748    0.003090    0.000833    0.057329    
0.045831    0.270321    0.674644    0.009204    
0.055664    0.092552    0.026061    0.825722    
0.301235    0.122653    0.267039    0.309073    
0.278680    0.276099    0.219159    0.226061    
Consensus sequence: BDAWGVGGAAGTDH

Reverse complement motif
0.226061    0.276099    0.219159    0.278680    
0.309073    0.122653    0.267039    0.301235    
0.825722    0.092552    0.026061    0.055664    
0.045831    0.674644    0.270321    0.009204    
0.057329    0.003090    0.000833    0.938748    
0.022847    0.001416    0.001466    0.974272    
0.004354    0.990819    0.001387    0.003441    
0.048569    0.946397    0.001240    0.003793    
0.020742    0.286227    0.290285    0.402746    
0.188623    0.591543    0.155357    0.064477    
0.317608    0.052697    0.169949    0.459746    
0.203875    0.048056    0.154602    0.593467    
0.306764    0.104818    0.290385    0.298032    
0.279998    0.273653    0.234763    0.211586    
Consensus sequence: HDACTTCCBCWTDV

Alignment:
HDACTTCCBCWTDV
---CYTSCCTCTGC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_secondary                    Original Motif                          Reverse Complement                      Backward       4              11             0.036903       

Species: Mus musculus

Original motif
0.110412    0.519910    0.162398    0.207280    
0.470593    0.172893    0.115202    0.241311    
0.467126    0.160175    0.227365    0.145334    
0.196112    0.169855    0.079068    0.554965    
0.198275    0.671393    0.026094    0.104237    
0.793465    0.046739    0.110258    0.049538    
0.058204    0.867549    0.045603    0.028645    
0.079471    0.027484    0.025248    0.867797    
0.032277    0.065893    0.827417    0.074413    
0.080553    0.119144    0.585050    0.215253    
0.105106    0.470208    0.170921    0.253765    
0.690158    0.033925    0.171121    0.104796    
0.299543    0.155890    0.362586    0.181981    
0.343375    0.213360    0.180067    0.263198    
0.364819    0.149053    0.181128    0.305000    
0.247818    0.143948    0.217882    0.390352    
Consensus sequence: CHVTCACTGGBADHDD

Reverse complement motif
0.390352    0.143948    0.217882    0.247818    
0.305000    0.149053    0.181128    0.364819    
0.263198    0.213360    0.180067    0.343375    
0.299543    0.362586    0.155890    0.181981    
0.104796    0.033925    0.171121    0.690158    
0.105106    0.170921    0.470208    0.253765    
0.080553    0.585050    0.119144    0.215253    
0.032277    0.827417    0.065893    0.074413    
0.867797    0.027484    0.025248    0.079471    
0.058204    0.045603    0.867549    0.028645    
0.049538    0.046739    0.110258    0.793465    
0.198275    0.026094    0.671393    0.104237    
0.554965    0.169855    0.079068    0.196112    
0.145334    0.160175    0.227365    0.467126    
0.241311    0.172893    0.115202    0.470593    
0.110412    0.162398    0.519910    0.207280    
Consensus sequence: DDHHTBCCAGTGABHG

Alignment:
DDHHTBCCAGTGABHG
--CYTSCCTCTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_secondary                     Reverse Complement                      Reverse Complement                      Backward       5              11             0.037085       

Species: Mus musculus

Original motif
0.503814    0.061521    0.249336    0.185328    
0.254929    0.299710    0.169910    0.275451    
0.227652    0.250215    0.156720    0.365413    
0.204377    0.213835    0.124161    0.457627    
0.092364    0.094662    0.750364    0.062611    
0.026436    0.897855    0.038986    0.036722    
0.035250    0.085429    0.030496    0.848825    
0.819775    0.042925    0.032996    0.104304    
0.145642    0.810774    0.021549    0.022035    
0.031252    0.486827    0.015181    0.466740    
0.255316    0.101783    0.039552    0.603348    
0.466712    0.084471    0.436303    0.012514    
0.344321    0.408616    0.064696    0.182367    
0.422210    0.112319    0.109923    0.355548    
0.221064    0.283525    0.217775    0.277636    
0.280658    0.350363    0.211925    0.157054    
Consensus sequence: AHHHGCTACYTRMWHV

Reverse complement motif
0.280658    0.211925    0.350363    0.157054    
0.221064    0.217775    0.283525    0.277636    
0.355548    0.112319    0.109923    0.422210    
0.344321    0.064696    0.408616    0.182367    
0.012514    0.084471    0.436303    0.466712    
0.603348    0.101783    0.039552    0.255316    
0.031252    0.015181    0.486827    0.466740    
0.145642    0.021549    0.810774    0.022035    
0.104304    0.042925    0.032996    0.819775    
0.848825    0.085429    0.030496    0.035250    
0.026436    0.038986    0.897855    0.036722    
0.092364    0.750364    0.094662    0.062611    
0.457627    0.213835    0.124161    0.204377    
0.365413    0.250215    0.156720    0.227652    
0.254929    0.169910    0.299710    0.275451    
0.185328    0.061521    0.249336    0.503814    
Consensus sequence: VDWRKAKGTAGCHHDT

Alignment:
VDWRKAKGTAGCHHDT
-GCAGAGGSAKG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Original Motif                          Original Motif                          Forward        8              11             0.038182       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
-------CYTSCCTCTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 2		Motif name: Motif 2

Original motif
0.833333    0.000000    0.166667    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.875000    0.000000    0.000000    0.125000    
0.083333    0.875000    0.041667    0.000000    
0.958333    0.000000    0.000000    0.041667    
0.125000    0.875000    0.000000    0.000000    
0.833333    0.166667    0.000000    0.000000    
0.000000    0.750000    0.000000    0.250000    
0.666667    0.000000    0.208333    0.125000    
0.000000    0.833333    0.041667    0.125000    
0.791667    0.125000    0.083333    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.708334    0.000000    0.083333    0.208333    
0.000000    0.958333    0.000000    0.041667    
Consensus sequence: ACACACACACACAC

Reserve complement motif
0.000000    0.000000    0.958333    0.041667    
0.208333    0.000000    0.083333    0.708334    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.125000    0.083333    0.791667    
0.000000    0.041667    0.833333    0.125000    
0.125000    0.000000    0.208333    0.666667    
0.000000    0.000000    0.750000    0.250000    
0.000000    0.166667    0.000000    0.833333    
0.125000    0.000000    0.875000    0.000000    
0.041667    0.000000    0.000000    0.958333    
0.083333    0.041667    0.875000    0.000000    
0.125000    0.000000    0.000000    0.875000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.166667    0.833333    
Consensus sequence: GTGTGTGTGTGTGT


************************************************************************ Best Matches for Motif ID 2 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00042        Gm397_second                       Reverse Complement                      Reverse Complement                      Forward        1              14             0.039150       

Species: Mus musculus

Original motif
0.360404    0.193218    0.248888    0.197490    
0.286498    0.224597    0.426555    0.062349    
0.347032    0.440548    0.033161    0.179259    
0.337062    0.193658    0.385751    0.083529    
0.108793    0.005723    0.878300    0.007184    
0.015151    0.973406    0.009324    0.002118    
0.972117    0.003915    0.019783    0.004185    
0.010144    0.980912    0.003106    0.005839    
0.974864    0.007532    0.015914    0.001691    
0.012441    0.939195    0.029256    0.019108    
0.759620    0.106164    0.073819    0.060397    
0.157234    0.818234    0.007449    0.017083    
0.050076    0.063608    0.505171    0.381144    
0.131903    0.538163    0.124608    0.205325    
0.367623    0.286526    0.240931    0.104919    
0.357798    0.317606    0.097711    0.226885    
Consensus sequence: DVMVGCACACACKCVH

Reverse complement motif
0.226885    0.317606    0.097711    0.357798    
0.104919    0.286526    0.240931    0.367623    
0.131903    0.124608    0.538163    0.205325    
0.050076    0.505171    0.063608    0.381144    
0.157234    0.007449    0.818234    0.017083    
0.060397    0.106164    0.073819    0.759620    
0.012441    0.029256    0.939195    0.019108    
0.001691    0.007532    0.015914    0.974864    
0.010144    0.003106    0.980912    0.005839    
0.004185    0.003915    0.019783    0.972117    
0.015151    0.009324    0.973406    0.002118    
0.108793    0.878300    0.005723    0.007184    
0.337062    0.385751    0.193658    0.083529    
0.347032    0.033161    0.440548    0.179259    
0.286498    0.426555    0.224597    0.062349    
0.197490    0.193218    0.248888    0.360404    
Consensus sequence: HBGYGTGTGTGCVRVD

Alignment:
HBGYGTGTGTGCVRVD
GTGTGTGTGTGTGT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Original Motif                          Forward        10             14             0.043857       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
MHHHWHYTMCCHCCCACVAABVH
---------ACACACACACACAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00026        Zscan4_secondary                   Reverse Complement                      Reverse Complement                      Backward       3              14             0.046881       

Species: Mus musculus

Original motif
0.275231    0.387763    0.112851    0.224155    
0.269193    0.327669    0.360934    0.042204    
0.439403    0.233641    0.022359    0.304596    
0.409796    0.139856    0.390450    0.059899    
0.038409    0.011231    0.936209    0.014150    
0.067382    0.909014    0.021244    0.002359    
0.962897    0.009563    0.009687    0.017854    
0.043757    0.937596    0.007648    0.010999    
0.970698    0.005379    0.016825    0.007098    
0.066033    0.636556    0.043955    0.253456    
0.797406    0.066726    0.011988    0.123879    
0.774632    0.121694    0.017773    0.085901    
0.324017    0.235408    0.213365    0.227210    
0.365796    0.192247    0.134547    0.307410    
0.299601    0.246867    0.098395    0.355137    
0.328229    0.242048    0.251143    0.178579    
Consensus sequence: HVHRGCACACAAHHHV

Reverse complement motif
0.178579    0.242048    0.251143    0.328229    
0.355137    0.246867    0.098395    0.299601    
0.307410    0.192247    0.134547    0.365796    
0.227210    0.235408    0.213365    0.324017    
0.085901    0.121694    0.017773    0.774632    
0.123879    0.066726    0.011988    0.797406    
0.066033    0.043955    0.636556    0.253456    
0.007098    0.005379    0.016825    0.970698    
0.043757    0.007648    0.937596    0.010999    
0.017854    0.009563    0.009687    0.962897    
0.067382    0.021244    0.909014    0.002359    
0.038409    0.936209    0.011231    0.014150    
0.059899    0.139856    0.390450    0.409796    
0.304596    0.233641    0.022359    0.439403    
0.269193    0.360934    0.327669    0.042204    
0.275231    0.112851    0.387763    0.224155    
Consensus sequence: BHHHTTGTGTGCKHVD

Alignment:
BHHHTTGTGTGCKHVD
GTGTGTGTGTGTGT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Original Motif                          Forward        7              14             0.047934       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
------ACACACACACACAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Reverse Complement                      Original Motif                          Backward       9              14             0.048596       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB
-GTGTGTGTGTGTGT--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Backward       8              14             0.052696       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
--ACACACACACACAC-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00036        Myf6_secondary                     Original Motif                          Original Motif                          Forward        1              14             0.054087       

Species: Mus musculus

Original motif
0.345146    0.261059    0.273931    0.119863    
0.222137    0.272923    0.332024    0.172916    
0.269602    0.278951    0.245221    0.206225    
0.485406    0.144018    0.294421    0.076155    
0.577731    0.270563    0.078955    0.072752    
0.070027    0.750816    0.062819    0.116339    
0.685018    0.105175    0.137110    0.072697    
0.162574    0.071041    0.638464    0.127921    
0.343240    0.389633    0.206226    0.060900    
0.080169    0.790323    0.114211    0.015297    
0.167035    0.201642    0.462780    0.168543    
0.114383    0.664317    0.166143    0.055157    
0.392143    0.114475    0.340085    0.153298    
0.208147    0.577473    0.142694    0.071686    
0.168632    0.563135    0.066181    0.202052    
Consensus sequence: VVVRACAGVCBCDCC

Reverse complement motif
0.168632    0.066181    0.563135    0.202052    
0.208147    0.142694    0.577473    0.071686    
0.153298    0.114475    0.340085    0.392143    
0.114383    0.166143    0.664317    0.055157    
0.167035    0.462780    0.201642    0.168543    
0.080169    0.114211    0.790323    0.015297    
0.343240    0.206226    0.389633    0.060900    
0.162574    0.638464    0.071041    0.127921    
0.072697    0.105175    0.137110    0.685018    
0.070027    0.062819    0.750816    0.116339    
0.072752    0.270563    0.078955    0.577731    
0.076155    0.144018    0.294421    0.485406    
0.269602    0.245221    0.278951    0.206225    
0.222137    0.332024    0.272923    0.172916    
0.119863    0.261059    0.273931    0.345146    
Consensus sequence: GGDGBGVCTGTKVVB

Alignment:
VVVRACAGVCBCDCC
ACACACACACACAC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_secondary                    Original Motif                          Original Motif                          Backward       9              14             0.055008       

Species: Mus musculus

Original motif
0.477863    0.106306    0.184102    0.231729    
0.304951    0.149020    0.361418    0.184612    
0.548996    0.056128    0.348902    0.045974    
0.385727    0.477782    0.086218    0.050273    
0.409556    0.232265    0.173851    0.184328    
0.174550    0.312880    0.307123    0.205448    
0.850398    0.047204    0.041665    0.060734    
0.141234    0.548534    0.142230    0.168002    
0.059462    0.026354    0.892948    0.021236    
0.053714    0.870297    0.028935    0.047055    
0.086273    0.069147    0.805284    0.039296    
0.033781    0.573881    0.034115    0.358223    
0.035191    0.079663    0.824970    0.060176    
0.051830    0.862631    0.019359    0.066180    
0.178685    0.015738    0.762485    0.043092    
0.058988    0.042615    0.017608    0.880789    
0.202382    0.173360    0.284095    0.340163    
0.098493    0.234651    0.506524    0.160333    
0.109087    0.336204    0.250510    0.304198    
0.130945    0.250843    0.177122    0.441090    
0.353830    0.138838    0.162784    0.344548    
0.114290    0.417163    0.160662    0.307885    
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB

Reverse complement motif
0.114290    0.160662    0.417163    0.307885    
0.344548    0.138838    0.162784    0.353830    
0.441090    0.250843    0.177122    0.130945    
0.109087    0.250510    0.336204    0.304198    
0.098493    0.506524    0.234651    0.160333    
0.340163    0.173360    0.284095    0.202382    
0.880789    0.042615    0.017608    0.058988    
0.178685    0.762485    0.015738    0.043092    
0.051830    0.019359    0.862631    0.066180    
0.035191    0.824970    0.079663    0.060176    
0.033781    0.034115    0.573881    0.358223    
0.086273    0.805284    0.069147    0.039296    
0.053714    0.028935    0.870297    0.047055    
0.059462    0.892948    0.026354    0.021236    
0.141234    0.142230    0.548534    0.168002    
0.060734    0.047204    0.041665    0.850398    
0.174550    0.307123    0.312880    0.205448    
0.184328    0.232265    0.173851    0.409556    
0.385727    0.086218    0.477782    0.050273    
0.045974    0.056128    0.348902    0.548996    
0.304951    0.361418    0.149020    0.184612    
0.231729    0.106306    0.184102    0.477863    
Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Alignment:
DDRMHBACGCGYGCGTDGBBDB
ACACACACACACAC--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Original Motif                          Original Motif                          Backward       1              14             0.055413       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BBBDVVRGACCACCCAVGABBAB
---------ACACACACACACAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00096        Sox13_secondary                    Original Motif                          Reverse Complement                      Forward        1              14             0.058256       

Species: Mus musculus

Original motif
0.262581    0.115233    0.405525    0.216661    
0.246681    0.142854    0.145056    0.465409    
0.341041    0.154355    0.306628    0.197976    
0.242211    0.263918    0.113187    0.380684    
0.119326    0.241913    0.117198    0.521563    
0.054120    0.036135    0.784219    0.125525    
0.076634    0.048399    0.788586    0.086381    
0.215316    0.044119    0.663927    0.076638    
0.248538    0.159141    0.015452    0.576869    
0.047049    0.083570    0.788798    0.080583    
0.071948    0.035098    0.768849    0.124105    
0.123777    0.030383    0.713425    0.132415    
0.294760    0.182119    0.181553    0.341567    
0.516589    0.129377    0.116698    0.237336    
0.350326    0.186505    0.112598    0.350571    
0.311469    0.198085    0.147986    0.342460    
0.185126    0.130721    0.242572    0.441582    
Consensus sequence: DDDHTGGGTGGGHAHHD

Reverse complement motif
0.441582    0.130721    0.242572    0.185126    
0.342460    0.198085    0.147986    0.311469    
0.350571    0.186505    0.112598    0.350326    
0.237336    0.129377    0.116698    0.516589    
0.341567    0.182119    0.181553    0.294760    
0.123777    0.713425    0.030383    0.132415    
0.071948    0.768849    0.035098    0.124105    
0.047049    0.788798    0.083570    0.080583    
0.576869    0.159141    0.015452    0.248538    
0.215316    0.663927    0.044119    0.076638    
0.076634    0.788586    0.048399    0.086381    
0.054120    0.784219    0.036135    0.125525    
0.521563    0.241913    0.117198    0.119326    
0.380684    0.263918    0.113187    0.242211    
0.197976    0.154355    0.306628    0.341041    
0.465409    0.142854    0.145056    0.246681    
0.262581    0.405525    0.115233    0.216661    
Consensus sequence: DHHTHCCCACCCAHDDH

Alignment:
DDDHTGGGTGGGHAHHD
ACACACACACACAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 3		Motif name: Motif 3

Original motif
0.239437    0.274648    0.077465    0.408451    
0.084507    0.654930    0.147887    0.112676    
0.753521    0.000000    0.000000    0.246479    
0.309859    0.000000    0.654930    0.035211    
0.302817    0.049296    0.584507    0.063380    
0.542254    0.007042    0.394366    0.056338    
0.457746    0.253521    0.190141    0.098592    
0.584507    0.169014    0.232394    0.014085    
0.274648    0.626760    0.098592    0.000000    
0.852112    0.000000    0.021127    0.126761    
0.000000    0.570423    0.429577    0.000000    
0.760563    0.000000    0.000000    0.239437    
0.204225    0.021127    0.774648    0.000000    
Consensus sequence: HCAGRRVACASAG

Reserve complement motif
0.204225    0.774648    0.021127    0.000000    
0.239437    0.000000    0.000000    0.760563    
0.000000    0.429577    0.570423    0.000000    
0.126761    0.000000    0.021127    0.852112    
0.274648    0.098592    0.626760    0.000000    
0.014085    0.169014    0.232394    0.584507    
0.098592    0.253521    0.190141    0.457746    
0.056338    0.007042    0.394366    0.542254    
0.302817    0.584507    0.049296    0.063380    
0.309859    0.654930    0.000000    0.035211    
0.246479    0.000000    0.000000    0.753521    
0.084507    0.147887    0.654930    0.112676    
0.408451    0.274648    0.077465    0.239437    
Consensus sequence: CTSTGTBKMCTGH


************************************************************************ Best Matches for Motif ID 3 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00028        Tcfap2e_secondary                  Original Motif                          Original Motif                          Backward       1              13             0.044512       

Species: Mus musculus

Original motif
0.248591    0.214386    0.166769    0.370254    
0.416041    0.167262    0.218682    0.198015    
0.195301    0.542527    0.153042    0.109129    
0.240156    0.185228    0.255545    0.319071    
0.195809    0.247688    0.280778    0.275725    
0.271555    0.129776    0.497286    0.101382    
0.738080    0.057879    0.078760    0.125281    
0.728876    0.074205    0.092737    0.104182    
0.694380    0.084957    0.159476    0.061186    
0.665572    0.111592    0.131546    0.091289    
0.782384    0.059680    0.047525    0.110411    
0.769981    0.105692    0.056467    0.067860    
0.402932    0.087712    0.172674    0.336682    
0.409485    0.160886    0.229779    0.199850    
Consensus sequence: HDCDBRAAAAAADD

Reverse complement motif
0.199850    0.160886    0.229779    0.409485    
0.336682    0.087712    0.172674    0.402932    
0.067860    0.105692    0.056467    0.769981    
0.110411    0.059680    0.047525    0.782384    
0.091289    0.111592    0.131546    0.665572    
0.061186    0.084957    0.159476    0.694380    
0.104182    0.074205    0.092737    0.728876    
0.125281    0.057879    0.078760    0.738080    
0.271555    0.497286    0.129776    0.101382    
0.195809    0.280778    0.247688    0.275725    
0.319071    0.185228    0.255545    0.240156    
0.195301    0.153042    0.542527    0.109129    
0.198015    0.167262    0.218682    0.416041    
0.370254    0.214386    0.166769    0.248591    
Consensus sequence: DDTTTTTTMBDGDH

Alignment:
HDCDBRAAAAAADD
-HCAGRRVACASAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Reverse Complement                      Original Motif                          Forward        10             13             0.044879       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
---------CTSTGTBKMCTGH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00041        Foxj1_primary                      Reverse Complement                      Reverse Complement                      Backward       1              13             0.045455       

Species: Mus musculus

Original motif
0.446042    0.209997    0.124191    0.219770    
0.271534    0.218131    0.245258    0.265077    
0.368646    0.184693    0.168482    0.278180    
0.348384    0.034204    0.583335    0.034077    
0.040365    0.085618    0.013162    0.860855    
0.824790    0.156631    0.004063    0.014515    
0.835134    0.069381    0.003505    0.091980    
0.967572    0.009280    0.006259    0.016890    
0.009507    0.909577    0.004492    0.076424    
0.947956    0.006994    0.008177    0.036873    
0.599204    0.170666    0.065622    0.164508    
0.708795    0.035865    0.070557    0.184782    
0.303191    0.287145    0.184748    0.224917    
0.285550    0.184167    0.248662    0.281621    
0.235315    0.210836    0.254428    0.299421    
0.220038    0.158539    0.286552    0.334871    
Consensus sequence: HDHRTAAACAAAHDDD

Reverse complement motif
0.334871    0.158539    0.286552    0.220038    
0.299421    0.210836    0.254428    0.235315    
0.281621    0.184167    0.248662    0.285550    
0.224917    0.287145    0.184748    0.303191    
0.184782    0.035865    0.070557    0.708795    
0.164508    0.170666    0.065622    0.599204    
0.036873    0.006994    0.008177    0.947956    
0.009507    0.004492    0.909577    0.076424    
0.016890    0.009280    0.006259    0.967572    
0.091980    0.069381    0.003505    0.835134    
0.014515    0.156631    0.004063    0.824790    
0.860855    0.085618    0.013162    0.040365    
0.348384    0.583335    0.034204    0.034077    
0.278180    0.184693    0.168482    0.368646    
0.265077    0.218131    0.245258    0.271534    
0.219770    0.209997    0.124191    0.446042    
Consensus sequence: DDDHTTTGTTTAMHDH

Alignment:
DDDHTTTGTTTAMHDH
---CTSTGTBKMCTGH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00016        Sry_secondary                      Original Motif                          Original Motif                          Forward        1              13             0.048141       

Species: Mus musculus

Original motif
0.219740    0.291283    0.118755    0.370223    
0.242432    0.282700    0.205912    0.268956    
0.327415    0.133992    0.255532    0.283060    
0.263415    0.304333    0.213668    0.218583    
0.259356    0.177510    0.294274    0.268860    
0.315458    0.184947    0.444440    0.055155    
0.572256    0.199521    0.180616    0.047606    
0.881847    0.020818    0.032731    0.064603    
0.028134    0.863210    0.052977    0.055679    
0.921133    0.023179    0.036360    0.019328    
0.913642    0.029557    0.028830    0.027972    
0.131537    0.035078    0.033568    0.799817    
0.412204    0.069669    0.279439    0.238689    
0.247458    0.179342    0.390493    0.182707    
0.282951    0.233824    0.324889    0.158336    
0.176058    0.325159    0.163416    0.335366    
0.172201    0.210000    0.453746    0.164053    
Consensus sequence: HHDHDRAACAATDDVHV

Reverse complement motif
0.172201    0.453746    0.210000    0.164053    
0.335366    0.325159    0.163416    0.176058    
0.282951    0.324889    0.233824    0.158336    
0.247458    0.390493    0.179342    0.182707    
0.238689    0.069669    0.279439    0.412204    
0.799817    0.035078    0.033568    0.131537    
0.027972    0.029557    0.028830    0.913642    
0.019328    0.023179    0.036360    0.921133    
0.028134    0.052977    0.863210    0.055679    
0.064603    0.020818    0.032731    0.881847    
0.047606    0.199521    0.180616    0.572256    
0.315458    0.444440    0.184947    0.055155    
0.259356    0.294274    0.177510    0.268860    
0.263415    0.213668    0.304333    0.218583    
0.283060    0.133992    0.255532    0.327415    
0.242432    0.205912    0.282700    0.268956    
0.370223    0.291283    0.118755    0.219740    
Consensus sequence: VHVHDATTGTTMHDDDH

Alignment:
HHDHDRAACAATDDVHV
HCAGRRVACASAG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00077        Srf_secondary                      Original Motif                          Original Motif                          Backward       4              13             0.054571       

Species: Mus musculus

Original motif
0.162968    0.284828    0.440984    0.111220    
0.151392    0.200635    0.205316    0.442657    
0.267215    0.083669    0.192498    0.456618    
0.332771    0.180711    0.200027    0.286491    
0.509370    0.102954    0.242569    0.145107    
0.666262    0.077309    0.154466    0.101962    
0.737968    0.113335    0.100401    0.048296    
0.658878    0.141580    0.134033    0.065510    
0.766115    0.094051    0.069763    0.070072    
0.755621    0.088491    0.044802    0.111086    
0.749083    0.135917    0.047510    0.067490    
0.663231    0.176795    0.028134    0.131839    
0.553358    0.277659    0.038655    0.130328    
0.392578    0.314083    0.209844    0.083495    
0.198462    0.237132    0.239466    0.324940    
0.275121    0.210087    0.194779    0.320013    
0.287748    0.277395    0.142704    0.292154    
Consensus sequence: VBDDAAAAAAAAMVBHH

Reverse complement motif
0.292154    0.277395    0.142704    0.287748    
0.320013    0.210087    0.194779    0.275121    
0.324940    0.237132    0.239466    0.198462    
0.083495    0.314083    0.209844    0.392578    
0.130328    0.277659    0.038655    0.553358    
0.131839    0.176795    0.028134    0.663231    
0.067490    0.135917    0.047510    0.749083    
0.111086    0.088491    0.044802    0.755621    
0.070072    0.094051    0.069763    0.766115    
0.065510    0.141580    0.134033    0.658878    
0.048296    0.113335    0.100401    0.737968    
0.101962    0.077309    0.154466    0.666262    
0.145107    0.102954    0.242569    0.509370    
0.286491    0.180711    0.200027    0.332771    
0.456618    0.083669    0.192498    0.267215    
0.442657    0.200635    0.205316    0.151392    
0.162968    0.440984    0.284828    0.111220    
Consensus sequence: HHVBYTTTTTTTTDDVV

Alignment:
VBDDAAAAAAAAMVBHH
-HCAGRRVACASAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_secondary                     Original Motif                          Original Motif                          Forward        2              13             0.055307       

Species: Mus musculus

Original motif
0.337361    0.181848    0.282900    0.197891    
0.192382    0.237864    0.390655    0.179099    
0.134397    0.374785    0.355693    0.135126    
0.113675    0.477609    0.347988    0.060728    
0.187411    0.212669    0.392109    0.207811    
0.497832    0.111474    0.194855    0.195838    
0.526043    0.126712    0.214265    0.132981    
0.433876    0.180023    0.104860    0.281242    
0.539525    0.140192    0.113374    0.206909    
0.397301    0.176842    0.115802    0.310056    
0.529441    0.199807    0.148595    0.122158    
0.485035    0.166231    0.150350    0.198384    
0.532479    0.165910    0.177757    0.123854    
0.351189    0.173665    0.138509    0.336637    
0.260688    0.223764    0.189060    0.326488    
Consensus sequence: DVBSBDAHAHAHAHH

Reverse complement motif
0.326488    0.223764    0.189060    0.260688    
0.336637    0.173665    0.138509    0.351189    
0.123854    0.165910    0.177757    0.532479    
0.198384    0.166231    0.150350    0.485035    
0.122158    0.199807    0.148595    0.529441    
0.310056    0.176842    0.115802    0.397301    
0.206909    0.140192    0.113374    0.539525    
0.281242    0.180023    0.104860    0.433876    
0.132981    0.126712    0.214265    0.526043    
0.195838    0.111474    0.194855    0.497832    
0.187411    0.392109    0.212669    0.207811    
0.113675    0.347988    0.477609    0.060728    
0.134397    0.355693    0.374785    0.135126    
0.192382    0.390655    0.237864    0.179099    
0.197891    0.181848    0.282900    0.337361    
Consensus sequence: HHTHTHTHTDBSBVD

Alignment:
DVBSBDAHAHAHAHH
-HCAGRRVACASAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00091        Sox5_secondary                     Original Motif                          Original Motif                          Backward       1              13             0.056259       

Species: Mus musculus

Original motif
0.246579    0.230352    0.241808    0.281260    
0.352611    0.218685    0.156655    0.272048    
0.249499    0.128873    0.215834    0.405794    
0.007509    0.736577    0.087481    0.168432    
0.566572    0.059259    0.191060    0.183109    
0.149304    0.024062    0.164680    0.661954    
0.540015    0.279108    0.133921    0.046956    
0.755323    0.101222    0.038315    0.105140    
0.170385    0.095406    0.092958    0.641252    
0.097171    0.227591    0.065510    0.609729    
0.348302    0.171087    0.180187    0.300424    
0.602718    0.200284    0.114330    0.082668    
0.142864    0.302784    0.453243    0.101109    
0.252334    0.240815    0.258541    0.248309    
0.285758    0.214950    0.251057    0.248235    
Consensus sequence: DHDCATMATTDASDD

Reverse complement motif
0.248235    0.214950    0.251057    0.285758    
0.252334    0.258541    0.240815    0.248309    
0.142864    0.453243    0.302784    0.101109    
0.082668    0.200284    0.114330    0.602718    
0.300424    0.171087    0.180187    0.348302    
0.609729    0.227591    0.065510    0.097171    
0.641252    0.095406    0.092958    0.170385    
0.105140    0.101222    0.038315    0.755323    
0.046956    0.279108    0.133921    0.540015    
0.661954    0.024062    0.164680    0.149304    
0.183109    0.059259    0.191060    0.566572    
0.007509    0.087481    0.736577    0.168432    
0.405794    0.128873    0.215834    0.249499    
0.272048    0.218685    0.156655    0.352611    
0.281260    0.230352    0.241808    0.246579    
Consensus sequence: DHSTDAATYATGDHD

Alignment:
DHDCATMATTDASDD
--HCAGRRVACASAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00012        Bbx_secondary                      Reverse Complement                      Reverse Complement                      Forward        3              13             0.056498       

Species: Mus musculus

Original motif
0.198665    0.226452    0.178091    0.396792    
0.303100    0.271940    0.341965    0.082996    
0.485689    0.146789    0.061383    0.306139    
0.220175    0.274625    0.207682    0.297518    
0.163114    0.264054    0.262613    0.310218    
0.074776    0.044219    0.808086    0.072919    
0.061317    0.029647    0.094262    0.814774    
0.047386    0.103231    0.045272    0.804111    
0.815482    0.052556    0.087540    0.044422    
0.748924    0.178468    0.026304    0.046303    
0.162082    0.694436    0.035034    0.108448    
0.641927    0.140862    0.156431    0.060780    
0.142548    0.265771    0.421667    0.170014    
0.280841    0.232137    0.159362    0.327660    
0.167379    0.234928    0.287554    0.310139    
0.295358    0.126213    0.392756    0.185673    
0.281157    0.210000    0.368828    0.140015    
Consensus sequence: HVWHBGTTAACABHBDV

Reverse complement motif
0.281157    0.368828    0.210000    0.140015    
0.295358    0.392756    0.126213    0.185673    
0.310139    0.234928    0.287554    0.167379    
0.327660    0.232137    0.159362    0.280841    
0.142548    0.421667    0.265771    0.170014    
0.060780    0.140862    0.156431    0.641927    
0.162082    0.035034    0.694436    0.108448    
0.046303    0.178468    0.026304    0.748924    
0.044422    0.052556    0.087540    0.815482    
0.804111    0.103231    0.045272    0.047386    
0.814774    0.029647    0.094262    0.061317    
0.074776    0.808086    0.044219    0.072919    
0.310218    0.264054    0.262613    0.163114    
0.297518    0.274625    0.207682    0.220175    
0.306139    0.146789    0.061383    0.485689    
0.303100    0.341965    0.271940    0.082996    
0.396792    0.226452    0.178091    0.198665    
Consensus sequence: VHVHBTGTTAACVHWVH

Alignment:
VHVHBTGTTAACVHWVH
--CTSTGTBKMCTGH--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_secondary                    Original Motif                          Original Motif                          Backward       3              13             0.057107       

Species: Mus musculus

Original motif
0.337264    0.231140    0.283651    0.147945    
0.347118    0.236817    0.257338    0.158726    
0.431380    0.126811    0.187071    0.254738    
0.585753    0.089587    0.164350    0.160310    
0.590169    0.225841    0.088487    0.095503    
0.091374    0.098551    0.099596    0.710479    
0.790999    0.060485    0.081771    0.066745    
0.738945    0.032660    0.093144    0.135251    
0.071350    0.719067    0.064337    0.145246    
0.820757    0.079130    0.029431    0.070682    
0.603611    0.145951    0.097449    0.152989    
0.530021    0.143634    0.190469    0.135877    
0.231297    0.288099    0.276056    0.204548    
0.202920    0.232513    0.431635    0.132933    
0.198379    0.292889    0.308599    0.200133    
Consensus sequence: VVDAATAACAAAVVB

Reverse complement motif
0.198379    0.308599    0.292889    0.200133    
0.202920    0.431635    0.232513    0.132933    
0.231297    0.276056    0.288099    0.204548    
0.135877    0.143634    0.190469    0.530021    
0.152989    0.145951    0.097449    0.603611    
0.070682    0.079130    0.029431    0.820757    
0.071350    0.064337    0.719067    0.145246    
0.135251    0.032660    0.093144    0.738945    
0.066745    0.060485    0.081771    0.790999    
0.710479    0.098551    0.099596    0.091374    
0.095503    0.225841    0.088487    0.590169    
0.160310    0.089587    0.164350    0.585753    
0.254738    0.126811    0.187071    0.431380    
0.158726    0.236817    0.257338    0.347118    
0.147945    0.231140    0.283651    0.337264    
Consensus sequence: BVVTTTGTTATTDBB

Alignment:
VVDAATAACAAAVVB
HCAGRRVACASAG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_secondary                     Reverse Complement                      Reverse Complement                      Backward       3              13             0.057500       

Species: Mus musculus

Original motif
0.245114    0.425060    0.146128    0.183698    
0.080878    0.382058    0.241253    0.295810    
0.134088    0.097064    0.441002    0.327846    
0.129699    0.108033    0.111723    0.650545    
0.642754    0.112803    0.078081    0.166363    
0.145215    0.080417    0.074321    0.700046    
0.098028    0.054508    0.153100    0.694365    
0.687599    0.081954    0.149244    0.081203    
0.179924    0.253518    0.272465    0.294093    
0.628338    0.105355    0.083705    0.182602    
0.599410    0.156473    0.106087    0.138030    
0.555990    0.217439    0.055153    0.171418    
0.236101    0.368060    0.113260    0.282579    
0.352217    0.245799    0.158844    0.243140    
0.321581    0.223144    0.211146    0.244130    
Consensus sequence: HBKTATTABAAAHHH

Reverse complement motif
0.244130    0.223144    0.211146    0.321581    
0.243140    0.245799    0.158844    0.352217    
0.236101    0.113260    0.368060    0.282579    
0.171418    0.217439    0.055153    0.555990    
0.138030    0.156473    0.106087    0.599410    
0.182602    0.105355    0.083705    0.628338    
0.294093    0.253518    0.272465    0.179924    
0.081203    0.081954    0.149244    0.687599    
0.694365    0.054508    0.153100    0.098028    
0.700046    0.080417    0.074321    0.145215    
0.166363    0.112803    0.078081    0.642754    
0.650545    0.108033    0.111723    0.129699    
0.134088    0.441002    0.097064    0.327846    
0.080878    0.241253    0.382058    0.295810    
0.245114    0.146128    0.425060    0.183698    
Consensus sequence: HHDTTTVTAATAYBD

Alignment:
HHDTTTVTAATAYBD
CTSTGTBKMCTGH--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 4		Motif name: Motif 4

Original motif
0.450000    0.250000    0.000000    0.300000    
0.800000    0.000000    0.000000    0.200000    
0.850000    0.000000    0.150000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.750000    0.000000    0.250000    0.000000    
0.400000    0.300000    0.050000    0.250000    
0.850000    0.100000    0.000000    0.050000    
0.850000    0.150000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.100000    0.400000    0.000000    
0.350000    0.650000    0.000000    0.000000    
0.900000    0.000000    0.050000    0.050000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: HAAAAHAAARMAAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.050000    0.000000    0.050000    0.900000    
0.350000    0.000000    0.650000    0.000000    
0.000000    0.100000    0.400000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.150000    0.000000    0.850000    
0.050000    0.100000    0.000000    0.850000    
0.250000    0.300000    0.050000    0.400000    
0.000000    0.000000    0.250000    0.750000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.150000    0.850000    
0.200000    0.000000    0.000000    0.800000    
0.300000    0.250000    0.000000    0.450000    
Consensus sequence: TTTRKTTTHTTTTH


************************************************************************ Best Matches for Motif ID 4 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Reverse Complement                      Reverse Complement                      Forward        4              14             0.021226       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
BBVTTTGTTTACATTDD
---TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00077        Srf_secondary                      Original Motif                          Original Motif                          Backward       1              14             0.021645       

Species: Mus musculus

Original motif
0.162968    0.284828    0.440984    0.111220    
0.151392    0.200635    0.205316    0.442657    
0.267215    0.083669    0.192498    0.456618    
0.332771    0.180711    0.200027    0.286491    
0.509370    0.102954    0.242569    0.145107    
0.666262    0.077309    0.154466    0.101962    
0.737968    0.113335    0.100401    0.048296    
0.658878    0.141580    0.134033    0.065510    
0.766115    0.094051    0.069763    0.070072    
0.755621    0.088491    0.044802    0.111086    
0.749083    0.135917    0.047510    0.067490    
0.663231    0.176795    0.028134    0.131839    
0.553358    0.277659    0.038655    0.130328    
0.392578    0.314083    0.209844    0.083495    
0.198462    0.237132    0.239466    0.324940    
0.275121    0.210087    0.194779    0.320013    
0.287748    0.277395    0.142704    0.292154    
Consensus sequence: VBDDAAAAAAAAMVBHH

Reverse complement motif
0.292154    0.277395    0.142704    0.287748    
0.320013    0.210087    0.194779    0.275121    
0.324940    0.237132    0.239466    0.198462    
0.083495    0.314083    0.209844    0.392578    
0.130328    0.277659    0.038655    0.553358    
0.131839    0.176795    0.028134    0.663231    
0.067490    0.135917    0.047510    0.749083    
0.111086    0.088491    0.044802    0.755621    
0.070072    0.094051    0.069763    0.766115    
0.065510    0.141580    0.134033    0.658878    
0.048296    0.113335    0.100401    0.737968    
0.101962    0.077309    0.154466    0.666262    
0.145107    0.102954    0.242569    0.509370    
0.286491    0.180711    0.200027    0.332771    
0.456618    0.083669    0.192498    0.267215    
0.442657    0.200635    0.205316    0.151392    
0.162968    0.440984    0.284828    0.111220    
Consensus sequence: HHVBYTTTTTTTTDDVV

Alignment:
VBDDAAAAAAAAMVBHH
---HAAAAHAAARMAAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_primary                      Reverse Complement                      Reverse Complement                      Forward        4              14             0.021683       

Species: Mus musculus

Original motif
0.273456    0.257473    0.208488    0.260583    
0.338566    0.133379    0.306363    0.221693    
0.475488    0.192852    0.156858    0.174803    
0.506619    0.132646    0.170373    0.190362    
0.349042    0.127275    0.325924    0.197759    
0.303850    0.013619    0.678034    0.004497    
0.014136    0.015691    0.003073    0.967100    
0.913373    0.082928    0.001910    0.001789    
0.956294    0.017745    0.000584    0.025378    
0.987796    0.001685    0.004159    0.006360    
0.002288    0.814764    0.001427    0.181521    
0.986707    0.002688    0.003346    0.007259    
0.787378    0.065481    0.057961    0.089180    
0.572982    0.089910    0.066184    0.270924    
0.224167    0.339979    0.258886    0.176968    
0.268414    0.272007    0.239541    0.220038    
0.241771    0.394748    0.174273    0.189208    
Consensus sequence: HDHADGTAAACAAAVVH

Reverse complement motif
0.241771    0.174273    0.394748    0.189208    
0.268414    0.239541    0.272007    0.220038    
0.224167    0.258886    0.339979    0.176968    
0.270924    0.089910    0.066184    0.572982    
0.089180    0.065481    0.057961    0.787378    
0.007259    0.002688    0.003346    0.986707    
0.002288    0.001427    0.814764    0.181521    
0.006360    0.001685    0.004159    0.987796    
0.025378    0.017745    0.000584    0.956294    
0.001789    0.082928    0.001910    0.913373    
0.967100    0.015691    0.003073    0.014136    
0.303850    0.678034    0.013619    0.004497    
0.197759    0.127275    0.325924    0.349042    
0.190362    0.132646    0.170373    0.506619    
0.174803    0.192852    0.156858    0.475488    
0.221693    0.133379    0.306363    0.338566    
0.260583    0.257473    0.208488    0.273456    
Consensus sequence: DVVTTTGTTTACDTHDH

Alignment:
DVVTTTGTTTACDTHDH
---TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Reverse Complement                      Reverse Complement                      Backward       1              14             0.023208       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
VVVWTTGTTTAMATTWD
---TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Reverse Complement                      Reverse Complement                      Backward       1              14             0.025394       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
BDVTTTKTTTACWTWHH
---TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_secondary                    Reverse Complement                      Reverse Complement                      Forward        2              14             0.025736       

Species: Mus musculus

Original motif
0.240753    0.425595    0.141281    0.192371    
0.367715    0.247224    0.117353    0.267708    
0.489169    0.220343    0.113844    0.176644    
0.742256    0.042809    0.146704    0.068231    
0.078936    0.546144    0.032328    0.342592    
0.588419    0.293580    0.082117    0.035885    
0.913924    0.026256    0.050778    0.009042    
0.009007    0.565680    0.010683    0.414630    
0.947562    0.020878    0.018821    0.012739    
0.901384    0.021519    0.030204    0.046893    
0.077157    0.797900    0.026432    0.098511    
0.824314    0.040128    0.051910    0.083648    
0.254436    0.342235    0.143789    0.259539    
0.319400    0.338163    0.129746    0.212691    
0.231014    0.260719    0.169042    0.339225    
Consensus sequence: HHHAYAAYAACAHHH

Reverse complement motif
0.339225    0.260719    0.169042    0.231014    
0.319400    0.129746    0.338163    0.212691    
0.254436    0.143789    0.342235    0.259539    
0.083648    0.040128    0.051910    0.824314    
0.077157    0.026432    0.797900    0.098511    
0.046893    0.021519    0.030204    0.901384    
0.012739    0.020878    0.018821    0.947562    
0.009007    0.010683    0.565680    0.414630    
0.009042    0.026256    0.050778    0.913924    
0.035885    0.293580    0.082117    0.588419    
0.078936    0.032328    0.546144    0.342592    
0.068231    0.042809    0.146704    0.742256    
0.176644    0.220343    0.113844    0.489169    
0.267708    0.247224    0.117353    0.367715    
0.240753    0.141281    0.425595    0.192371    
Consensus sequence: HDDTGTTKTTKTHHD

Alignment:
HDDTGTTKTTKTHHD
-TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00037        Zfp105_primary                     Reverse Complement                      Reverse Complement                      Forward        2              14             0.028076       

Species: Mus musculus

Original motif
0.363104    0.182807    0.145232    0.308856    
0.419707    0.133742    0.222546    0.224005    
0.164481    0.418263    0.052397    0.364858    
0.715575    0.117639    0.064914    0.101872    
0.883836    0.026985    0.032584    0.056596    
0.558797    0.151280    0.033120    0.256803    
0.267037    0.403488    0.026746    0.302729    
0.939762    0.013627    0.034579    0.012032    
0.897072    0.009878    0.035642    0.057408    
0.305904    0.516040    0.055311    0.122746    
0.880940    0.027958    0.048350    0.042752    
0.710082    0.052464    0.040250    0.197204    
0.246712    0.125155    0.318627    0.309506    
0.429749    0.181755    0.176892    0.211603    
0.339643    0.097216    0.355250    0.207891    
Consensus sequence: HDYAAAHAAMAADHD

Reverse complement motif
0.339643    0.355250    0.097216    0.207891    
0.211603    0.181755    0.176892    0.429749    
0.246712    0.318627    0.125155    0.309506    
0.197204    0.052464    0.040250    0.710082    
0.042752    0.027958    0.048350    0.880940    
0.305904    0.055311    0.516040    0.122746    
0.057408    0.009878    0.035642    0.897072    
0.012032    0.013627    0.034579    0.939762    
0.267037    0.026746    0.403488    0.302729    
0.256803    0.151280    0.033120    0.558797    
0.056596    0.026985    0.032584    0.883836    
0.101872    0.117639    0.064914    0.715575    
0.164481    0.052397    0.418263    0.364858    
0.224005    0.133742    0.222546    0.419707    
0.308856    0.182807    0.145232    0.363104    
Consensus sequence: HHHTTRTTDTTTKDH

Alignment:
HHHTTRTTDTTTKDH
-TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_secondary                    Reverse Complement                      Reverse Complement                      Backward       1              14             0.028493       

Species: Mus musculus

Original motif
0.560226    0.121586    0.083231    0.234957    
0.318077    0.149137    0.179955    0.352831    
0.482497    0.118420    0.173594    0.225488    
0.200166    0.160901    0.191493    0.447440    
0.033691    0.569719    0.018901    0.377690    
0.638020    0.166545    0.021254    0.174181    
0.573953    0.105729    0.009308    0.311010    
0.890518    0.053364    0.013424    0.042694    
0.910758    0.028166    0.032648    0.028428    
0.013358    0.738707    0.023981    0.223953    
0.911783    0.018754    0.031898    0.037564    
0.702891    0.068940    0.076823    0.151346    
0.445507    0.320769    0.057216    0.176507    
0.587798    0.129586    0.140592    0.142024    
0.258981    0.330939    0.167334    0.242747    
0.362022    0.333796    0.145861    0.158320    
Consensus sequence: ADDDYAWAACAAMAHH

Reverse complement motif
0.158320    0.333796    0.145861    0.362022    
0.258981    0.167334    0.330939    0.242747    
0.142024    0.129586    0.140592    0.587798    
0.176507    0.320769    0.057216    0.445507    
0.151346    0.068940    0.076823    0.702891    
0.037564    0.018754    0.031898    0.911783    
0.013358    0.023981    0.738707    0.223953    
0.028428    0.028166    0.032648    0.910758    
0.042694    0.053364    0.013424    0.890518    
0.311010    0.105729    0.009308    0.573953    
0.174181    0.166545    0.021254    0.638020    
0.033691    0.018901    0.569719    0.377690    
0.447440    0.160901    0.191493    0.200166    
0.225488    0.118420    0.173594    0.482497    
0.352831    0.149137    0.179955    0.318077    
0.234957    0.121586    0.083231    0.560226    
Consensus sequence: HDTYTTGTTWTKDDDT

Alignment:
HDTYTTGTTWTKDDDT
--TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Reverse Complement                      Reverse Complement                      Forward        3              14             0.031537       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
HHBTTAATTGDTTYTH
--TTTRKTTTHTTTTH

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00090        Elf3_secondary                     Original Motif                          Original Motif                          Backward       1              14             0.032442       

Species: Mus musculus

Original motif
0.155083    0.152982    0.490906    0.201030    
0.123195    0.312681    0.220770    0.343354    
0.110252    0.131358    0.153983    0.604406    
0.216489    0.490160    0.101348    0.192003    
0.396130    0.292429    0.103252    0.208189    
0.634770    0.070898    0.070668    0.223664    
0.667102    0.099915    0.067576    0.165407    
0.625495    0.095579    0.039353    0.239573    
0.717478    0.093228    0.024737    0.164558    
0.729965    0.048628    0.024557    0.196850    
0.670909    0.118718    0.043692    0.166681    
0.689441    0.050145    0.038829    0.221584    
0.506735    0.159498    0.095635    0.238132    
0.406093    0.298915    0.149902    0.145090    
0.193913    0.282078    0.096706    0.427303    
0.272324    0.154790    0.262469    0.310417    
0.224484    0.458724    0.060144    0.256647    
Consensus sequence: DBTHHAAAAAAAAVHDH

Reverse complement motif
0.224484    0.060144    0.458724    0.256647    
0.310417    0.154790    0.262469    0.272324    
0.427303    0.282078    0.096706    0.193913    
0.145090    0.298915    0.149902    0.406093    
0.238132    0.159498    0.095635    0.506735    
0.221584    0.050145    0.038829    0.689441    
0.166681    0.118718    0.043692    0.670909    
0.196850    0.048628    0.024557    0.729965    
0.164558    0.093228    0.024737    0.717478    
0.239573    0.095579    0.039353    0.625495    
0.165407    0.099915    0.067576    0.667102    
0.223664    0.070898    0.070668    0.634770    
0.208189    0.292429    0.103252    0.396130    
0.216489    0.101348    0.490160    0.192003    
0.604406    0.131358    0.153983    0.110252    
0.343354    0.312681    0.220770    0.123195    
0.155083    0.490906    0.152982    0.201030    
Consensus sequence: DDHBTTTTTTTTHDAVH

Alignment:
DBTHHAAAAAAAAVHDH
---HAAAAHAAARMAAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 5		Motif name: Motif 5

Original motif
0.000000    0.812500    0.125000    0.062500    
0.375000    0.000000    0.000000    0.625000    
0.062500    0.000000    0.937500    0.000000    
0.562500    0.125000    0.187500    0.125000    
0.000000    0.000000    1.000000    0.000000    
0.062500    0.937500    0.000000    0.000000    
0.000000    0.937500    0.062500    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.625000    0.000000    0.375000    
0.000000    0.937500    0.062500    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.562500    0.000000    0.437500    
0.000000    0.125000    0.125000    0.750000    
0.062500    0.625000    0.000000    0.312500    
Consensus sequence: CWGAGCCAYCTYTC

Reserve complement motif
0.062500    0.000000    0.625000    0.312500    
0.750000    0.125000    0.125000    0.000000    
0.000000    0.000000    0.562500    0.437500    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.062500    0.937500    0.000000    
0.000000    0.000000    0.625000    0.375000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.062500    0.937500    0.000000    
0.062500    0.000000    0.937500    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.125000    0.125000    0.187500    0.562500    
0.062500    0.937500    0.000000    0.000000    
0.625000    0.000000    0.000000    0.375000    
0.000000    0.125000    0.812500    0.062500    
Consensus sequence: GAKAGKTGGCTCWG


************************************************************************ Best Matches for Motif ID 5 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_secondary                    Reverse Complement                      Original Motif                          Backward       2              14             0.012034       

Species: Mus musculus

Original motif
0.253642    0.252604    0.298295    0.195458    
0.112892    0.341342    0.341061    0.204704    
0.297430    0.215095    0.343350    0.144125    
0.241098    0.129378    0.421448    0.208076    
0.894201    0.007299    0.061032    0.037468    
0.052259    0.054303    0.856609    0.036829    
0.005074    0.015048    0.966734    0.013144    
0.003258    0.061529    0.002368    0.932845    
0.017531    0.005025    0.973155    0.004289    
0.116022    0.030172    0.047139    0.806667    
0.027749    0.602513    0.009946    0.359792    
0.018763    0.048982    0.794648    0.137608    
0.177116    0.459591    0.284833    0.078460    
0.121483    0.491485    0.148745    0.238287    
0.152590    0.245835    0.214717    0.386857    
0.221040    0.320773    0.249918    0.208270    
Consensus sequence: VBVDAGGTGTYGVBBV

Reverse complement motif
0.221040    0.249918    0.320773    0.208270    
0.386857    0.245835    0.214717    0.152590    
0.121483    0.148745    0.491485    0.238287    
0.177116    0.284833    0.459591    0.078460    
0.018763    0.794648    0.048982    0.137608    
0.027749    0.009946    0.602513    0.359792    
0.806667    0.030172    0.047139    0.116022    
0.017531    0.973155    0.005025    0.004289    
0.932845    0.061529    0.002368    0.003258    
0.005074    0.966734    0.015048    0.013144    
0.052259    0.856609    0.054303    0.036829    
0.037468    0.007299    0.061032    0.894201    
0.241098    0.421448    0.129378    0.208076    
0.297430    0.343350    0.215095    0.144125    
0.112892    0.341061    0.341342    0.204704    
0.253642    0.298295    0.252604    0.195458    
Consensus sequence: VVBVCKACACCTHVBV

Alignment:
VBVDAGGTGTYGVBBV
-GAKAGKTGGCTCWG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_primary                       Original Motif                          Original Motif                          Forward        2              14             0.013786       

Species: Mus musculus

Original motif
0.275207    0.211375    0.250277    0.263141    
0.135064    0.327571    0.217556    0.319808    
0.145659    0.242586    0.267179    0.344576    
0.656519    0.009712    0.315174    0.018595    
0.002265    0.004755    0.001656    0.991325    
0.041873    0.001128    0.955340    0.001659    
0.001306    0.974834    0.022215    0.001645    
0.001978    0.992066    0.002638    0.003317    
0.921032    0.072388    0.001237    0.005344    
0.582027    0.211694    0.115736    0.090542    
0.005990    0.927450    0.028306    0.038254    
0.027374    0.799879    0.053667    0.119080    
0.203510    0.191263    0.168997    0.436229    
0.402253    0.154087    0.291346    0.152314    
0.201201    0.414412    0.145330    0.239056    
0.241094    0.332661    0.143464    0.282781    
Consensus sequence: DBBATGCCAACCHVHH

Reverse complement motif
0.241094    0.143464    0.332661    0.282781    
0.201201    0.145330    0.414412    0.239056    
0.152314    0.154087    0.291346    0.402253    
0.436229    0.191263    0.168997    0.203510    
0.027374    0.053667    0.799879    0.119080    
0.005990    0.028306    0.927450    0.038254    
0.090542    0.211694    0.115736    0.582027    
0.005344    0.072388    0.001237    0.921032    
0.001978    0.002638    0.992066    0.003317    
0.001306    0.022215    0.974834    0.001645    
0.041873    0.955340    0.001128    0.001659    
0.991325    0.004755    0.001656    0.002265    
0.018595    0.009712    0.315174    0.656519    
0.344576    0.242586    0.267179    0.145659    
0.135064    0.217556    0.327571    0.319808    
0.263141    0.211375    0.250277    0.275207    
Consensus sequence: DDBHGGTTGGCATVBD

Alignment:
DBBATGCCAACCHVHH
-CWGAGCCAYCTYTC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_primary                       Reverse Complement                      Reverse Complement                      Forward        3              14             0.017234       

Species: Mus musculus

Original motif
0.218345    0.231533    0.152528    0.397594    
0.264604    0.126115    0.320860    0.288421    
0.117304    0.186844    0.172946    0.522906    
0.111929    0.277908    0.409084    0.201079    
0.343319    0.311376    0.123612    0.221692    
0.193354    0.374280    0.157338    0.275028    
0.166348    0.578991    0.130872    0.123789    
0.006937    0.931183    0.046809    0.015072    
0.255581    0.289587    0.125513    0.329319    
0.002582    0.012615    0.002782    0.982021    
0.850584    0.007973    0.140639    0.000803    
0.037792    0.002285    0.957277    0.002646    
0.009414    0.921481    0.001636    0.067469    
0.943403    0.000980    0.042401    0.013216    
0.991166    0.002931    0.003540    0.002364    
0.003651    0.987110    0.001106    0.008133    
0.208873    0.369705    0.319129    0.102292    
0.322535    0.186617    0.374187    0.116660    
0.326738    0.179486    0.226374    0.267402    
0.299697    0.185329    0.133025    0.381949    
0.300824    0.266836    0.096437    0.335904    
0.418443    0.191068    0.127183    0.263306    
0.386727    0.204062    0.126050    0.283161    
Consensus sequence: HDTBHHCCHTAGCAACVVDHHHH

Reverse complement motif
0.283161    0.204062    0.126050    0.386727    
0.263306    0.191068    0.127183    0.418443    
0.335904    0.266836    0.096437    0.300824    
0.381949    0.185329    0.133025    0.299697    
0.267402    0.179486    0.226374    0.326738    
0.322535    0.374187    0.186617    0.116660    
0.208873    0.319129    0.369705    0.102292    
0.003651    0.001106    0.987110    0.008133    
0.002364    0.002931    0.003540    0.991166    
0.013216    0.000980    0.042401    0.943403    
0.009414    0.001636    0.921481    0.067469    
0.037792    0.957277    0.002285    0.002646    
0.000803    0.007973    0.140639    0.850584    
0.982021    0.012615    0.002782    0.002582    
0.329319    0.289587    0.125513    0.255581    
0.006937    0.046809    0.931183    0.015072    
0.166348    0.130872    0.578991    0.123789    
0.193354    0.157338    0.374280    0.275028    
0.221692    0.311376    0.123612    0.343319    
0.111929    0.409084    0.277908    0.201079    
0.522906    0.186844    0.172946    0.117304    
0.264604    0.320860    0.126115    0.288421    
0.397594    0.231533    0.152528    0.218345    
Consensus sequence: HHHHDVVGTTGCTAHGGDHBAHH

Alignment:
HHHHDVVGTTGCTAHGGDHBAHH
--GAKAGKTGGCTCWG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00264        Hoxa1                              Reverse Complement                      Reverse Complement                      Forward        3              14             0.017454       

Species: Mus musculus

Original motif
0.189557    0.418057    0.185518    0.206868    
0.144310    0.147945    0.055643    0.652102    
0.268298    0.130092    0.466424    0.135186    
0.623662    0.095919    0.152772    0.127647    
0.266418    0.075174    0.613390    0.045018    
0.076341    0.532879    0.217968    0.172811    
0.006893    0.026113    0.001372    0.965621    
0.960763    0.031216    0.006700    0.001322    
0.990794    0.002636    0.002673    0.003897    
0.005841    0.002488    0.001753    0.989917    
0.002266    0.004876    0.007199    0.985660    
0.956522    0.001370    0.038129    0.003979    
0.280035    0.484469    0.167259    0.068237    
0.144906    0.449298    0.138450    0.267346    
0.107856    0.167050    0.411636    0.313458    
0.061823    0.304997    0.175127    0.458054    
Consensus sequence: HTDAGCTAATTAMHBY

Reverse complement motif
0.458054    0.304997    0.175127    0.061823    
0.107856    0.411636    0.167050    0.313458    
0.144906    0.138450    0.449298    0.267346    
0.280035    0.167259    0.484469    0.068237    
0.003979    0.001370    0.038129    0.956522    
0.985660    0.004876    0.007199    0.002266    
0.989917    0.002488    0.001753    0.005841    
0.003897    0.002636    0.002673    0.990794    
0.001322    0.031216    0.006700    0.960763    
0.965621    0.026113    0.001372    0.006893    
0.076341    0.217968    0.532879    0.172811    
0.266418    0.613390    0.075174    0.045018    
0.127647    0.095919    0.152772    0.623662    
0.268298    0.466424    0.130092    0.135186    
0.652102    0.147945    0.055643    0.144310    
0.189557    0.185518    0.418057    0.206868    
Consensus sequence: MBDRTAATTAGCTHAD

Alignment:
MBDRTAATTAGCTHAD
--GAKAGKTGGCTCWG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Reverse Complement                      Backward       7              14             0.018714       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
---CWGAGCCAYCTYTC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_secondary                   Reverse Complement                      Original Motif                          Forward        4              14             0.019840       

Species: Mus musculus

Original motif
0.296417    0.247522    0.206749    0.249312    
0.410113    0.201959    0.303149    0.084779    
0.267313    0.132645    0.452057    0.147985    
0.187929    0.136827    0.427628    0.247616    
0.198671    0.425254    0.234160    0.141915    
0.029244    0.953929    0.004092    0.012734    
0.954570    0.014314    0.018695    0.012421    
0.010025    0.055055    0.845504    0.089415    
0.874802    0.040849    0.069178    0.015172    
0.015084    0.010551    0.008736    0.965628    
0.012981    0.007192    0.965036    0.014791    
0.037724    0.016891    0.495632    0.449753    
0.021685    0.438927    0.056118    0.483270    
0.209872    0.365671    0.139706    0.284751    
0.151815    0.336912    0.289382    0.221891    
0.152995    0.262354    0.416434    0.168217    
0.227567    0.187603    0.447892    0.136938    
Consensus sequence: HVDDVCAGATGKYHBBV

Reverse complement motif
0.227567    0.447892    0.187603    0.136938    
0.152995    0.416434    0.262354    0.168217    
0.151815    0.289382    0.336912    0.221891    
0.209872    0.139706    0.365671    0.284751    
0.483270    0.438927    0.056118    0.021685    
0.037724    0.495632    0.016891    0.449753    
0.012981    0.965036    0.007192    0.014791    
0.965628    0.010551    0.008736    0.015084    
0.015172    0.040849    0.069178    0.874802    
0.010025    0.845504    0.055055    0.089415    
0.012421    0.014314    0.018695    0.954570    
0.029244    0.004092    0.953929    0.012734    
0.198671    0.234160    0.425254    0.141915    
0.187929    0.427628    0.136827    0.247616    
0.267313    0.452057    0.132645    0.147985    
0.084779    0.201959    0.303149    0.410113    
0.249312    0.247522    0.206749    0.296417    
Consensus sequence: VBBDMYCATCTGVHHBH

Alignment:
HVDDVCAGATGKYHBBV
---GAKAGKTGGCTCWG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_secondary                     Reverse Complement                      Reverse Complement                      Backward       1              14             0.020344       

Species: Mus musculus

Original motif
0.503814    0.061521    0.249336    0.185328    
0.254929    0.299710    0.169910    0.275451    
0.227652    0.250215    0.156720    0.365413    
0.204377    0.213835    0.124161    0.457627    
0.092364    0.094662    0.750364    0.062611    
0.026436    0.897855    0.038986    0.036722    
0.035250    0.085429    0.030496    0.848825    
0.819775    0.042925    0.032996    0.104304    
0.145642    0.810774    0.021549    0.022035    
0.031252    0.486827    0.015181    0.466740    
0.255316    0.101783    0.039552    0.603348    
0.466712    0.084471    0.436303    0.012514    
0.344321    0.408616    0.064696    0.182367    
0.422210    0.112319    0.109923    0.355548    
0.221064    0.283525    0.217775    0.277636    
0.280658    0.350363    0.211925    0.157054    
Consensus sequence: AHHHGCTACYTRMWHV

Reverse complement motif
0.280658    0.211925    0.350363    0.157054    
0.221064    0.217775    0.283525    0.277636    
0.355548    0.112319    0.109923    0.422210    
0.344321    0.064696    0.408616    0.182367    
0.012514    0.084471    0.436303    0.466712    
0.603348    0.101783    0.039552    0.255316    
0.031252    0.015181    0.486827    0.466740    
0.145642    0.021549    0.810774    0.022035    
0.104304    0.042925    0.032996    0.819775    
0.848825    0.085429    0.030496    0.035250    
0.026436    0.038986    0.897855    0.036722    
0.092364    0.750364    0.094662    0.062611    
0.457627    0.213835    0.124161    0.204377    
0.365413    0.250215    0.156720    0.227652    
0.254929    0.169910    0.299710    0.275451    
0.185328    0.061521    0.249336    0.503814    
Consensus sequence: VDWRKAKGTAGCHHDT

Alignment:
VDWRKAKGTAGCHHDT
--GAKAGKTGGCTCWG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Original Motif                          Reverse Complement                      Forward        7              14             0.020838       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
------CWGAGCCAYCTYTC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00095        Zfp691_secondary                   Reverse Complement                      Reverse Complement                      Forward        3              14             0.020945       

Species: Mus musculus

Original motif
0.236868    0.155338    0.295091    0.312703    
0.522782    0.133021    0.177386    0.166812    
0.192915    0.374870    0.221406    0.210809    
0.146546    0.199196    0.418035    0.236223    
0.454326    0.095049    0.151770    0.298855    
0.027956    0.023096    0.878335    0.070614    
0.916030    0.020358    0.039894    0.023717    
0.010595    0.938036    0.039415    0.011954    
0.007271    0.014948    0.007990    0.969792    
0.014291    0.964878    0.011126    0.009705    
0.154586    0.759294    0.050151    0.035969    
0.051021    0.268239    0.053410    0.627330    
0.158293    0.386843    0.113152    0.341713    
0.281766    0.184139    0.187916    0.346179    
0.292444    0.267259    0.241323    0.198974    
0.425732    0.262331    0.149076    0.162861    
0.205385    0.384164    0.267912    0.142538    
Consensus sequence: DABBWGACTCCTHDVHV

Reverse complement motif
0.205385    0.267912    0.384164    0.142538    
0.162861    0.262331    0.149076    0.425732    
0.198974    0.267259    0.241323    0.292444    
0.346179    0.184139    0.187916    0.281766    
0.158293    0.113152    0.386843    0.341713    
0.627330    0.268239    0.053410    0.051021    
0.154586    0.050151    0.759294    0.035969    
0.014291    0.011126    0.964878    0.009705    
0.969792    0.014948    0.007990    0.007271    
0.010595    0.039415    0.938036    0.011954    
0.023717    0.020358    0.039894    0.916030    
0.027956    0.878335    0.023096    0.070614    
0.298855    0.095049    0.151770    0.454326    
0.146546    0.418035    0.199196    0.236223    
0.192915    0.221406    0.374870    0.210809    
0.166812    0.133021    0.177386    0.522782    
0.312703    0.155338    0.295091    0.236868    
Consensus sequence: VHBDDAGGAGTCWBBTD

Alignment:
VHBDDAGGAGTCWBBTD
--GAKAGKTGGCTCWG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00228        Bapx1                              Reverse Complement                      Reverse Complement                      Forward        4              14             0.021205       

Species: Mus musculus

Original motif
0.301697    0.347856    0.239075    0.111372    
0.364458    0.225587    0.074842    0.335112    
0.228472    0.141747    0.139010    0.490770    
0.559532    0.164793    0.197557    0.078118    
0.506611    0.130882    0.113226    0.249281    
0.054222    0.680706    0.257913    0.007160    
0.001978    0.899030    0.000622    0.098369    
0.950561    0.002121    0.000888    0.046429    
0.037529    0.960534    0.000660    0.001278    
0.001571    0.005538    0.001403    0.991487    
0.001274    0.052527    0.000520    0.945679    
0.926306    0.006886    0.003823    0.062985    
0.638246    0.038639    0.145042    0.178072    
0.266452    0.337698    0.283972    0.111878    
0.307019    0.250170    0.243307    0.199504    
0.550380    0.190997    0.122920    0.135703    
0.187982    0.330356    0.168897    0.312765    
Consensus sequence: VHHAACCACTTAAVVAH

Reverse complement motif
0.187982    0.168897    0.330356    0.312765    
0.135703    0.190997    0.122920    0.550380    
0.199504    0.250170    0.243307    0.307019    
0.266452    0.283972    0.337698    0.111878    
0.178072    0.038639    0.145042    0.638246    
0.062985    0.006886    0.003823    0.926306    
0.945679    0.052527    0.000520    0.001274    
0.991487    0.005538    0.001403    0.001571    
0.037529    0.000660    0.960534    0.001278    
0.046429    0.002121    0.000888    0.950561    
0.001978    0.000622    0.899030    0.098369    
0.054222    0.257913    0.680706    0.007160    
0.249281    0.130882    0.113226    0.506611    
0.078118    0.164793    0.197557    0.559532    
0.490770    0.141747    0.139010    0.228472    
0.335112    0.225587    0.074842    0.364458    
0.301697    0.239075    0.347856    0.111372    
Consensus sequence: DTBVTTAAGTGGTTHHV

Alignment:
DTBVTTAAGTGGTTHHV
---GAKAGKTGGCTCWG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 6		Motif name: Motif 6

Original motif
0.000000    0.857143    0.000000    0.142857    
0.904762    0.000000    0.000000    0.095238    
0.000000    0.571429    0.428571    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.047619    0.380952    0.285714    0.285714    
0.523810    0.047619    0.238095    0.190476    
0.047619    0.809524    0.142857    0.000000    
0.476190    0.000000    0.000000    0.523810    
0.190476    0.333333    0.476190    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.666667    0.333333    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.857143    0.000000    0.000000    0.142857    
Consensus sequence: CASABACWSACACA

Reserve complement motif
0.142857    0.000000    0.000000    0.857143    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.333333    0.666667    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.190476    0.476190    0.333333    0.000000    
0.523810    0.000000    0.000000    0.476190    
0.047619    0.142857    0.809524    0.000000    
0.190476    0.047619    0.238095    0.523810    
0.047619    0.285714    0.380952    0.285714    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.428571    0.571429    0.000000    
0.095238    0.000000    0.000000    0.904762    
0.000000    0.000000    0.857143    0.142857    
Consensus sequence: TGTGTSWGTBTSTG


************************************************************************ Best Matches for Motif ID 6 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Original Motif                          Reverse Complement                      Forward        1              14             0.035705       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
CASABACWSACACA--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00000        Smad3_primary                      Reverse Complement                      Reverse Complement                      Backward       1              14             0.048229       

Species: Mus musculus

Original motif
0.282316    0.413385    0.114930    0.189369    
0.341654    0.135011    0.267943    0.255392    
0.399523    0.173081    0.168845    0.258551    
0.365086    0.196360    0.211856    0.226699    
0.243321    0.177839    0.224206    0.354635    
0.029873    0.808479    0.036309    0.125339    
0.004945    0.815465    0.040635    0.138955    
0.934557    0.058944    0.005027    0.001471    
0.005099    0.003998    0.986148    0.004755    
0.969304    0.020594    0.001929    0.008173    
0.008189    0.984816    0.004199    0.002795    
0.669579    0.012182    0.282153    0.036085    
0.130511    0.171241    0.334041    0.364207    
0.198982    0.289660    0.252392    0.258966    
0.423172    0.190978    0.164411    0.221440    
0.213519    0.287388    0.294414    0.204679    
0.371956    0.285061    0.150191    0.192792    
Consensus sequence: HDHDDCCAGACABBHVH

Reverse complement motif
0.192792    0.285061    0.150191    0.371956    
0.213519    0.294414    0.287388    0.204679    
0.221440    0.190978    0.164411    0.423172    
0.198982    0.252392    0.289660    0.258966    
0.364207    0.171241    0.334041    0.130511    
0.036085    0.012182    0.282153    0.669579    
0.008189    0.004199    0.984816    0.002795    
0.008173    0.020594    0.001929    0.969304    
0.005099    0.986148    0.003998    0.004755    
0.001471    0.058944    0.005027    0.934557    
0.004945    0.040635    0.815465    0.138955    
0.029873    0.036309    0.808479    0.125339    
0.354635    0.177839    0.224206    0.243321    
0.226699    0.196360    0.211856    0.365086    
0.258551    0.173081    0.168845    0.399523    
0.255392    0.135011    0.267943    0.341654    
0.282316    0.114930    0.413385    0.189369    
Consensus sequence: HVHBVTGTCTGGDDHDD

Alignment:
HVHBVTGTCTGGDDHDD
---TGTGTSWGTBTSTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_secondary                    Original Motif                          Original Motif                          Forward        1              14             0.049385       

Species: Mus musculus

Original motif
0.317700    0.247432    0.215783    0.219085    
0.352303    0.162638    0.230006    0.255053    
0.168554    0.301758    0.264712    0.264975    
0.529943    0.098389    0.260344    0.111324    
0.205868    0.388676    0.197345    0.208111    
0.033261    0.853848    0.009029    0.103862    
0.673657    0.279649    0.037915    0.008779    
0.496326    0.243318    0.006446    0.253910    
0.913038    0.037006    0.017077    0.032879    
0.948910    0.014865    0.012562    0.023664    
0.010919    0.862142    0.009524    0.117414    
0.955604    0.012514    0.012289    0.019594    
0.409400    0.131244    0.138666    0.320691    
0.465036    0.133548    0.065727    0.335688    
0.212413    0.103583    0.412294    0.271710    
0.182538    0.310768    0.349143    0.157550    
0.294233    0.219194    0.238798    0.247776    
Consensus sequence: HDBAHCAWAACADWDVD

Reverse complement motif
0.247776    0.219194    0.238798    0.294233    
0.182538    0.349143    0.310768    0.157550    
0.212413    0.412294    0.103583    0.271710    
0.335688    0.133548    0.065727    0.465036    
0.320691    0.131244    0.138666    0.409400    
0.019594    0.012514    0.012289    0.955604    
0.010919    0.009524    0.862142    0.117414    
0.023664    0.014865    0.012562    0.948910    
0.032879    0.037006    0.017077    0.913038    
0.253910    0.243318    0.006446    0.496326    
0.008779    0.279649    0.037915    0.673657    
0.033261    0.009029    0.853848    0.103862    
0.205868    0.197345    0.388676    0.208111    
0.111324    0.098389    0.260344    0.529943    
0.168554    0.264712    0.301758    0.264975    
0.255053    0.162638    0.230006    0.352303    
0.219085    0.247432    0.215783    0.317700    
Consensus sequence: DVHWDTGTTWTGDTBDH

Alignment:
HDBAHCAWAACADWDVD
CASABACWSACACA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_secondary                    Original Motif                          Original Motif                          Forward        1              14             0.050743       

Species: Mus musculus

Original motif
0.240753    0.425595    0.141281    0.192371    
0.367715    0.247224    0.117353    0.267708    
0.489169    0.220343    0.113844    0.176644    
0.742256    0.042809    0.146704    0.068231    
0.078936    0.546144    0.032328    0.342592    
0.588419    0.293580    0.082117    0.035885    
0.913924    0.026256    0.050778    0.009042    
0.009007    0.565680    0.010683    0.414630    
0.947562    0.020878    0.018821    0.012739    
0.901384    0.021519    0.030204    0.046893    
0.077157    0.797900    0.026432    0.098511    
0.824314    0.040128    0.051910    0.083648    
0.254436    0.342235    0.143789    0.259539    
0.319400    0.338163    0.129746    0.212691    
0.231014    0.260719    0.169042    0.339225    
Consensus sequence: HHHAYAAYAACAHHH

Reverse complement motif
0.339225    0.260719    0.169042    0.231014    
0.319400    0.129746    0.338163    0.212691    
0.254436    0.143789    0.342235    0.259539    
0.083648    0.040128    0.051910    0.824314    
0.077157    0.026432    0.797900    0.098511    
0.046893    0.021519    0.030204    0.901384    
0.012739    0.020878    0.018821    0.947562    
0.009007    0.010683    0.565680    0.414630    
0.009042    0.026256    0.050778    0.913924    
0.035885    0.293580    0.082117    0.588419    
0.078936    0.032328    0.546144    0.342592    
0.068231    0.042809    0.146704    0.742256    
0.176644    0.220343    0.113844    0.489169    
0.267708    0.247224    0.117353    0.367715    
0.240753    0.141281    0.425595    0.192371    
Consensus sequence: HDDTGTTKTTKTHHD

Alignment:
HHHAYAAYAACAHHH
CASABACWSACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Original Motif                          Original Motif                          Backward       9              14             0.052411       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
MWSMBAARRATGCDCABHATGD
CASABACWSACACA--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_primary                      Original Motif                          Original Motif                          Forward        1              14             0.053839       

Species: Mus musculus

Original motif
0.402634    0.249702    0.143705    0.203959    
0.709619    0.108953    0.130781    0.050647    
0.334232    0.077498    0.228818    0.359452    
0.131721    0.094794    0.234481    0.539005    
0.170102    0.237609    0.252464    0.339824    
0.244961    0.347304    0.228129    0.179606    
0.612141    0.132244    0.180110    0.075504    
0.472236    0.042388    0.234419    0.250957    
0.125213    0.007413    0.849788    0.017587    
0.702068    0.064216    0.141992    0.091724    
0.008657    0.038238    0.002959    0.950145    
0.007170    0.002244    0.986824    0.003763    
0.002862    0.979956    0.000711    0.016471    
0.971196    0.001954    0.011441    0.015409    
0.105575    0.031482    0.022836    0.840107    
0.031534    0.736742    0.032785    0.198939    
0.479153    0.347558    0.031799    0.141490    
0.056405    0.123140    0.023989    0.796466    
0.111194    0.195344    0.501360    0.192102    
0.376359    0.416820    0.072818    0.134004    
0.225111    0.249460    0.306563    0.218866    
0.405251    0.168478    0.108618    0.317653    
0.165386    0.191749    0.268604    0.374261    
Consensus sequence: HADTBVADGATGCATCMTGMVHB

Reverse complement motif
0.374261    0.191749    0.268604    0.165386    
0.317653    0.168478    0.108618    0.405251    
0.225111    0.306563    0.249460    0.218866    
0.376359    0.072818    0.416820    0.134004    
0.111194    0.501360    0.195344    0.192102    
0.796466    0.123140    0.023989    0.056405    
0.141490    0.347558    0.031799    0.479153    
0.031534    0.032785    0.736742    0.198939    
0.840107    0.031482    0.022836    0.105575    
0.015409    0.001954    0.011441    0.971196    
0.002862    0.000711    0.979956    0.016471    
0.007170    0.986824    0.002244    0.003763    
0.950145    0.038238    0.002959    0.008657    
0.091724    0.064216    0.141992    0.702068    
0.125213    0.849788    0.007413    0.017587    
0.250957    0.042388    0.234419    0.472236    
0.075504    0.132244    0.180110    0.612141    
0.244961    0.228129    0.347304    0.179606    
0.339824    0.237609    0.252464    0.170102    
0.539005    0.094794    0.234481    0.131721    
0.359452    0.077498    0.228818    0.334232    
0.050647    0.108953    0.130781    0.709619    
0.203959    0.249702    0.143705    0.402634    
Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Alignment:
HADTBVADGATGCATCMTGMVHB
CASABACWSACACA---------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_secondary                    Reverse Complement                      Reverse Complement                      Backward       1              14             0.053870       

Species: Mus musculus

Original motif
0.110412    0.519910    0.162398    0.207280    
0.470593    0.172893    0.115202    0.241311    
0.467126    0.160175    0.227365    0.145334    
0.196112    0.169855    0.079068    0.554965    
0.198275    0.671393    0.026094    0.104237    
0.793465    0.046739    0.110258    0.049538    
0.058204    0.867549    0.045603    0.028645    
0.079471    0.027484    0.025248    0.867797    
0.032277    0.065893    0.827417    0.074413    
0.080553    0.119144    0.585050    0.215253    
0.105106    0.470208    0.170921    0.253765    
0.690158    0.033925    0.171121    0.104796    
0.299543    0.155890    0.362586    0.181981    
0.343375    0.213360    0.180067    0.263198    
0.364819    0.149053    0.181128    0.305000    
0.247818    0.143948    0.217882    0.390352    
Consensus sequence: CHVTCACTGGBADHDD

Reverse complement motif
0.390352    0.143948    0.217882    0.247818    
0.305000    0.149053    0.181128    0.364819    
0.263198    0.213360    0.180067    0.343375    
0.299543    0.362586    0.155890    0.181981    
0.104796    0.033925    0.171121    0.690158    
0.105106    0.170921    0.470208    0.253765    
0.080553    0.585050    0.119144    0.215253    
0.032277    0.827417    0.065893    0.074413    
0.867797    0.027484    0.025248    0.079471    
0.058204    0.045603    0.867549    0.028645    
0.049538    0.046739    0.110258    0.793465    
0.198275    0.026094    0.671393    0.104237    
0.554965    0.169855    0.079068    0.196112    
0.145334    0.160175    0.227365    0.467126    
0.241311    0.172893    0.115202    0.470593    
0.110412    0.162398    0.519910    0.207280    
Consensus sequence: DDHHTBCCAGTGABHG

Alignment:
DDHHTBCCAGTGABHG
--TGTGTSWGTBTSTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00014        Sox17_secondary                    Original Motif                          Original Motif                          Forward        4              14             0.054146       

Species: Mus musculus

Original motif
0.216056    0.230834    0.399857    0.153253    
0.321065    0.233860    0.135741    0.309334    
0.166479    0.321423    0.209463    0.302635    
0.185647    0.499038    0.152355    0.162961    
0.416451    0.221510    0.168645    0.193395    
0.070777    0.581761    0.126392    0.221070    
0.764583    0.085635    0.031993    0.117789    
0.035294    0.112638    0.038664    0.813404    
0.153178    0.046321    0.056161    0.744340    
0.076540    0.825062    0.055409    0.042989    
0.764357    0.060365    0.119861    0.055417    
0.130143    0.178946    0.153266    0.537644    
0.402684    0.154010    0.357674    0.085632    
0.189784    0.349553    0.176965    0.283698    
0.475181    0.145276    0.256449    0.123094    
0.472286    0.151639    0.172736    0.203339    
0.215278    0.186804    0.213020    0.384898    
Consensus sequence: VHBHHCATTCATRHVDD

Reverse complement motif
0.384898    0.186804    0.213020    0.215278    
0.203339    0.151639    0.172736    0.472286    
0.123094    0.145276    0.256449    0.475181    
0.189784    0.176965    0.349553    0.283698    
0.085632    0.154010    0.357674    0.402684    
0.537644    0.178946    0.153266    0.130143    
0.055417    0.060365    0.119861    0.764357    
0.076540    0.055409    0.825062    0.042989    
0.744340    0.046321    0.056161    0.153178    
0.813404    0.112638    0.038664    0.035294    
0.117789    0.085635    0.031993    0.764583    
0.070777    0.126392    0.581761    0.221070    
0.193395    0.221510    0.168645    0.416451    
0.185647    0.152355    0.499038    0.162961    
0.166479    0.209463    0.321423    0.302635    
0.309334    0.233860    0.135741    0.321065    
0.216056    0.399857    0.230834    0.153253    
Consensus sequence: DDBDKATGAATGHDBHV

Alignment:
VHBHHCATTCATRHVDD
---CASABACWSACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Backward       1              14             0.054165       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
---------CASABACWSACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Reverse Complement                      Reverse Complement                      Backward       2              14             0.054503       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
--------TGTGTSWGTBTSTG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 7		Motif name: Motif 7

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAAATKCTATT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AATAGYATTTT


************************************************************************ Best Matches for Motif ID 7 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Reverse Complement                      Reverse Complement                      Backward       1              11             0.031478       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
HHBTTAATTGDTTYTH
-----AATAGYATTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00180        Hoxd13                             Original Motif                          Reverse Complement                      Backward       6              11             0.038891       

Species: Mus musculus

Original motif
0.279189    0.316791    0.190404    0.213616    
0.297705    0.175638    0.191020    0.335637    
0.333485    0.203858    0.174034    0.288623    
0.046444    0.540349    0.083237    0.329969    
0.016780    0.648667    0.003870    0.330682    
0.679959    0.116873    0.002745    0.200422    
0.936496    0.002013    0.026876    0.034615    
0.004741    0.008734    0.003861    0.982665    
0.904624    0.000869    0.005345    0.089162    
0.967883    0.002295    0.001003    0.028819    
0.980087    0.004768    0.002887    0.012258    
0.898523    0.041633    0.022776    0.037069    
0.246903    0.292446    0.069240    0.391411    
0.192528    0.300908    0.105655    0.400908    
0.247610    0.343317    0.190760    0.218313    
0.246702    0.253595    0.176298    0.323404    
Consensus sequence: HDHYYAATAAAAHHHH

Reverse complement motif
0.323404    0.253595    0.176298    0.246702    
0.247610    0.190760    0.343317    0.218313    
0.400908    0.300908    0.105655    0.192528    
0.391411    0.292446    0.069240    0.246903    
0.037069    0.041633    0.022776    0.898523    
0.012258    0.004768    0.002887    0.980087    
0.028819    0.002295    0.001003    0.967883    
0.089162    0.000869    0.005345    0.904624    
0.982665    0.008734    0.003861    0.004741    
0.034615    0.002013    0.026876    0.936496    
0.200422    0.116873    0.002745    0.679959    
0.016780    0.003870    0.648667    0.330682    
0.046444    0.083237    0.540349    0.329969    
0.288623    0.203858    0.174034    0.333485    
0.335637    0.175638    0.191020    0.297705    
0.279189    0.190404    0.316791    0.213616    
Consensus sequence: HDHHTTTTATTKKHDD

Alignment:
HDHHTTTTATTKKHDD
AAAATKCTATT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00016        Sry_primary                        Original Motif                          Reverse Complement                      Backward       5              11             0.039378       

Species: Mus musculus

Original motif
0.173554    0.244647    0.248735    0.333064    
0.317107    0.259459    0.118295    0.305139    
0.240662    0.181192    0.247535    0.330610    
0.431219    0.156611    0.141440    0.270729    
0.958925    0.011290    0.006882    0.022903    
0.049111    0.011065    0.012843    0.926981    
0.072130    0.013140    0.006115    0.908615    
0.917456    0.003886    0.069860    0.008798    
0.008798    0.069860    0.003886    0.917456    
0.908615    0.006115    0.013140    0.072130    
0.926981    0.012843    0.011065    0.049111    
0.022903    0.006882    0.011290    0.958925    
0.422656    0.136248    0.266001    0.175095    
0.336161    0.121946    0.177188    0.364705    
0.247357    0.097153    0.248929    0.406561    
0.246369    0.321670    0.222124    0.209837    
Consensus sequence: BHDHATTATAATDDDV

Reverse complement motif
0.246369    0.222124    0.321670    0.209837    
0.406561    0.097153    0.248929    0.247357    
0.364705    0.121946    0.177188    0.336161    
0.175095    0.136248    0.266001    0.422656    
0.958925    0.006882    0.011290    0.022903    
0.049111    0.012843    0.011065    0.926981    
0.072130    0.006115    0.013140    0.908615    
0.917456    0.069860    0.003886    0.008798    
0.008798    0.003886    0.069860    0.917456    
0.908615    0.013140    0.006115    0.072130    
0.926981    0.011065    0.012843    0.049111    
0.022903    0.011290    0.006882    0.958925    
0.270729    0.156611    0.141440    0.431219    
0.330610    0.181192    0.247535    0.240662    
0.305139    0.259459    0.118295    0.317107    
0.333064    0.244647    0.248735    0.173554    
Consensus sequence: VDDDATTATAATHDHV

Alignment:
VDDDATTATAATHDHV
-AAAATKCTATT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00121        Hoxd10                             Original Motif                          Reverse Complement                      Backward       6              11             0.039567       

Species: Mus musculus

Original motif
0.405345    0.293266    0.220907    0.080482    
0.398063    0.099034    0.333525    0.169378    
0.049753    0.190411    0.336789    0.423048    
0.243698    0.226261    0.324346    0.205696    
0.030873    0.549741    0.008321    0.411065    
0.714225    0.228092    0.020960    0.036723    
0.833992    0.010944    0.021918    0.133146    
0.008898    0.026169    0.008341    0.956591    
0.811684    0.004889    0.004751    0.178676    
0.952107    0.004322    0.004587    0.038984    
0.925365    0.008360    0.006811    0.059464    
0.850659    0.058250    0.065237    0.025855    
0.193369    0.242985    0.049515    0.514131    
0.266774    0.080601    0.239781    0.412844    
0.335522    0.125500    0.188170    0.350809    
0.407171    0.120540    0.187300    0.284989    
0.281181    0.242348    0.160247    0.316224    
Consensus sequence: VDKVYAATAAAATDDDH

Reverse complement motif
0.316224    0.242348    0.160247    0.281181    
0.284989    0.120540    0.187300    0.407171    
0.350809    0.125500    0.188170    0.335522    
0.412844    0.080601    0.239781    0.266774    
0.514131    0.242985    0.049515    0.193369    
0.025855    0.058250    0.065237    0.850659    
0.059464    0.008360    0.006811    0.925365    
0.038984    0.004322    0.004587    0.952107    
0.178676    0.004889    0.004751    0.811684    
0.956591    0.026169    0.008341    0.008898    
0.133146    0.010944    0.021918    0.833992    
0.036723    0.228092    0.020960    0.714225    
0.030873    0.008321    0.549741    0.411065    
0.243698    0.324346    0.226261    0.205696    
0.423048    0.190411    0.336789    0.049753    
0.169378    0.099034    0.333525    0.398063    
0.080482    0.293266    0.220907    0.405345    
Consensus sequence: HDDDATTTTATTKVRDB

Alignment:
HDDDATTTTATTKVRDB
-AAAATKCTATT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Original Motif                          Reverse Complement                      Forward        2              11             0.040325       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
WBHHHHHMDATTGTTHDHDVHH
-AAAATKCTATT----------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00038        Spdef_secondary                    Original Motif                          Original Motif                          Backward       3              11             0.040510       

Species: Mus musculus

Original motif
0.249693    0.170111    0.349462    0.230734    
0.417537    0.133630    0.158772    0.290062    
0.241753    0.248691    0.251987    0.257568    
0.351468    0.208028    0.178365    0.262139    
0.685401    0.048428    0.173290    0.092880    
0.105542    0.546881    0.114355    0.233222    
0.768958    0.014653    0.109429    0.106961    
0.035014    0.019209    0.022146    0.923631    
0.026411    0.928142    0.015617    0.029830    
0.022321    0.922707    0.029827    0.025145    
0.027563    0.088841    0.036549    0.847047    
0.773436    0.042478    0.008878    0.175207    
0.033877    0.188822    0.507219    0.270082    
0.285243    0.151973    0.056921    0.505863    
0.446072    0.155307    0.182833    0.215787    
0.302102    0.163570    0.398527    0.135801    
Consensus sequence: DDBHACATCCTAKWDV

Reverse complement motif
0.302102    0.398527    0.163570    0.135801    
0.215787    0.155307    0.182833    0.446072    
0.505863    0.151973    0.056921    0.285243    
0.033877    0.507219    0.188822    0.270082    
0.175207    0.042478    0.008878    0.773436    
0.847047    0.088841    0.036549    0.027563    
0.022321    0.029827    0.922707    0.025145    
0.026411    0.015617    0.928142    0.029830    
0.923631    0.019209    0.022146    0.035014    
0.106961    0.014653    0.109429    0.768958    
0.105542    0.114355    0.546881    0.233222    
0.092880    0.048428    0.173290    0.685401    
0.262139    0.208028    0.178365    0.351468    
0.257568    0.248691    0.251987    0.241753    
0.290062    0.133630    0.158772    0.417537    
0.249693    0.349462    0.170111    0.230734    
Consensus sequence: VDWYTAGGATGTHVDH

Alignment:
DDBHACATCCTAKWDV
---AAAATKCTATT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00191        Pou2f2                             Reverse Complement                      Reverse Complement                      Backward       2              11             0.040676       

Species: Mus musculus

Original motif
0.143441    0.268530    0.212213    0.375817    
0.267386    0.204043    0.174256    0.354316    
0.230583    0.148604    0.348518    0.272295    
0.127633    0.095216    0.030997    0.746154    
0.987721    0.002410    0.003474    0.006395    
0.003588    0.019280    0.002951    0.974182    
0.005844    0.003199    0.919428    0.071529    
0.004446    0.890754    0.005987    0.098813    
0.743311    0.001562    0.003671    0.251456    
0.893912    0.003008    0.014228    0.088852    
0.982166    0.003049    0.002708    0.012076    
0.027054    0.005668    0.023977    0.943301    
0.197736    0.122428    0.271727    0.408108    
0.496910    0.196661    0.105572    0.200857    
0.347287    0.129915    0.369062    0.153737    
0.409641    0.236160    0.215425    0.138774    
Consensus sequence: BHDTATGCAAATDHDV

Reverse complement motif
0.138774    0.236160    0.215425    0.409641    
0.347287    0.369062    0.129915    0.153737    
0.200857    0.196661    0.105572    0.496910    
0.408108    0.122428    0.271727    0.197736    
0.943301    0.005668    0.023977    0.027054    
0.012076    0.003049    0.002708    0.982166    
0.088852    0.003008    0.014228    0.893912    
0.251456    0.001562    0.003671    0.743311    
0.004446    0.005987    0.890754    0.098813    
0.005844    0.919428    0.003199    0.071529    
0.974182    0.019280    0.002951    0.003588    
0.006395    0.002410    0.003474    0.987721    
0.746154    0.095216    0.030997    0.127633    
0.230583    0.348518    0.148604    0.272295    
0.354316    0.204043    0.174256    0.267386    
0.375817    0.268530    0.212213    0.143441    
Consensus sequence: BHHDATTTGCATAHHV

Alignment:
BHHDATTTGCATAHHV
----AATAGYATTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00179        Pou2f3                             Reverse Complement                      Reverse Complement                      Forward        5              11             0.040705       

Species: Mus musculus

Original motif
0.163923    0.199410    0.196283    0.440385    
0.244854    0.217834    0.151102    0.386210    
0.185934    0.134662    0.398787    0.280618    
0.090352    0.119462    0.037157    0.753030    
0.990346    0.001754    0.001818    0.006083    
0.002450    0.011715    0.002154    0.983680    
0.002638    0.001114    0.938678    0.057569    
0.002016    0.911319    0.003818    0.082847    
0.740177    0.001090    0.002005    0.256728    
0.905415    0.001757    0.014660    0.078168    
0.987356    0.003190    0.001846    0.007608    
0.016362    0.004807    0.016312    0.962520    
0.153576    0.155400    0.290074    0.400950    
0.455331    0.242511    0.111337    0.190822    
0.293425    0.163528    0.350203    0.192844    
0.411723    0.243796    0.182398    0.162083    
Consensus sequence: BHDTATGCAAATBHDV

Reverse complement motif
0.162083    0.243796    0.182398    0.411723    
0.293425    0.350203    0.163528    0.192844    
0.190822    0.242511    0.111337    0.455331    
0.400950    0.155400    0.290074    0.153576    
0.962520    0.004807    0.016312    0.016362    
0.007608    0.003190    0.001846    0.987356    
0.078168    0.001757    0.014660    0.905415    
0.256728    0.001090    0.002005    0.740177    
0.002016    0.003818    0.911319    0.082847    
0.002638    0.938678    0.001114    0.057569    
0.983680    0.011715    0.002154    0.002450    
0.006083    0.001754    0.001818    0.990346    
0.753030    0.119462    0.037157    0.090352    
0.185934    0.398787    0.134662    0.280618    
0.386210    0.217834    0.151102    0.244854    
0.440385    0.199410    0.196283    0.163923    
Consensus sequence: BHHVATTTGCATAHHV

Alignment:
BHHVATTTGCATAHHV
----AATAGYATTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00023        Sox30_primary                      Reverse Complement                      Reverse Complement                      Backward       6              11             0.041387       

Species: Mus musculus

Original motif
0.372432    0.102933    0.322145    0.202491    
0.328072    0.182071    0.157347    0.332510    
0.289417    0.084511    0.292873    0.333198    
0.157571    0.227851    0.441662    0.172917    
0.716832    0.049010    0.201411    0.032747    
0.957368    0.003162    0.004402    0.035068    
0.003907    0.862678    0.009407    0.124008    
0.977231    0.007658    0.004263    0.010847    
0.976481    0.004510    0.015225    0.003784    
0.067568    0.004353    0.005071    0.923008    
0.158205    0.108442    0.467023    0.266330    
0.334549    0.091557    0.510241    0.063654    
0.456431    0.182602    0.150234    0.210732    
0.387485    0.241062    0.151504    0.219950    
0.188387    0.269857    0.176514    0.365242    
0.175680    0.243984    0.165833    0.414502    
Consensus sequence: DHDBAACAATDRHHHH

Reverse complement motif
0.414502    0.243984    0.165833    0.175680    
0.365242    0.269857    0.176514    0.188387    
0.219950    0.241062    0.151504    0.387485    
0.210732    0.182602    0.150234    0.456431    
0.334549    0.510241    0.091557    0.063654    
0.158205    0.467023    0.108442    0.266330    
0.923008    0.004353    0.005071    0.067568    
0.003784    0.004510    0.015225    0.976481    
0.010847    0.007658    0.004263    0.977231    
0.003907    0.009407    0.862678    0.124008    
0.035068    0.003162    0.004402    0.957368    
0.032747    0.049010    0.201411    0.716832    
0.157571    0.441662    0.227851    0.172917    
0.333198    0.084511    0.292873    0.289417    
0.332510    0.182071    0.157347    0.328072    
0.202491    0.102933    0.322145    0.372432    
Consensus sequence: HHHHMHATTGTTBDHD

Alignment:
HHHHMHATTGTTBDHD
AATAGYATTTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00166        Barhl1                             Original Motif                          Original Motif                          Backward       6              11             0.042744       

Species: Mus musculus

Original motif
0.467514    0.210142    0.140580    0.181765    
0.607254    0.124874    0.137587    0.130285    
0.280889    0.423565    0.125411    0.170135    
0.748944    0.067655    0.136796    0.046605    
0.723747    0.023732    0.218759    0.033762    
0.075749    0.608701    0.182230    0.133321    
0.005053    0.764340    0.000825    0.229781    
0.951342    0.006010    0.029473    0.013175    
0.890431    0.010111    0.000910    0.098548    
0.004275    0.001291    0.002113    0.992321    
0.005850    0.006608    0.000432    0.987110    
0.979314    0.000732    0.001996    0.017957    
0.546971    0.034786    0.326876    0.091366    
0.120451    0.194359    0.328320    0.356870    
0.274765    0.177491    0.231888    0.315855    
0.223913    0.420032    0.139775    0.216280    
Consensus sequence: HAHAACCAATTARBDH

Reverse complement motif
0.223913    0.139775    0.420032    0.216280    
0.315855    0.177491    0.231888    0.274765    
0.356870    0.194359    0.328320    0.120451    
0.091366    0.034786    0.326876    0.546971    
0.017957    0.000732    0.001996    0.979314    
0.987110    0.006608    0.000432    0.005850    
0.992321    0.001291    0.002113    0.004275    
0.098548    0.010111    0.000910    0.890431    
0.013175    0.006010    0.029473    0.951342    
0.005053    0.000825    0.764340    0.229781    
0.075749    0.182230    0.608701    0.133321    
0.033762    0.023732    0.218759    0.723747    
0.046605    0.067655    0.136796    0.748944    
0.280889    0.125411    0.423565    0.170135    
0.130285    0.124874    0.137587    0.607254    
0.181765    0.210142    0.140580    0.467514    
Consensus sequence: DDVKTAATTGGTTDTH

Alignment:
HAHAACCAATTARBDH
AAAATKCTATT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 8		Motif name: Motif 8

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TGAAAATSCTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.500000    0.500000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAGSATTTTCA


************************************************************************ Best Matches for Motif ID 8 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00179        Pou2f3                             Reverse Complement                      Reverse Complement                      Forward        1              11             0.017041       

Species: Mus musculus

Original motif
0.163923    0.199410    0.196283    0.440385    
0.244854    0.217834    0.151102    0.386210    
0.185934    0.134662    0.398787    0.280618    
0.090352    0.119462    0.037157    0.753030    
0.990346    0.001754    0.001818    0.006083    
0.002450    0.011715    0.002154    0.983680    
0.002638    0.001114    0.938678    0.057569    
0.002016    0.911319    0.003818    0.082847    
0.740177    0.001090    0.002005    0.256728    
0.905415    0.001757    0.014660    0.078168    
0.987356    0.003190    0.001846    0.007608    
0.016362    0.004807    0.016312    0.962520    
0.153576    0.155400    0.290074    0.400950    
0.455331    0.242511    0.111337    0.190822    
0.293425    0.163528    0.350203    0.192844    
0.411723    0.243796    0.182398    0.162083    
Consensus sequence: BHDTATGCAAATBHDV

Reverse complement motif
0.162083    0.243796    0.182398    0.411723    
0.293425    0.350203    0.163528    0.192844    
0.190822    0.242511    0.111337    0.455331    
0.400950    0.155400    0.290074    0.153576    
0.962520    0.004807    0.016312    0.016362    
0.007608    0.003190    0.001846    0.987356    
0.078168    0.001757    0.014660    0.905415    
0.256728    0.001090    0.002005    0.740177    
0.002016    0.003818    0.911319    0.082847    
0.002638    0.938678    0.001114    0.057569    
0.983680    0.011715    0.002154    0.002450    
0.006083    0.001754    0.001818    0.990346    
0.753030    0.119462    0.037157    0.090352    
0.185934    0.398787    0.134662    0.280618    
0.386210    0.217834    0.151102    0.244854    
0.440385    0.199410    0.196283    0.163923    
Consensus sequence: BHHVATTTGCATAHHV

Alignment:
BHHVATTTGCATAHHV
AAGSATTTTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00191        Pou2f2                             Reverse Complement                      Reverse Complement                      Backward       6              11             0.018680       

Species: Mus musculus

Original motif
0.143441    0.268530    0.212213    0.375817    
0.267386    0.204043    0.174256    0.354316    
0.230583    0.148604    0.348518    0.272295    
0.127633    0.095216    0.030997    0.746154    
0.987721    0.002410    0.003474    0.006395    
0.003588    0.019280    0.002951    0.974182    
0.005844    0.003199    0.919428    0.071529    
0.004446    0.890754    0.005987    0.098813    
0.743311    0.001562    0.003671    0.251456    
0.893912    0.003008    0.014228    0.088852    
0.982166    0.003049    0.002708    0.012076    
0.027054    0.005668    0.023977    0.943301    
0.197736    0.122428    0.271727    0.408108    
0.496910    0.196661    0.105572    0.200857    
0.347287    0.129915    0.369062    0.153737    
0.409641    0.236160    0.215425    0.138774    
Consensus sequence: BHDTATGCAAATDHDV

Reverse complement motif
0.138774    0.236160    0.215425    0.409641    
0.347287    0.369062    0.129915    0.153737    
0.200857    0.196661    0.105572    0.496910    
0.408108    0.122428    0.271727    0.197736    
0.943301    0.005668    0.023977    0.027054    
0.012076    0.003049    0.002708    0.982166    
0.088852    0.003008    0.014228    0.893912    
0.251456    0.001562    0.003671    0.743311    
0.004446    0.005987    0.890754    0.098813    
0.005844    0.919428    0.003199    0.071529    
0.974182    0.019280    0.002951    0.003588    
0.006395    0.002410    0.003474    0.987721    
0.746154    0.095216    0.030997    0.127633    
0.230583    0.348518    0.148604    0.272295    
0.354316    0.204043    0.174256    0.267386    
0.375817    0.268530    0.212213    0.143441    
Consensus sequence: BHHDATTTGCATAHHV

Alignment:
BHHDATTTGCATAHHV
AAGSATTTTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00044        Mafk_primary                       Original Motif                          Original Motif                          Backward       5              11             0.025968       

Species: Mus musculus

Original motif
0.245931    0.193118    0.199428    0.361523    
0.489106    0.078574    0.157014    0.275306    
0.744659    0.025715    0.102440    0.127186    
0.677561    0.030532    0.064134    0.227772    
0.621949    0.037389    0.034818    0.305844    
0.394828    0.100590    0.123295    0.381287    
0.040491    0.082155    0.007425    0.869929    
0.023425    0.010118    0.934562    0.031895    
0.108761    0.847231    0.005930    0.038078    
0.049587    0.025925    0.010216    0.914271    
0.048851    0.008289    0.821725    0.121135    
0.919694    0.018019    0.017253    0.045033    
0.013536    0.716811    0.037362    0.232291    
0.148097    0.100721    0.092846    0.658336    
0.185674    0.220883    0.168608    0.424835    
Consensus sequence: DWAAAWTGCTGACTH

Reverse complement motif
0.424835    0.220883    0.168608    0.185674    
0.658336    0.100721    0.092846    0.148097    
0.013536    0.037362    0.716811    0.232291    
0.045033    0.018019    0.017253    0.919694    
0.048851    0.821725    0.008289    0.121135    
0.914271    0.025925    0.010216    0.049587    
0.108761    0.005930    0.847231    0.038078    
0.023425    0.934562    0.010118    0.031895    
0.869929    0.082155    0.007425    0.040491    
0.381287    0.100590    0.123295    0.394828    
0.305844    0.037389    0.034818    0.621949    
0.227772    0.030532    0.064134    0.677561    
0.127186    0.025715    0.102440    0.744659    
0.275306    0.078574    0.157014    0.489106    
0.361523    0.193118    0.199428    0.245931    
Consensus sequence: HAGTCAGCAWTTTWD

Alignment:
DWAAAWTGCTGACTH
TGAAAATSCTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00389        Nkx3-1                             Original Motif                          Reverse Complement                      Forward        3              11             0.028143       

Species: Mus musculus

Original motif
0.230343    0.129202    0.214468    0.425986    
0.359358    0.121340    0.162570    0.356732    
0.227575    0.345211    0.162386    0.264827    
0.285383    0.076814    0.227804    0.409998    
0.760754    0.004039    0.216886    0.018321    
0.850903    0.006399    0.121474    0.021224    
0.007291    0.042579    0.943324    0.006806    
0.001583    0.137946    0.005502    0.854969    
0.854969    0.005502    0.137946    0.001583    
0.006806    0.943324    0.042579    0.007291    
0.021224    0.121474    0.006399    0.850903    
0.018321    0.216886    0.004039    0.760754    
0.691606    0.099604    0.051045    0.157745    
0.629431    0.051419    0.224807    0.094342    
0.570121    0.143534    0.137491    0.148853    
0.303064    0.084741    0.174009    0.438186    
0.202801    0.252788    0.303231    0.241180    
Consensus sequence: DDHDAAGTACTTAAADB

Reverse complement motif
0.202801    0.303231    0.252788    0.241180    
0.438186    0.084741    0.174009    0.303064    
0.148853    0.143534    0.137491    0.570121    
0.094342    0.051419    0.224807    0.629431    
0.157745    0.099604    0.051045    0.691606    
0.760754    0.216886    0.004039    0.018321    
0.850903    0.121474    0.006399    0.021224    
0.006806    0.042579    0.943324    0.007291    
0.001583    0.005502    0.137946    0.854969    
0.854969    0.137946    0.005502    0.001583    
0.007291    0.943324    0.042579    0.006806    
0.021224    0.006399    0.121474    0.850903    
0.018321    0.004039    0.216886    0.760754    
0.409998    0.076814    0.227804    0.285383    
0.227575    0.162386    0.345211    0.264827    
0.356732    0.121340    0.162570    0.359358    
0.425986    0.129202    0.214468    0.230343    
Consensus sequence: BDTTTAAGTACTTDDDD

Alignment:
BDTTTAAGTACTTDDDD
--TGAAAATSCTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00153        Pitx1                              Reverse Complement                      Original Motif                          Backward       3              11             0.028340       

Species: Mus musculus

Original motif
0.207371    0.246323    0.166934    0.379372    
0.115831    0.171040    0.352289    0.360841    
0.435857    0.190325    0.290547    0.083272    
0.281154    0.147141    0.422767    0.148938    
0.453996    0.050465    0.389240    0.106298    
0.187631    0.043211    0.734974    0.034185    
0.042788    0.001867    0.954016    0.001329    
0.006032    0.001055    0.986493    0.006420    
0.955163    0.042114    0.000355    0.002368    
0.003755    0.004760    0.000754    0.990731    
0.005515    0.009073    0.000267    0.985144    
0.913280    0.000712    0.001035    0.084973    
0.721584    0.024188    0.198396    0.055833    
0.334868    0.490003    0.058252    0.116877    
0.457303    0.071620    0.241947    0.229130    
0.478355    0.207860    0.143752    0.170032    
0.256961    0.248882    0.203598    0.290559    
Consensus sequence: HBVDRGGGATTAAMDHH

Reverse complement motif
0.290559    0.248882    0.203598    0.256961    
0.170032    0.207860    0.143752    0.478355    
0.229130    0.071620    0.241947    0.457303    
0.334868    0.058252    0.490003    0.116877    
0.055833    0.024188    0.198396    0.721584    
0.084973    0.000712    0.001035    0.913280    
0.985144    0.009073    0.000267    0.005515    
0.990731    0.004760    0.000754    0.003755    
0.002368    0.042114    0.000355    0.955163    
0.006032    0.986493    0.001055    0.006420    
0.042788    0.954016    0.001867    0.001329    
0.187631    0.734974    0.043211    0.034185    
0.106298    0.050465    0.389240    0.453996    
0.281154    0.422767    0.147141    0.148938    
0.083272    0.190325    0.290547    0.435857    
0.360841    0.171040    0.352289    0.115831    
0.379372    0.246323    0.166934    0.207371    
Consensus sequence: HHDRTTAATCCCKHBVH

Alignment:
HBVDRGGGATTAAMDHH
----AAGSATTTTCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00219        Cutl1_3494.2                       Original Motif                          Reverse Complement                      Forward        4              11             0.029424       

Species: Mus musculus

Original motif
0.233720    0.082903    0.208991    0.474386    
0.507651    0.192839    0.165657    0.133852    
0.416857    0.143747    0.322292    0.117104    
0.029365    0.184697    0.093857    0.692081    
0.144573    0.053738    0.658701    0.142989    
0.867186    0.053221    0.032993    0.046600    
0.042812    0.012598    0.006269    0.938320    
0.338930    0.056180    0.507869    0.097021    
0.938320    0.006269    0.012598    0.042812    
0.046600    0.032993    0.053221    0.867186    
0.142989    0.658701    0.053738    0.144573    
0.692081    0.093857    0.184697    0.029365    
0.260491    0.409202    0.153408    0.176899    
0.151407    0.065515    0.123404    0.659674    
0.492484    0.127826    0.190198    0.189491    
Consensus sequence: DAVTGATRATCAHTD

Reverse complement motif
0.189491    0.127826    0.190198    0.492484    
0.659674    0.065515    0.123404    0.151407    
0.260491    0.153408    0.409202    0.176899    
0.029365    0.093857    0.184697    0.692081    
0.142989    0.053738    0.658701    0.144573    
0.867186    0.032993    0.053221    0.046600    
0.042812    0.006269    0.012598    0.938320    
0.338930    0.507869    0.056180    0.097021    
0.938320    0.012598    0.006269    0.042812    
0.046600    0.053221    0.032993    0.867186    
0.144573    0.658701    0.053738    0.142989    
0.692081    0.184697    0.093857    0.029365    
0.117104    0.143747    0.322292    0.416857    
0.133852    0.192839    0.165657    0.507651    
0.474386    0.082903    0.208991    0.233720    
Consensus sequence: DADTGATMATCABTD

Alignment:
DADTGATMATCABTD
---TGAAAATSCTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00119        Nkx2-9                             Reverse Complement                      Reverse Complement                      Backward       2              11             0.030083       

Species: Mus musculus

Original motif
0.246057    0.081231    0.164694    0.508019    
0.148670    0.199380    0.121257    0.530694    
0.228864    0.152179    0.074714    0.544243    
0.315761    0.097229    0.242200    0.344810    
0.669183    0.002936    0.306075    0.021805    
0.870957    0.008933    0.091276    0.028835    
0.009834    0.028141    0.956928    0.005097    
0.001783    0.219475    0.004428    0.774314    
0.774314    0.004428    0.219475    0.001783    
0.005097    0.956928    0.028141    0.009834    
0.028835    0.091276    0.008933    0.870957    
0.021805    0.306075    0.002936    0.669183    
0.411282    0.172328    0.253633    0.162758    
0.794622    0.018789    0.052643    0.133945    
0.590680    0.124233    0.103686    0.181401    
0.241272    0.115001    0.214390    0.429337    
0.145724    0.359816    0.128911    0.365550    
Consensus sequence: TTTDAAGTACTTVAADH

Reverse complement motif
0.365550    0.359816    0.128911    0.145724    
0.429337    0.115001    0.214390    0.241272    
0.181401    0.124233    0.103686    0.590680    
0.133945    0.018789    0.052643    0.794622    
0.162758    0.172328    0.253633    0.411282    
0.669183    0.306075    0.002936    0.021805    
0.870957    0.091276    0.008933    0.028835    
0.005097    0.028141    0.956928    0.009834    
0.001783    0.004428    0.219475    0.774314    
0.774314    0.219475    0.004428    0.001783    
0.009834    0.956928    0.028141    0.005097    
0.028835    0.008933    0.091276    0.870957    
0.021805    0.002936    0.306075    0.669183    
0.344810    0.097229    0.242200    0.315761    
0.544243    0.152179    0.074714    0.228864    
0.530694    0.199380    0.121257    0.148670    
0.508019    0.081231    0.164694    0.246057    
Consensus sequence: HDTTBAAGTACTTDAAA

Alignment:
HDTTBAAGTACTTDAAA
-----AAGSATTTTCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00190        Nkx2-3                             Reverse Complement                      Reverse Complement                      Forward        5              11             0.030207       

Species: Mus musculus

Original motif
0.112665    0.429746    0.074033    0.383556    
0.100414    0.366064    0.135644    0.397877    
0.083598    0.139792    0.093637    0.682973    
0.157091    0.151456    0.101963    0.589490    
0.804069    0.003353    0.166845    0.025733    
0.880173    0.006767    0.091214    0.021845    
0.009561    0.018555    0.963617    0.008268    
0.001409    0.250669    0.002497    0.745425    
0.745425    0.002497    0.250669    0.001409    
0.008268    0.963617    0.018555    0.009561    
0.021845    0.091214    0.006767    0.880173    
0.025733    0.166845    0.003353    0.804069    
0.534325    0.173500    0.200024    0.092151    
0.581546    0.078557    0.226846    0.113051    
0.210085    0.208523    0.190951    0.390441    
0.231700    0.168938    0.404360    0.195002    
Consensus sequence: YYTTAAGTACTTAAHD

Reverse complement motif
0.231700    0.404360    0.168938    0.195002    
0.390441    0.208523    0.190951    0.210085    
0.113051    0.078557    0.226846    0.581546    
0.092151    0.173500    0.200024    0.534325    
0.804069    0.166845    0.003353    0.025733    
0.880173    0.091214    0.006767    0.021845    
0.008268    0.018555    0.963617    0.009561    
0.001409    0.002497    0.250669    0.745425    
0.745425    0.250669    0.002497    0.001409    
0.009561    0.963617    0.018555    0.008268    
0.021845    0.006767    0.091214    0.880173    
0.025733    0.003353    0.166845    0.804069    
0.589490    0.151456    0.101963    0.157091    
0.682973    0.139792    0.093637    0.083598    
0.397877    0.366064    0.135644    0.100414    
0.112665    0.074033    0.429746    0.383556    
Consensus sequence: HHTTAAGTACTTAAMK

Alignment:
HHTTAAGTACTTAAMK
----AAGSATTTTCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00038        Spdef_secondary                    Reverse Complement                      Reverse Complement                      Backward       2              11             0.031836       

Species: Mus musculus

Original motif
0.249693    0.170111    0.349462    0.230734    
0.417537    0.133630    0.158772    0.290062    
0.241753    0.248691    0.251987    0.257568    
0.351468    0.208028    0.178365    0.262139    
0.685401    0.048428    0.173290    0.092880    
0.105542    0.546881    0.114355    0.233222    
0.768958    0.014653    0.109429    0.106961    
0.035014    0.019209    0.022146    0.923631    
0.026411    0.928142    0.015617    0.029830    
0.022321    0.922707    0.029827    0.025145    
0.027563    0.088841    0.036549    0.847047    
0.773436    0.042478    0.008878    0.175207    
0.033877    0.188822    0.507219    0.270082    
0.285243    0.151973    0.056921    0.505863    
0.446072    0.155307    0.182833    0.215787    
0.302102    0.163570    0.398527    0.135801    
Consensus sequence: DDBHACATCCTAKWDV

Reverse complement motif
0.302102    0.398527    0.163570    0.135801    
0.215787    0.155307    0.182833    0.446072    
0.505863    0.151973    0.056921    0.285243    
0.033877    0.507219    0.188822    0.270082    
0.175207    0.042478    0.008878    0.773436    
0.847047    0.088841    0.036549    0.027563    
0.022321    0.029827    0.922707    0.025145    
0.026411    0.015617    0.928142    0.029830    
0.923631    0.019209    0.022146    0.035014    
0.106961    0.014653    0.109429    0.768958    
0.105542    0.114355    0.546881    0.233222    
0.092880    0.048428    0.173290    0.685401    
0.262139    0.208028    0.178365    0.351468    
0.257568    0.248691    0.251987    0.241753    
0.290062    0.133630    0.158772    0.417537    
0.249693    0.349462    0.170111    0.230734    
Consensus sequence: VDWYTAGGATGTHVDH

Alignment:
VDWYTAGGATGTHVDH
----AAGSATTTTCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00080        Gata5_primary                      Reverse Complement                      Reverse Complement                      Backward       6              11             0.033342       

Species: Mus musculus

Original motif
0.327856    0.194160    0.111452    0.366532    
0.399982    0.140479    0.170195    0.289344    
0.394490    0.145267    0.180539    0.279704    
0.409290    0.128785    0.262018    0.199907    
0.058803    0.632511    0.120239    0.188447    
0.180750    0.075071    0.002496    0.741683    
0.003552    0.002471    0.990756    0.003222    
0.990124    0.002186    0.003871    0.003820    
0.006574    0.003792    0.002332    0.987302    
0.961900    0.008809    0.000917    0.028374    
0.969948    0.005720    0.005836    0.018496    
0.045135    0.146533    0.781309    0.027024    
0.485705    0.128187    0.338666    0.047442    
0.419254    0.179521    0.274833    0.126393    
0.225481    0.195034    0.334267    0.245218    
0.478581    0.137289    0.161659    0.222471    
0.231990    0.219367    0.227085    0.321557    
Consensus sequence: HDDDCTGATAAGRVDDD

Reverse complement motif
0.321557    0.219367    0.227085    0.231990    
0.222471    0.137289    0.161659    0.478581    
0.225481    0.334267    0.195034    0.245218    
0.126393    0.179521    0.274833    0.419254    
0.047442    0.128187    0.338666    0.485705    
0.045135    0.781309    0.146533    0.027024    
0.018496    0.005720    0.005836    0.969948    
0.028374    0.008809    0.000917    0.961900    
0.987302    0.003792    0.002332    0.006574    
0.003820    0.002186    0.003871    0.990124    
0.003552    0.990756    0.002471    0.003222    
0.741683    0.075071    0.002496    0.180750    
0.058803    0.120239    0.632511    0.188447    
0.199907    0.128785    0.262018    0.409290    
0.279704    0.145267    0.180539    0.394490    
0.289344    0.140479    0.170195    0.399982    
0.366532    0.194160    0.111452    0.327856    
Consensus sequence: DDHBKCTTATCAGDDDH

Alignment:
DDHBKCTTATCAGDDDH
-AAGSATTTTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 9		Motif name: Motif 9

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AACATATTTTCA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TGAAAATATGTT


************************************************************************ Best Matches for Motif ID 9 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00250        Irx5                               Reverse Complement                      Original Motif                          Backward       6              12             0.025322       

Species: Mus musculus

Original motif
0.367463    0.110357    0.154650    0.367530    
0.435675    0.104106    0.185653    0.274566    
0.309411    0.166534    0.199426    0.324629    
0.330171    0.218393    0.207727    0.243708    
0.326575    0.006155    0.067531    0.599738    
0.934344    0.018417    0.011430    0.035810    
0.004941    0.961788    0.005465    0.027806    
0.940152    0.001107    0.011177    0.047564    
0.047564    0.011177    0.001107    0.940152    
0.027806    0.005465    0.961788    0.004941    
0.035810    0.011430    0.018417    0.934344    
0.599738    0.067531    0.006155    0.326575    
0.348557    0.239288    0.195868    0.216288    
0.376605    0.112652    0.210787    0.299957    
0.540552    0.074408    0.115847    0.269192    
0.210439    0.212707    0.245294    0.331559    
0.303891    0.113735    0.133741    0.448633    
Consensus sequence: DDDHWACATGTWHDABW

Reverse complement motif
0.448633    0.113735    0.133741    0.303891    
0.331559    0.212707    0.245294    0.210439    
0.269192    0.074408    0.115847    0.540552    
0.299957    0.112652    0.210787    0.376605    
0.216288    0.239288    0.195868    0.348557    
0.326575    0.067531    0.006155    0.599738    
0.934344    0.011430    0.018417    0.035810    
0.027806    0.961788    0.005465    0.004941    
0.940152    0.011177    0.001107    0.047564    
0.047564    0.001107    0.011177    0.940152    
0.004941    0.005465    0.961788    0.027806    
0.035810    0.018417    0.011430    0.934344    
0.599738    0.006155    0.067531    0.326575    
0.243708    0.218393    0.207727    0.330171    
0.324629    0.166534    0.199426    0.309411    
0.274566    0.104106    0.185653    0.435675    
0.367530    0.110357    0.154650    0.367463    
Consensus sequence: WVTDHWACATGTWHDDD

Alignment:
DDDHWACATGTWHDABW
TGAAAATATGTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00236        Irx2                               Reverse Complement                      Original Motif                          Forward        1              12             0.026734       

Species: Mus musculus

Original motif
0.394106    0.081399    0.100827    0.423668    
0.466343    0.126236    0.130788    0.276633    
0.319347    0.127772    0.257087    0.295794    
0.406891    0.139766    0.252855    0.200488    
0.219982    0.007245    0.029337    0.743436    
0.947280    0.014984    0.012651    0.025086    
0.003955    0.974386    0.007466    0.014192    
0.956452    0.001229    0.011361    0.030959    
0.030959    0.011361    0.001229    0.956452    
0.014192    0.007466    0.974386    0.003955    
0.025086    0.012651    0.014984    0.947280    
0.743436    0.029337    0.007245    0.219982    
0.404816    0.174236    0.206626    0.214322    
0.295979    0.194049    0.285864    0.224108    
0.399608    0.106063    0.123706    0.370623    
0.176973    0.196462    0.269004    0.357560    
0.339978    0.107593    0.083682    0.468747    
Consensus sequence: WDDDTACATGTADDWBW

Reverse complement motif
0.468747    0.107593    0.083682    0.339978    
0.357560    0.196462    0.269004    0.176973    
0.370623    0.106063    0.123706    0.399608    
0.224108    0.194049    0.285864    0.295979    
0.214322    0.174236    0.206626    0.404816    
0.219982    0.029337    0.007245    0.743436    
0.947280    0.012651    0.014984    0.025086    
0.014192    0.974386    0.007466    0.003955    
0.956452    0.011361    0.001229    0.030959    
0.030959    0.001229    0.011361    0.956452    
0.003955    0.007466    0.974386    0.014192    
0.025086    0.014984    0.012651    0.947280    
0.743436    0.007245    0.029337    0.219982    
0.200488    0.139766    0.252855    0.406891    
0.295794    0.127772    0.257087    0.319347    
0.276633    0.126236    0.130788    0.466343    
0.423668    0.081399    0.100827    0.394106    
Consensus sequence: WVWDDTACATGTADDDW

Alignment:
WVWDDTACATGTADDDW
TGAAAATATGTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00059        Arid5a_primary                     Reverse Complement                      Reverse Complement                      Backward       1              12             0.028582       

Species: Mus musculus

Original motif
0.177323    0.428313    0.229036    0.165328    
0.160222    0.324571    0.032445    0.482762    
0.852203    0.026733    0.073955    0.047109    
0.961249    0.003798    0.010118    0.024835    
0.056540    0.004008    0.007877    0.931575    
0.930331    0.005138    0.007138    0.057393    
0.019951    0.014189    0.006789    0.959072    
0.041132    0.087506    0.039025    0.832338    
0.233919    0.027935    0.519605    0.218541    
0.339577    0.352988    0.184316    0.123119    
0.285389    0.134719    0.268289    0.311602    
0.572143    0.078418    0.190434    0.159005    
0.285669    0.184068    0.262199    0.268064    
0.342799    0.230460    0.153946    0.272795    
Consensus sequence: VYAATATTGVDADH

Reverse complement motif
0.272795    0.230460    0.153946    0.342799    
0.268064    0.184068    0.262199    0.285669    
0.159005    0.078418    0.190434    0.572143    
0.311602    0.134719    0.268289    0.285389    
0.339577    0.184316    0.352988    0.123119    
0.233919    0.519605    0.027935    0.218541    
0.832338    0.087506    0.039025    0.041132    
0.959072    0.014189    0.006789    0.019951    
0.057393    0.005138    0.007138    0.930331    
0.931575    0.004008    0.007877    0.056540    
0.024835    0.003798    0.010118    0.961249    
0.047109    0.026733    0.073955    0.852203    
0.482762    0.324571    0.032445    0.160222    
0.177323    0.229036    0.428313    0.165328    
Consensus sequence: HDTDVCAATATTMV

Alignment:
HDTDVCAATATTMV
--TGAAAATATGTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00194        Irx4                               Reverse Complement                      Original Motif                          Forward        1              12             0.029742       

Species: Mus musculus

Original motif
0.448141    0.082257    0.141153    0.328449    
0.354010    0.179239    0.231684    0.235067    
0.300226    0.196857    0.192403    0.310514    
0.269192    0.228296    0.259727    0.242784    
0.325458    0.008737    0.038497    0.627307    
0.907258    0.013201    0.015875    0.063665    
0.010499    0.935216    0.007784    0.046501    
0.897816    0.001332    0.019141    0.081711    
0.081711    0.019141    0.001332    0.897816    
0.046501    0.007784    0.935216    0.010499    
0.063665    0.015875    0.013201    0.907258    
0.627307    0.038497    0.008737    0.325458    
0.563710    0.193341    0.098815    0.144134    
0.461314    0.079125    0.155617    0.303944    
0.513284    0.108439    0.126002    0.252275    
0.195487    0.320893    0.240955    0.242665    
0.385008    0.137791    0.149762    0.327440    
Consensus sequence: WDHDWACATGTWAWABD

Reverse complement motif
0.327440    0.137791    0.149762    0.385008    
0.195487    0.240955    0.320893    0.242665    
0.252275    0.108439    0.126002    0.513284    
0.303944    0.079125    0.155617    0.461314    
0.144134    0.193341    0.098815    0.563710    
0.325458    0.038497    0.008737    0.627307    
0.907258    0.015875    0.013201    0.063665    
0.046501    0.935216    0.007784    0.010499    
0.897816    0.019141    0.001332    0.081711    
0.081711    0.001332    0.019141    0.897816    
0.010499    0.007784    0.935216    0.046501    
0.063665    0.013201    0.015875    0.907258    
0.627307    0.008737    0.038497    0.325458    
0.242784    0.228296    0.259727    0.269192    
0.310514    0.196857    0.192403    0.300226    
0.235067    0.179239    0.231684    0.354010    
0.328449    0.082257    0.141153    0.448141    
Consensus sequence: DBTWTWACATGTWDHDW

Alignment:
WDHDWACATGTWAWABD
TGAAAATATGTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00223        Irx3_0920.1                        Reverse Complement                      Original Motif                          Forward        1              12             0.029857       

Species: Mus musculus

Original motif
0.369314    0.086226    0.205101    0.339359    
0.332302    0.160101    0.284255    0.223343    
0.291107    0.190306    0.229518    0.289068    
0.295366    0.218346    0.264868    0.221420    
0.224029    0.007037    0.047157    0.721777    
0.935123    0.014036    0.014073    0.036768    
0.004474    0.977496    0.005620    0.012411    
0.924256    0.001181    0.015903    0.058661    
0.058661    0.015903    0.001181    0.924256    
0.012411    0.005620    0.977496    0.004474    
0.036768    0.014073    0.014036    0.935123    
0.721777    0.047157    0.007037    0.224029    
0.449320    0.226936    0.166094    0.157650    
0.313283    0.070145    0.179424    0.437148    
0.522855    0.074913    0.105873    0.296358    
0.185897    0.387406    0.129138    0.297559    
0.276853    0.127952    0.189255    0.405940    
Consensus sequence: DDDDTACATGTAVWWHD

Reverse complement motif
0.405940    0.127952    0.189255    0.276853    
0.185897    0.129138    0.387406    0.297559    
0.296358    0.074913    0.105873    0.522855    
0.437148    0.070145    0.179424    0.313283    
0.157650    0.226936    0.166094    0.449320    
0.224029    0.047157    0.007037    0.721777    
0.935123    0.014073    0.014036    0.036768    
0.012411    0.977496    0.005620    0.004474    
0.924256    0.015903    0.001181    0.058661    
0.058661    0.001181    0.015903    0.924256    
0.004474    0.005620    0.977496    0.012411    
0.036768    0.014036    0.014073    0.935123    
0.721777    0.007037    0.047157    0.224029    
0.221420    0.218346    0.264868    0.295366    
0.289068    0.190306    0.229518    0.291107    
0.223343    0.160101    0.284255    0.332302    
0.339359    0.086226    0.205101    0.369314    
Consensus sequence: DDWWBTACATGTADDDD

Alignment:
DDDDTACATGTAVWWHD
TGAAAATATGTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00223        Irx3_2226.1                        Reverse Complement                      Original Motif                          Backward       6              12             0.029991       

Species: Mus musculus

Original motif
0.402654    0.107068    0.157939    0.332339    
0.381229    0.129621    0.243277    0.245872    
0.271699    0.148903    0.261472    0.317925    
0.278393    0.239730    0.235045    0.246831    
0.223980    0.006073    0.031227    0.738720    
0.952925    0.013731    0.008900    0.024444    
0.005380    0.972117    0.004335    0.018169    
0.945295    0.001062    0.011429    0.042214    
0.042214    0.011429    0.001062    0.945295    
0.018169    0.004335    0.972117    0.005380    
0.024444    0.008900    0.013731    0.952925    
0.738720    0.031227    0.006073    0.223980    
0.449438    0.199271    0.196335    0.154956    
0.266542    0.085070    0.155050    0.493338    
0.412619    0.114771    0.151818    0.320792    
0.175351    0.270485    0.162372    0.391791    
0.355721    0.130415    0.156633    0.357231    
Consensus sequence: DDDHTACATGTAVWDHD

Reverse complement motif
0.357231    0.130415    0.156633    0.355721    
0.391791    0.270485    0.162372    0.175351    
0.320792    0.114771    0.151818    0.412619    
0.493338    0.085070    0.155050    0.266542    
0.154956    0.199271    0.196335    0.449438    
0.223980    0.031227    0.006073    0.738720    
0.952925    0.008900    0.013731    0.024444    
0.018169    0.972117    0.004335    0.005380    
0.945295    0.011429    0.001062    0.042214    
0.042214    0.001062    0.011429    0.945295    
0.005380    0.004335    0.972117    0.018169    
0.024444    0.013731    0.008900    0.952925    
0.738720    0.006073    0.031227    0.223980    
0.246831    0.239730    0.235045    0.278393    
0.317925    0.148903    0.261472    0.271699    
0.245872    0.129621    0.243277    0.381229    
0.332339    0.107068    0.157939    0.402654    
Consensus sequence: DHDWBTACATGTAHDDD

Alignment:
DDDHTACATGTAVWDHD
TGAAAATATGTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00150        Irx6                               Reverse Complement                      Original Motif                          Backward       6              12             0.030326       

Species: Mus musculus

Original motif
0.356323    0.182245    0.120162    0.341271    
0.540549    0.133347    0.119342    0.206762    
0.401575    0.161837    0.116292    0.320296    
0.311151    0.164568    0.283941    0.240340    
0.198376    0.006596    0.030801    0.764227    
0.947120    0.014182    0.010382    0.028316    
0.006934    0.957983    0.007710    0.027373    
0.947314    0.001874    0.016190    0.034622    
0.034622    0.016190    0.001874    0.947314    
0.027373    0.007710    0.957983    0.006934    
0.028316    0.010382    0.014182    0.947120    
0.764227    0.030801    0.006596    0.198376    
0.372950    0.265937    0.182203    0.178910    
0.399793    0.101871    0.214477    0.283859    
0.478414    0.110202    0.114534    0.296850    
0.317990    0.215498    0.212041    0.254471    
0.131398    0.063397    0.070049    0.735156    
Consensus sequence: HAHDTACATGTAVDWHT

Reverse complement motif
0.735156    0.063397    0.070049    0.131398    
0.254471    0.215498    0.212041    0.317990    
0.296850    0.110202    0.114534    0.478414    
0.283859    0.101871    0.214477    0.399793    
0.178910    0.265937    0.182203    0.372950    
0.198376    0.030801    0.006596    0.764227    
0.947120    0.010382    0.014182    0.028316    
0.027373    0.957983    0.007710    0.006934    
0.947314    0.016190    0.001874    0.034622    
0.034622    0.001874    0.016190    0.947314    
0.006934    0.007710    0.957983    0.027373    
0.028316    0.014182    0.010382    0.947120    
0.764227    0.006596    0.030801    0.198376    
0.240340    0.164568    0.283941    0.311151    
0.320296    0.161837    0.116292    0.401575    
0.206762    0.133347    0.119342    0.540549    
0.341271    0.182245    0.120162    0.356323    
Consensus sequence: AHWDBTACATGTADHTH

Alignment:
HAHDTACATGTAVDWHT
TGAAAATATGTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00171        Msx3                               Reverse Complement                      Reverse Complement                      Backward       4              12             0.031600       

Species: Mus musculus

Original motif
0.317812    0.352438    0.231628    0.098123    
0.601471    0.133830    0.164947    0.099752    
0.399508    0.293187    0.098524    0.208781    
0.754569    0.054130    0.133622    0.057678    
0.770469    0.088090    0.086904    0.054537    
0.038689    0.673100    0.189096    0.099115    
0.004935    0.522968    0.000482    0.471615    
0.986316    0.001484    0.009222    0.002978    
0.991636    0.005079    0.001457    0.001828    
0.009156    0.001857    0.001081    0.987906    
0.013688    0.006588    0.000191    0.979532    
0.987635    0.000354    0.005166    0.006845    
0.701095    0.027828    0.154852    0.116224    
0.181731    0.184800    0.303458    0.330011    
0.224816    0.221032    0.182405    0.371747    
0.310539    0.208307    0.099081    0.382073    
Consensus sequence: VAHAACYAATTAABHH

Reverse complement motif
0.382073    0.208307    0.099081    0.310539    
0.371747    0.221032    0.182405    0.224816    
0.330011    0.184800    0.303458    0.181731    
0.116224    0.027828    0.154852    0.701095    
0.006845    0.000354    0.005166    0.987635    
0.979532    0.006588    0.000191    0.013688    
0.987906    0.001857    0.001081    0.009156    
0.001828    0.005079    0.001457    0.991636    
0.002978    0.001484    0.009222    0.986316    
0.004935    0.000482    0.522968    0.471615    
0.038689    0.189096    0.673100    0.099115    
0.054537    0.088090    0.086904    0.770469    
0.057678    0.054130    0.133622    0.754569    
0.208781    0.293187    0.098524    0.399508    
0.099752    0.133830    0.164947    0.601471    
0.317812    0.231628    0.352438    0.098123    
Consensus sequence: HHVTTAATTKGTTHTV

Alignment:
HHVTTAATTKGTTHTV
-TGAAAATATGTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00146        Pou6f1_3733.1                      Original Motif                          Reverse Complement                      Forward        4              12             0.033085       

Species: Mus musculus

Original motif
0.380020    0.211224    0.295981    0.112776    
0.349734    0.309602    0.075135    0.265530    
0.356459    0.226592    0.169646    0.247302    
0.229673    0.350174    0.311906    0.108247    
0.757838    0.046686    0.016036    0.179440    
0.014478    0.002669    0.000464    0.982389    
0.984156    0.000563    0.002241    0.013039    
0.992195    0.001470    0.001823    0.004511    
0.001610    0.002156    0.003120    0.993114    
0.008328    0.001327    0.802239    0.188106    
0.990155    0.004149    0.002815    0.002881    
0.004992    0.004117    0.965215    0.025676    
0.091361    0.290495    0.533319    0.084826    
0.164763    0.143217    0.028702    0.663317    
0.164550    0.118473    0.276288    0.440689    
0.152985    0.151847    0.413228    0.281941    
0.241185    0.447249    0.135344    0.176222    
Consensus sequence: VHHVATAATGAGSTDDH

Reverse complement motif
0.241185    0.135344    0.447249    0.176222    
0.152985    0.413228    0.151847    0.281941    
0.440689    0.118473    0.276288    0.164550    
0.663317    0.143217    0.028702    0.164763    
0.091361    0.533319    0.290495    0.084826    
0.004992    0.965215    0.004117    0.025676    
0.002881    0.004149    0.002815    0.990155    
0.008328    0.802239    0.001327    0.188106    
0.993114    0.002156    0.003120    0.001610    
0.004511    0.001470    0.001823    0.992195    
0.013039    0.000563    0.002241    0.984156    
0.982389    0.002669    0.000464    0.014478    
0.179440    0.046686    0.016036    0.757838    
0.229673    0.311906    0.350174    0.108247    
0.247302    0.226592    0.169646    0.356459    
0.265530    0.309602    0.075135    0.349734    
0.112776    0.211224    0.295981    0.380020    
Consensus sequence: DHDASCTCATTATVHHB

Alignment:
DHDASCTCATTATVHHB
---AACATATTTTCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00080        Gata5_primary                      Original Motif                          Reverse Complement                      Forward        1              12             0.033405       

Species: Mus musculus

Original motif
0.327856    0.194160    0.111452    0.366532    
0.399982    0.140479    0.170195    0.289344    
0.394490    0.145267    0.180539    0.279704    
0.409290    0.128785    0.262018    0.199907    
0.058803    0.632511    0.120239    0.188447    
0.180750    0.075071    0.002496    0.741683    
0.003552    0.002471    0.990756    0.003222    
0.990124    0.002186    0.003871    0.003820    
0.006574    0.003792    0.002332    0.987302    
0.961900    0.008809    0.000917    0.028374    
0.969948    0.005720    0.005836    0.018496    
0.045135    0.146533    0.781309    0.027024    
0.485705    0.128187    0.338666    0.047442    
0.419254    0.179521    0.274833    0.126393    
0.225481    0.195034    0.334267    0.245218    
0.478581    0.137289    0.161659    0.222471    
0.231990    0.219367    0.227085    0.321557    
Consensus sequence: HDDDCTGATAAGRVDDD

Reverse complement motif
0.321557    0.219367    0.227085    0.231990    
0.222471    0.137289    0.161659    0.478581    
0.225481    0.334267    0.195034    0.245218    
0.126393    0.179521    0.274833    0.419254    
0.047442    0.128187    0.338666    0.485705    
0.045135    0.781309    0.146533    0.027024    
0.018496    0.005720    0.005836    0.969948    
0.028374    0.008809    0.000917    0.961900    
0.987302    0.003792    0.002332    0.006574    
0.003820    0.002186    0.003871    0.990124    
0.003552    0.990756    0.002471    0.003222    
0.741683    0.075071    0.002496    0.180750    
0.058803    0.120239    0.632511    0.188447    
0.199907    0.128785    0.262018    0.409290    
0.279704    0.145267    0.180539    0.394490    
0.289344    0.140479    0.170195    0.399982    
0.366532    0.194160    0.111452    0.327856    
Consensus sequence: DDHBKCTTATCAGDDDH

Alignment:
DDHBKCTTATCAGDDDH
AACATATTTTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 10		Motif name: Motif 10

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.500000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAAMATTGTTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAACAATYTTT


************************************************************************ Best Matches for Motif ID 10 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00114        Homez                              Original Motif                          Original Motif                          Backward       6              11             0.014898       

Species: Mus musculus

Original motif
0.585235    0.056880    0.174898    0.182987    
0.344783    0.171238    0.144379    0.339600    
0.496888    0.112442    0.086669    0.304001    
0.457408    0.134777    0.032789    0.375026    
0.342717    0.420568    0.171418    0.065297    
0.872988    0.030946    0.004203    0.091862    
0.006581    0.013120    0.006495    0.973804    
0.036193    0.946961    0.004377    0.012469    
0.014767    0.005226    0.966106    0.013901    
0.208700    0.008264    0.021875    0.761161    
0.037957    0.018882    0.028895    0.914266    
0.157997    0.026546    0.021365    0.794092    
0.139814    0.136272    0.117987    0.605927    
0.125467    0.233302    0.183071    0.458161    
0.523941    0.191122    0.050126    0.234811    
0.374984    0.049392    0.291831    0.283793    
0.268235    0.165772    0.308515    0.257477    
Consensus sequence: AHWWMATCGTTTTBADD

Reverse complement motif
0.268235    0.308515    0.165772    0.257477    
0.283793    0.049392    0.291831    0.374984    
0.234811    0.191122    0.050126    0.523941    
0.458161    0.233302    0.183071    0.125467    
0.605927    0.136272    0.117987    0.139814    
0.794092    0.026546    0.021365    0.157997    
0.914266    0.018882    0.028895    0.037957    
0.761161    0.008264    0.021875    0.208700    
0.014767    0.966106    0.005226    0.013901    
0.036193    0.004377    0.946961    0.012469    
0.973804    0.013120    0.006495    0.006581    
0.091862    0.030946    0.004203    0.872988    
0.342717    0.171418    0.420568    0.065297    
0.375026    0.134777    0.032789    0.457408    
0.304001    0.112442    0.086669    0.496888    
0.339600    0.171238    0.144379    0.344783    
0.182987    0.056880    0.174898    0.585235    
Consensus sequence: HDTVAAAACGATRWWHT

Alignment:
AHWWMATCGTTTTBADD
-AAAMATTGTTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00096        Sox13_primary                      Original Motif                          Reverse Complement                      Backward       5              11             0.015472       

Species: Mus musculus

Original motif
0.269275    0.121320    0.165706    0.443700    
0.188801    0.239798    0.175798    0.395603    
0.368195    0.140376    0.162749    0.328680    
0.497992    0.105708    0.282795    0.113505    
0.130964    0.090292    0.620010    0.158734    
0.825318    0.023531    0.125342    0.025809    
0.959293    0.007648    0.010682    0.022377    
0.019733    0.898543    0.014756    0.066968    
0.943830    0.005894    0.014484    0.035792    
0.949658    0.010125    0.029732    0.010485    
0.038214    0.025063    0.006015    0.930708    
0.465769    0.016866    0.079467    0.437898    
0.416082    0.086340    0.115778    0.381801    
0.356556    0.103268    0.179331    0.360845    
0.206830    0.204618    0.120034    0.468518    
0.302958    0.164260    0.071574    0.461209    
Consensus sequence: DHDRGAACAATWWDHW

Reverse complement motif
0.461209    0.164260    0.071574    0.302958    
0.468518    0.204618    0.120034    0.206830    
0.360845    0.103268    0.179331    0.356556    
0.381801    0.086340    0.115778    0.416082    
0.437898    0.016866    0.079467    0.465769    
0.930708    0.025063    0.006015    0.038214    
0.010485    0.010125    0.029732    0.949658    
0.035792    0.005894    0.014484    0.943830    
0.019733    0.014756    0.898543    0.066968    
0.022377    0.007648    0.010682    0.959293    
0.025809    0.023531    0.125342    0.825318    
0.130964    0.620010    0.090292    0.158734    
0.113505    0.105708    0.282795    0.497992    
0.328680    0.140376    0.162749    0.368195    
0.395603    0.239798    0.175798    0.188801    
0.443700    0.121320    0.165706    0.269275    
Consensus sequence: WHDWWATTGTTCKDHD

Alignment:
WHDWWATTGTTCKDHD
-AAAMATTGTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00064        Sox18_primary                      Reverse Complement                      Reverse Complement                      Backward       1              11             0.020090       

Species: Mus musculus

Original motif
0.171923    0.236711    0.194037    0.397329    
0.365499    0.126080    0.115062    0.393358    
0.154238    0.330371    0.213820    0.301571    
0.411934    0.286682    0.023094    0.278290    
0.925907    0.006960    0.008324    0.058809    
0.020208    0.014069    0.008364    0.957359    
0.019255    0.004244    0.009748    0.966753    
0.109433    0.025833    0.844558    0.020176    
0.053352    0.006877    0.015312    0.924459    
0.107006    0.077857    0.051283    0.763854    
0.208320    0.284484    0.245065    0.262131    
0.230912    0.143849    0.075255    0.549985    
0.374917    0.276156    0.167160    0.181766    
0.477406    0.100035    0.175575    0.246983    
0.375092    0.278435    0.139104    0.207369    
0.352086    0.238643    0.148396    0.260874    
Consensus sequence: BWBHATTGTTBTHDHH

Reverse complement motif
0.260874    0.238643    0.148396    0.352086    
0.207369    0.278435    0.139104    0.375092    
0.246983    0.100035    0.175575    0.477406    
0.181766    0.276156    0.167160    0.374917    
0.549985    0.143849    0.075255    0.230912    
0.208320    0.245065    0.284484    0.262131    
0.763854    0.077857    0.051283    0.107006    
0.924459    0.006877    0.015312    0.053352    
0.109433    0.844558    0.025833    0.020176    
0.966753    0.004244    0.009748    0.019255    
0.957359    0.014069    0.008364    0.020208    
0.058809    0.006960    0.008324    0.925907    
0.278290    0.286682    0.023094    0.411934    
0.154238    0.213820    0.330371    0.301571    
0.393358    0.126080    0.115062    0.365499    
0.397329    0.236711    0.194037    0.171923    
Consensus sequence: HHDHABAACAATHBWV

Alignment:
HHDHABAACAATHBWV
-----AAACAATYTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_secondary                     Reverse Complement                      Reverse Complement                      Backward       3              11             0.020377       

Species: Mus musculus

Original motif
0.215023    0.248815    0.405446    0.130716    
0.268935    0.237160    0.296763    0.197142    
0.466167    0.161620    0.117910    0.254304    
0.414138    0.111006    0.235587    0.239269    
0.428152    0.102177    0.293860    0.175812    
0.787401    0.005828    0.171310    0.035462    
0.925552    0.010602    0.040811    0.023035    
0.010733    0.020900    0.013415    0.954952    
0.021318    0.013984    0.008294    0.956404    
0.120732    0.028204    0.837597    0.013468    
0.098711    0.011718    0.010021    0.879550    
0.131661    0.240511    0.090087    0.537740    
0.341627    0.204369    0.243902    0.210101    
0.234383    0.267102    0.292974    0.205541    
0.290324    0.095769    0.424669    0.189238    
0.308102    0.178524    0.283338    0.230036    
0.446441    0.155978    0.209267    0.188314    
Consensus sequence: VVHDDAATTGTTDVDDD

Reverse complement motif
0.188314    0.155978    0.209267    0.446441    
0.230036    0.178524    0.283338    0.308102    
0.290324    0.424669    0.095769    0.189238    
0.234383    0.292974    0.267102    0.205541    
0.210101    0.204369    0.243902    0.341627    
0.537740    0.240511    0.090087    0.131661    
0.879550    0.011718    0.010021    0.098711    
0.120732    0.837597    0.028204    0.013468    
0.956404    0.013984    0.008294    0.021318    
0.954952    0.020900    0.013415    0.010733    
0.023035    0.010602    0.040811    0.925552    
0.035462    0.005828    0.171310    0.787401    
0.175812    0.102177    0.293860    0.428152    
0.239269    0.111006    0.235587    0.414138    
0.254304    0.161620    0.117910    0.466167    
0.268935    0.296763    0.237160    0.197142    
0.215023    0.405446    0.248815    0.130716    
Consensus sequence: DDHVDAACAATTDDHVV

Alignment:
DDHVDAACAATTDDHVV
----AAACAATYTTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00051        Sox8_primary                       Reverse Complement                      Reverse Complement                      Backward       3              11             0.020812       

Species: Mus musculus

Original motif
0.244952    0.197659    0.278014    0.279374    
0.244434    0.136006    0.278446    0.341114    
0.512025    0.129954    0.139069    0.218951    
0.190001    0.086232    0.125500    0.598267    
0.154692    0.325860    0.193904    0.325544    
0.384624    0.130540    0.035110    0.449726    
0.945021    0.006713    0.011975    0.036291    
0.008386    0.026630    0.004166    0.960817    
0.020908    0.005554    0.009294    0.964244    
0.149285    0.038995    0.806085    0.005635    
0.110990    0.007155    0.007797    0.874058    
0.087283    0.099671    0.059611    0.753435    
0.250662    0.432576    0.082152    0.234610    
0.251277    0.174578    0.147771    0.426374    
0.205121    0.137656    0.296366    0.360857    
0.316796    0.152457    0.164403    0.366344    
0.475864    0.128717    0.153551    0.241867    
Consensus sequence: DDATBWATTGTTHHDDD

Reverse complement motif
0.241867    0.128717    0.153551    0.475864    
0.366344    0.152457    0.164403    0.316796    
0.360857    0.137656    0.296366    0.205121    
0.426374    0.174578    0.147771    0.251277    
0.250662    0.082152    0.432576    0.234610    
0.753435    0.099671    0.059611    0.087283    
0.874058    0.007155    0.007797    0.110990    
0.149285    0.806085    0.038995    0.005635    
0.964244    0.005554    0.009294    0.020908    
0.960817    0.026630    0.004166    0.008386    
0.036291    0.006713    0.011975    0.945021    
0.449726    0.130540    0.035110    0.384624    
0.154692    0.193904    0.325860    0.325544    
0.598267    0.086232    0.125500    0.190001    
0.218951    0.129954    0.139069    0.512025    
0.341114    0.136006    0.278446    0.244434    
0.279374    0.197659    0.278014    0.244952    
Consensus sequence: DDDHDAACAATWBATDD

Alignment:
DDDHDAACAATWBATDD
----AAACAATYTTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00023        Sox30_primary                      Original Motif                          Reverse Complement                      Backward       4              11             0.023541       

Species: Mus musculus

Original motif
0.372432    0.102933    0.322145    0.202491    
0.328072    0.182071    0.157347    0.332510    
0.289417    0.084511    0.292873    0.333198    
0.157571    0.227851    0.441662    0.172917    
0.716832    0.049010    0.201411    0.032747    
0.957368    0.003162    0.004402    0.035068    
0.003907    0.862678    0.009407    0.124008    
0.977231    0.007658    0.004263    0.010847    
0.976481    0.004510    0.015225    0.003784    
0.067568    0.004353    0.005071    0.923008    
0.158205    0.108442    0.467023    0.266330    
0.334549    0.091557    0.510241    0.063654    
0.456431    0.182602    0.150234    0.210732    
0.387485    0.241062    0.151504    0.219950    
0.188387    0.269857    0.176514    0.365242    
0.175680    0.243984    0.165833    0.414502    
Consensus sequence: DHDBAACAATDRHHHH

Reverse complement motif
0.414502    0.243984    0.165833    0.175680    
0.365242    0.269857    0.176514    0.188387    
0.219950    0.241062    0.151504    0.387485    
0.210732    0.182602    0.150234    0.456431    
0.334549    0.510241    0.091557    0.063654    
0.158205    0.467023    0.108442    0.266330    
0.923008    0.004353    0.005071    0.067568    
0.003784    0.004510    0.015225    0.976481    
0.010847    0.007658    0.004263    0.977231    
0.003907    0.009407    0.862678    0.124008    
0.035068    0.003162    0.004402    0.957368    
0.032747    0.049010    0.201411    0.716832    
0.157571    0.441662    0.227851    0.172917    
0.333198    0.084511    0.292873    0.289417    
0.332510    0.182071    0.157347    0.328072    
0.202491    0.102933    0.322145    0.372432    
Consensus sequence: HHHHMHATTGTTBDHD

Alignment:
HHHHMHATTGTTBDHD
--AAAMATTGTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00091        Sox5_primary                       Reverse Complement                      Original Motif                          Forward        5              11             0.023683       

Species: Mus musculus

Original motif
0.305368    0.133033    0.173233    0.388366    
0.257879    0.197076    0.146872    0.398174    
0.257635    0.122462    0.256979    0.362924    
0.446808    0.093619    0.289963    0.169610    
0.148292    0.091229    0.632311    0.128169    
0.827592    0.026174    0.130622    0.015612    
0.976345    0.003817    0.005452    0.014386    
0.005230    0.937364    0.008904    0.048502    
0.973417    0.003014    0.006136    0.017433    
0.974095    0.004350    0.011425    0.010130    
0.030624    0.011927    0.003795    0.953653    
0.491667    0.015453    0.085481    0.407399    
0.451773    0.100304    0.244084    0.203838    
0.434242    0.114442    0.217049    0.234267    
0.333464    0.254828    0.092729    0.318979    
0.333644    0.114919    0.184420    0.367017    
Consensus sequence: DHDDGAACAATWDDHD

Reverse complement motif
0.367017    0.114919    0.184420    0.333644    
0.318979    0.254828    0.092729    0.333464    
0.234267    0.114442    0.217049    0.434242    
0.203838    0.100304    0.244084    0.451773    
0.407399    0.015453    0.085481    0.491667    
0.953653    0.011927    0.003795    0.030624    
0.010130    0.004350    0.011425    0.974095    
0.017433    0.003014    0.006136    0.973417    
0.005230    0.008904    0.937364    0.048502    
0.014386    0.003817    0.005452    0.976345    
0.015612    0.026174    0.130622    0.827592    
0.148292    0.632311    0.091229    0.128169    
0.169610    0.093619    0.289963    0.446808    
0.362924    0.122462    0.256979    0.257635    
0.398174    0.197076    0.146872    0.257879    
0.388366    0.133033    0.173233    0.305368    
Consensus sequence: DHDDWATTGTTCDDHD

Alignment:
DHDDGAACAATWDDHD
----AAACAATYTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00014        Sox17_primary                      Reverse Complement                      Original Motif                          Forward        3              11             0.025616       

Species: Mus musculus

Original motif
0.384811    0.284700    0.175936    0.154553    
0.309402    0.148547    0.182807    0.359244    
0.481080    0.063522    0.236227    0.219171    
0.767683    0.076339    0.078689    0.077290    
0.721907    0.020423    0.021208    0.236461    
0.015843    0.855728    0.037803    0.090627    
0.946041    0.014076    0.006202    0.033681    
0.968744    0.003602    0.010784    0.016871    
0.019919    0.012714    0.005072    0.962296    
0.184775    0.020594    0.079338    0.715293    
0.391691    0.169606    0.345342    0.093361    
0.686419    0.086126    0.077592    0.149862    
0.416935    0.101839    0.062848    0.418379    
0.272943    0.305787    0.124571    0.296700    
0.388624    0.124150    0.177104    0.310122    
Consensus sequence: VDDAACAATTVAWHD

Reverse complement motif
0.310122    0.124150    0.177104    0.388624    
0.272943    0.124571    0.305787    0.296700    
0.418379    0.101839    0.062848    0.416935    
0.149862    0.086126    0.077592    0.686419    
0.093361    0.169606    0.345342    0.391691    
0.715293    0.020594    0.079338    0.184775    
0.962296    0.012714    0.005072    0.019919    
0.016871    0.003602    0.010784    0.968744    
0.033681    0.014076    0.006202    0.946041    
0.015843    0.037803    0.855728    0.090627    
0.236461    0.020423    0.021208    0.721907    
0.077290    0.076339    0.078689    0.767683    
0.219171    0.063522    0.236227    0.481080    
0.359244    0.148547    0.182807    0.309402    
0.154553    0.284700    0.175936    0.384811    
Consensus sequence: DDWTBAATTGTTDDB

Alignment:
VDDAACAATTVAWHD
--AAACAATYTTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Original Motif                          Reverse Complement                      Forward        6              11             0.026403       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
WBHHHHHMDATTGTTHDHDVHH
-----AAAMATTGTTT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00075        Sox15_primary                      Original Motif                          Reverse Complement                      Forward        3              11             0.026597       

Species: Mus musculus

Original motif
0.287334    0.139055    0.124297    0.449314    
0.278683    0.214056    0.278266    0.228994    
0.196938    0.172103    0.339663    0.291296    
0.343773    0.089222    0.198442    0.368564    
0.217683    0.069371    0.485495    0.227451    
0.795638    0.049144    0.086842    0.068377    
0.932914    0.008887    0.006817    0.051381    
0.018504    0.893128    0.012624    0.075744    
0.960471    0.008180    0.009943    0.021405    
0.966816    0.008885    0.008787    0.015512    
0.086103    0.016953    0.005969    0.890975    
0.475989    0.013028    0.097844    0.413139    
0.304890    0.097952    0.464158    0.133000    
0.458453    0.118585    0.307695    0.115267    
0.205225    0.241082    0.224896    0.328798    
0.328081    0.178970    0.116466    0.376483    
0.188001    0.185031    0.192398    0.434571    
Consensus sequence: HDDDDAACAATWRRBHD

Reverse complement motif
0.434571    0.185031    0.192398    0.188001    
0.376483    0.178970    0.116466    0.328081    
0.328798    0.241082    0.224896    0.205225    
0.115267    0.118585    0.307695    0.458453    
0.304890    0.464158    0.097952    0.133000    
0.413139    0.013028    0.097844    0.475989    
0.890975    0.016953    0.005969    0.086103    
0.015512    0.008885    0.008787    0.966816    
0.021405    0.008180    0.009943    0.960471    
0.018504    0.012624    0.893128    0.075744    
0.051381    0.008887    0.006817    0.932914    
0.068377    0.049144    0.086842    0.795638    
0.217683    0.485495    0.069371    0.227451    
0.368564    0.089222    0.198442    0.343773    
0.196938    0.339663    0.172103    0.291296    
0.228994    0.214056    0.278266    0.278683    
0.449314    0.139055    0.124297    0.287334    
Consensus sequence: DHVKMWATTGTTHDHDH

Alignment:
DHVKMWATTGTTHDHDH
--AAAMATTGTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 11		Motif name: Motif 11

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.500000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.500000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAMATGTTTMAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTYAAACATYTT


************************************************************************ Best Matches for Motif ID 11 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00250        Irx5                               Original Motif                          Reverse Complement                      Forward        6              12             0.005694       

Species: Mus musculus

Original motif
0.367463    0.110357    0.154650    0.367530    
0.435675    0.104106    0.185653    0.274566    
0.309411    0.166534    0.199426    0.324629    
0.330171    0.218393    0.207727    0.243708    
0.326575    0.006155    0.067531    0.599738    
0.934344    0.018417    0.011430    0.035810    
0.004941    0.961788    0.005465    0.027806    
0.940152    0.001107    0.011177    0.047564    
0.047564    0.011177    0.001107    0.940152    
0.027806    0.005465    0.961788    0.004941    
0.035810    0.011430    0.018417    0.934344    
0.599738    0.067531    0.006155    0.326575    
0.348557    0.239288    0.195868    0.216288    
0.376605    0.112652    0.210787    0.299957    
0.540552    0.074408    0.115847    0.269192    
0.210439    0.212707    0.245294    0.331559    
0.303891    0.113735    0.133741    0.448633    
Consensus sequence: DDDHWACATGTWHDABW

Reverse complement motif
0.448633    0.113735    0.133741    0.303891    
0.331559    0.212707    0.245294    0.210439    
0.269192    0.074408    0.115847    0.540552    
0.299957    0.112652    0.210787    0.376605    
0.216288    0.239288    0.195868    0.348557    
0.326575    0.067531    0.006155    0.599738    
0.934344    0.011430    0.018417    0.035810    
0.027806    0.961788    0.005465    0.004941    
0.940152    0.011177    0.001107    0.047564    
0.047564    0.001107    0.011177    0.940152    
0.004941    0.005465    0.961788    0.027806    
0.035810    0.018417    0.011430    0.934344    
0.599738    0.006155    0.067531    0.326575    
0.243708    0.218393    0.207727    0.330171    
0.324629    0.166534    0.199426    0.309411    
0.274566    0.104106    0.185653    0.435675    
0.367530    0.110357    0.154650    0.367463    
Consensus sequence: WVTDHWACATGTWHDDD

Alignment:
WVTDHWACATGTWHDDD
-----AAMATGTTTMAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00236        Irx2                               Original Motif                          Reverse Complement                      Backward       1              12             0.007536       

Species: Mus musculus

Original motif
0.394106    0.081399    0.100827    0.423668    
0.466343    0.126236    0.130788    0.276633    
0.319347    0.127772    0.257087    0.295794    
0.406891    0.139766    0.252855    0.200488    
0.219982    0.007245    0.029337    0.743436    
0.947280    0.014984    0.012651    0.025086    
0.003955    0.974386    0.007466    0.014192    
0.956452    0.001229    0.011361    0.030959    
0.030959    0.011361    0.001229    0.956452    
0.014192    0.007466    0.974386    0.003955    
0.025086    0.012651    0.014984    0.947280    
0.743436    0.029337    0.007245    0.219982    
0.404816    0.174236    0.206626    0.214322    
0.295979    0.194049    0.285864    0.224108    
0.399608    0.106063    0.123706    0.370623    
0.176973    0.196462    0.269004    0.357560    
0.339978    0.107593    0.083682    0.468747    
Consensus sequence: WDDDTACATGTADDWBW

Reverse complement motif
0.468747    0.107593    0.083682    0.339978    
0.357560    0.196462    0.269004    0.176973    
0.370623    0.106063    0.123706    0.399608    
0.224108    0.194049    0.285864    0.295979    
0.214322    0.174236    0.206626    0.404816    
0.219982    0.029337    0.007245    0.743436    
0.947280    0.012651    0.014984    0.025086    
0.014192    0.974386    0.007466    0.003955    
0.956452    0.011361    0.001229    0.030959    
0.030959    0.001229    0.011361    0.956452    
0.003955    0.007466    0.974386    0.014192    
0.025086    0.014984    0.012651    0.947280    
0.743436    0.007245    0.029337    0.219982    
0.200488    0.139766    0.252855    0.406891    
0.295794    0.127772    0.257087    0.319347    
0.276633    0.126236    0.130788    0.466343    
0.423668    0.081399    0.100827    0.394106    
Consensus sequence: WVWDDTACATGTADDDW

Alignment:
WDDDTACATGTADDWBW
-----AAMATGTTTMAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Reverse Complement                      Forward        2              12             0.009279       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
VVVWTTGTTTAMATTWD
-AAMATGTTTMAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00150        Irx6                               Original Motif                          Original Motif                          Forward        5              12             0.010437       

Species: Mus musculus

Original motif
0.356323    0.182245    0.120162    0.341271    
0.540549    0.133347    0.119342    0.206762    
0.401575    0.161837    0.116292    0.320296    
0.311151    0.164568    0.283941    0.240340    
0.198376    0.006596    0.030801    0.764227    
0.947120    0.014182    0.010382    0.028316    
0.006934    0.957983    0.007710    0.027373    
0.947314    0.001874    0.016190    0.034622    
0.034622    0.016190    0.001874    0.947314    
0.027373    0.007710    0.957983    0.006934    
0.028316    0.010382    0.014182    0.947120    
0.764227    0.030801    0.006596    0.198376    
0.372950    0.265937    0.182203    0.178910    
0.399793    0.101871    0.214477    0.283859    
0.478414    0.110202    0.114534    0.296850    
0.317990    0.215498    0.212041    0.254471    
0.131398    0.063397    0.070049    0.735156    
Consensus sequence: HAHDTACATGTAVDWHT

Reverse complement motif
0.735156    0.063397    0.070049    0.131398    
0.254471    0.215498    0.212041    0.317990    
0.296850    0.110202    0.114534    0.478414    
0.283859    0.101871    0.214477    0.399793    
0.178910    0.265937    0.182203    0.372950    
0.198376    0.030801    0.006596    0.764227    
0.947120    0.010382    0.014182    0.028316    
0.027373    0.957983    0.007710    0.006934    
0.947314    0.016190    0.001874    0.034622    
0.034622    0.001874    0.016190    0.947314    
0.006934    0.007710    0.957983    0.027373    
0.028316    0.014182    0.010382    0.947120    
0.764227    0.006596    0.030801    0.198376    
0.240340    0.164568    0.283941    0.311151    
0.320296    0.161837    0.116292    0.401575    
0.206762    0.133347    0.119342    0.540549    
0.341271    0.182245    0.120162    0.356323    
Consensus sequence: AHWDBTACATGTADHTH

Alignment:
HAHDTACATGTAVDWHT
----AAMATGTTTMAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00194        Irx4                               Original Motif                          Original Motif                          Backward       2              12             0.011007       

Species: Mus musculus

Original motif
0.448141    0.082257    0.141153    0.328449    
0.354010    0.179239    0.231684    0.235067    
0.300226    0.196857    0.192403    0.310514    
0.269192    0.228296    0.259727    0.242784    
0.325458    0.008737    0.038497    0.627307    
0.907258    0.013201    0.015875    0.063665    
0.010499    0.935216    0.007784    0.046501    
0.897816    0.001332    0.019141    0.081711    
0.081711    0.019141    0.001332    0.897816    
0.046501    0.007784    0.935216    0.010499    
0.063665    0.015875    0.013201    0.907258    
0.627307    0.038497    0.008737    0.325458    
0.563710    0.193341    0.098815    0.144134    
0.461314    0.079125    0.155617    0.303944    
0.513284    0.108439    0.126002    0.252275    
0.195487    0.320893    0.240955    0.242665    
0.385008    0.137791    0.149762    0.327440    
Consensus sequence: WDHDWACATGTWAWABD

Reverse complement motif
0.327440    0.137791    0.149762    0.385008    
0.195487    0.240955    0.320893    0.242665    
0.252275    0.108439    0.126002    0.513284    
0.303944    0.079125    0.155617    0.461314    
0.144134    0.193341    0.098815    0.563710    
0.325458    0.038497    0.008737    0.627307    
0.907258    0.015875    0.013201    0.063665    
0.046501    0.935216    0.007784    0.010499    
0.897816    0.019141    0.001332    0.081711    
0.081711    0.001332    0.019141    0.897816    
0.010499    0.007784    0.935216    0.046501    
0.063665    0.013201    0.015875    0.907258    
0.627307    0.008737    0.038497    0.325458    
0.242784    0.228296    0.259727    0.269192    
0.310514    0.196857    0.192403    0.300226    
0.235067    0.179239    0.231684    0.354010    
0.328449    0.082257    0.141153    0.448141    
Consensus sequence: DBTWTWACATGTWDHDW

Alignment:
WDHDWACATGTWAWABD
----AAMATGTTTMAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_primary                      Reverse Complement                      Reverse Complement                      Backward       2              12             0.011354       

Species: Mus musculus

Original motif
0.186316    0.215541    0.297644    0.300499    
0.300381    0.234276    0.266283    0.199061    
0.317841    0.211418    0.183235    0.287507    
0.482598    0.095323    0.245062    0.177017    
0.654197    0.008988    0.261951    0.074864    
0.095656    0.022883    0.843364    0.038097    
0.002655    0.008355    0.976390    0.012600    
0.003287    0.080755    0.001057    0.914900    
0.006753    0.001517    0.989917    0.001813    
0.039940    0.098800    0.003305    0.857955    
0.009015    0.039036    0.844029    0.107921    
0.984070    0.002369    0.008852    0.004709    
0.789505    0.101528    0.029294    0.079672    
0.649685    0.139882    0.090466    0.119966    
0.421759    0.205595    0.073074    0.299573    
0.214779    0.290522    0.134050    0.360649    
0.202141    0.270323    0.176798    0.350738    
Consensus sequence: BVHDAGGTGTGAAAHHH

Reverse complement motif
0.350738    0.270323    0.176798    0.202141    
0.360649    0.290522    0.134050    0.214779    
0.299573    0.205595    0.073074    0.421759    
0.119966    0.139882    0.090466    0.649685    
0.079672    0.101528    0.029294    0.789505    
0.004709    0.002369    0.008852    0.984070    
0.009015    0.844029    0.039036    0.107921    
0.857955    0.098800    0.003305    0.039940    
0.006753    0.989917    0.001517    0.001813    
0.914900    0.080755    0.001057    0.003287    
0.002655    0.976390    0.008355    0.012600    
0.095656    0.843364    0.022883    0.038097    
0.074864    0.008988    0.261951    0.654197    
0.177017    0.095323    0.245062    0.482598    
0.287507    0.211418    0.183235    0.317841    
0.199061    0.234276    0.266283    0.300381    
0.300499    0.215541    0.297644    0.186316    
Consensus sequence: HHHTTTCACACCTDHBV

Alignment:
HHHTTTCACACCTDHBV
----TTYAAACATYTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00223        Irx3_2226.1                        Original Motif                          Reverse Complement                      Forward        6              12             0.011882       

Species: Mus musculus

Original motif
0.402654    0.107068    0.157939    0.332339    
0.381229    0.129621    0.243277    0.245872    
0.271699    0.148903    0.261472    0.317925    
0.278393    0.239730    0.235045    0.246831    
0.223980    0.006073    0.031227    0.738720    
0.952925    0.013731    0.008900    0.024444    
0.005380    0.972117    0.004335    0.018169    
0.945295    0.001062    0.011429    0.042214    
0.042214    0.011429    0.001062    0.945295    
0.018169    0.004335    0.972117    0.005380    
0.024444    0.008900    0.013731    0.952925    
0.738720    0.031227    0.006073    0.223980    
0.449438    0.199271    0.196335    0.154956    
0.266542    0.085070    0.155050    0.493338    
0.412619    0.114771    0.151818    0.320792    
0.175351    0.270485    0.162372    0.391791    
0.355721    0.130415    0.156633    0.357231    
Consensus sequence: DDDHTACATGTAVWDHD

Reverse complement motif
0.357231    0.130415    0.156633    0.355721    
0.391791    0.270485    0.162372    0.175351    
0.320792    0.114771    0.151818    0.412619    
0.493338    0.085070    0.155050    0.266542    
0.154956    0.199271    0.196335    0.449438    
0.223980    0.031227    0.006073    0.738720    
0.952925    0.008900    0.013731    0.024444    
0.018169    0.972117    0.004335    0.005380    
0.945295    0.011429    0.001062    0.042214    
0.042214    0.001062    0.011429    0.945295    
0.005380    0.004335    0.972117    0.018169    
0.024444    0.013731    0.008900    0.952925    
0.738720    0.006073    0.031227    0.223980    
0.246831    0.239730    0.235045    0.278393    
0.317925    0.148903    0.261472    0.271699    
0.245872    0.129621    0.243277    0.381229    
0.332339    0.107068    0.157939    0.402654    
Consensus sequence: DHDWBTACATGTAHDDD

Alignment:
DHDWBTACATGTAHDDD
-----AAMATGTTTMAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00223        Irx3_0920.1                        Original Motif                          Reverse Complement                      Backward       1              12             0.013215       

Species: Mus musculus

Original motif
0.369314    0.086226    0.205101    0.339359    
0.332302    0.160101    0.284255    0.223343    
0.291107    0.190306    0.229518    0.289068    
0.295366    0.218346    0.264868    0.221420    
0.224029    0.007037    0.047157    0.721777    
0.935123    0.014036    0.014073    0.036768    
0.004474    0.977496    0.005620    0.012411    
0.924256    0.001181    0.015903    0.058661    
0.058661    0.015903    0.001181    0.924256    
0.012411    0.005620    0.977496    0.004474    
0.036768    0.014073    0.014036    0.935123    
0.721777    0.047157    0.007037    0.224029    
0.449320    0.226936    0.166094    0.157650    
0.313283    0.070145    0.179424    0.437148    
0.522855    0.074913    0.105873    0.296358    
0.185897    0.387406    0.129138    0.297559    
0.276853    0.127952    0.189255    0.405940    
Consensus sequence: DDDDTACATGTAVWWHD

Reverse complement motif
0.405940    0.127952    0.189255    0.276853    
0.185897    0.129138    0.387406    0.297559    
0.296358    0.074913    0.105873    0.522855    
0.437148    0.070145    0.179424    0.313283    
0.157650    0.226936    0.166094    0.449320    
0.224029    0.047157    0.007037    0.721777    
0.935123    0.014073    0.014036    0.036768    
0.012411    0.977496    0.005620    0.004474    
0.924256    0.015903    0.001181    0.058661    
0.058661    0.001181    0.015903    0.924256    
0.004474    0.005620    0.977496    0.012411    
0.036768    0.014036    0.014073    0.935123    
0.721777    0.007037    0.047157    0.224029    
0.221420    0.218346    0.264868    0.295366    
0.289068    0.190306    0.229518    0.291107    
0.223343    0.160101    0.284255    0.332302    
0.339359    0.086226    0.205101    0.369314    
Consensus sequence: DDWWBTACATGTADDDD

Alignment:
DDDDTACATGTAVWWHD
-----AAMATGTTTMAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Original Motif                          Reverse Complement                      Backward       5              12             0.014246       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
BBVTTTGTTTACATTDD
-AAMATGTTTMAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_primary                      Original Motif                          Reverse Complement                      Backward       5              12             0.021034       

Species: Mus musculus

Original motif
0.273456    0.257473    0.208488    0.260583    
0.338566    0.133379    0.306363    0.221693    
0.475488    0.192852    0.156858    0.174803    
0.506619    0.132646    0.170373    0.190362    
0.349042    0.127275    0.325924    0.197759    
0.303850    0.013619    0.678034    0.004497    
0.014136    0.015691    0.003073    0.967100    
0.913373    0.082928    0.001910    0.001789    
0.956294    0.017745    0.000584    0.025378    
0.987796    0.001685    0.004159    0.006360    
0.002288    0.814764    0.001427    0.181521    
0.986707    0.002688    0.003346    0.007259    
0.787378    0.065481    0.057961    0.089180    
0.572982    0.089910    0.066184    0.270924    
0.224167    0.339979    0.258886    0.176968    
0.268414    0.272007    0.239541    0.220038    
0.241771    0.394748    0.174273    0.189208    
Consensus sequence: HDHADGTAAACAAAVVH

Reverse complement motif
0.241771    0.174273    0.394748    0.189208    
0.268414    0.239541    0.272007    0.220038    
0.224167    0.258886    0.339979    0.176968    
0.270924    0.089910    0.066184    0.572982    
0.089180    0.065481    0.057961    0.787378    
0.007259    0.002688    0.003346    0.986707    
0.002288    0.001427    0.814764    0.181521    
0.006360    0.001685    0.004159    0.987796    
0.025378    0.017745    0.000584    0.956294    
0.001789    0.082928    0.001910    0.913373    
0.967100    0.015691    0.003073    0.014136    
0.303850    0.678034    0.013619    0.004497    
0.197759    0.127275    0.325924    0.349042    
0.190362    0.132646    0.170373    0.506619    
0.174803    0.192852    0.156858    0.475488    
0.221693    0.133379    0.306363    0.338566    
0.260583    0.257473    0.208488    0.273456    
Consensus sequence: DVVTTTGTTTACDTHDH

Alignment:
DVVTTTGTTTACDTHDH
-AAMATGTTTMAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 12		Motif name: Motif 12

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: ACAACACATTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAATGTGTTGT


************************************************************************ Best Matches for Motif ID 12 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00033        Zfp410_primary                     Reverse Complement                      Original Motif                          Backward       5              11             0.018100       

Species: Mus musculus

Original motif
0.302837    0.133017    0.249940    0.314205    
0.378542    0.186425    0.250700    0.184332    
0.184780    0.144329    0.262766    0.408125    
0.308569    0.039689    0.235695    0.416047    
0.817738    0.108938    0.033419    0.039905    
0.018996    0.007718    0.013175    0.960112    
0.009278    0.002422    0.973921    0.014379    
0.005587    0.002693    0.985088    0.006633    
0.005874    0.004232    0.976927    0.012967    
0.951309    0.011835    0.023187    0.013669    
0.005927    0.004521    0.005701    0.983851    
0.146443    0.003009    0.840720    0.009829    
0.002553    0.044504    0.542059    0.410884    
0.406299    0.375782    0.133922    0.083997    
0.256884    0.160184    0.271190    0.311742    
0.388381    0.141811    0.214600    0.255208    
0.340877    0.274387    0.205585    0.179151    
Consensus sequence: DVDDATGGGATGKMDDV

Reverse complement motif
0.179151    0.274387    0.205585    0.340877    
0.255208    0.141811    0.214600    0.388381    
0.311742    0.160184    0.271190    0.256884    
0.083997    0.375782    0.133922    0.406299    
0.002553    0.542059    0.044504    0.410884    
0.146443    0.840720    0.003009    0.009829    
0.983851    0.004521    0.005701    0.005927    
0.013669    0.011835    0.023187    0.951309    
0.005874    0.976927    0.004232    0.012967    
0.005587    0.985088    0.002693    0.006633    
0.009278    0.973921    0.002422    0.014379    
0.960112    0.007718    0.013175    0.018996    
0.039905    0.108938    0.033419    0.817738    
0.416047    0.039689    0.235695    0.308569    
0.408125    0.144329    0.262766    0.184780    
0.184332    0.186425    0.250700    0.378542    
0.314205    0.133017    0.249940    0.302837    
Consensus sequence: BDDYYCATCCCATDDBD

Alignment:
DVDDATGGGATGKMDDV
--AAATGTGTTGT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_secondary                    Reverse Complement                      Original Motif                          Forward        3              11             0.020281       

Species: Mus musculus

Original motif
0.253642    0.252604    0.298295    0.195458    
0.112892    0.341342    0.341061    0.204704    
0.297430    0.215095    0.343350    0.144125    
0.241098    0.129378    0.421448    0.208076    
0.894201    0.007299    0.061032    0.037468    
0.052259    0.054303    0.856609    0.036829    
0.005074    0.015048    0.966734    0.013144    
0.003258    0.061529    0.002368    0.932845    
0.017531    0.005025    0.973155    0.004289    
0.116022    0.030172    0.047139    0.806667    
0.027749    0.602513    0.009946    0.359792    
0.018763    0.048982    0.794648    0.137608    
0.177116    0.459591    0.284833    0.078460    
0.121483    0.491485    0.148745    0.238287    
0.152590    0.245835    0.214717    0.386857    
0.221040    0.320773    0.249918    0.208270    
Consensus sequence: VBVDAGGTGTYGVBBV

Reverse complement motif
0.221040    0.249918    0.320773    0.208270    
0.386857    0.245835    0.214717    0.152590    
0.121483    0.148745    0.491485    0.238287    
0.177116    0.284833    0.459591    0.078460    
0.018763    0.794648    0.048982    0.137608    
0.027749    0.009946    0.602513    0.359792    
0.806667    0.030172    0.047139    0.116022    
0.017531    0.973155    0.005025    0.004289    
0.932845    0.061529    0.002368    0.003258    
0.005074    0.966734    0.015048    0.013144    
0.052259    0.856609    0.054303    0.036829    
0.037468    0.007299    0.061032    0.894201    
0.241098    0.421448    0.129378    0.208076    
0.297430    0.343350    0.215095    0.144125    
0.112892    0.341061    0.341342    0.204704    
0.253642    0.298295    0.252604    0.195458    
Consensus sequence: VVBVCKACACCTHVBV

Alignment:
VBVDAGGTGTYGVBBV
--AAATGTGTTGT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00171        Msx3                               Reverse Complement                      Reverse Complement                      Backward       2              11             0.021121       

Species: Mus musculus

Original motif
0.317812    0.352438    0.231628    0.098123    
0.601471    0.133830    0.164947    0.099752    
0.399508    0.293187    0.098524    0.208781    
0.754569    0.054130    0.133622    0.057678    
0.770469    0.088090    0.086904    0.054537    
0.038689    0.673100    0.189096    0.099115    
0.004935    0.522968    0.000482    0.471615    
0.986316    0.001484    0.009222    0.002978    
0.991636    0.005079    0.001457    0.001828    
0.009156    0.001857    0.001081    0.987906    
0.013688    0.006588    0.000191    0.979532    
0.987635    0.000354    0.005166    0.006845    
0.701095    0.027828    0.154852    0.116224    
0.181731    0.184800    0.303458    0.330011    
0.224816    0.221032    0.182405    0.371747    
0.310539    0.208307    0.099081    0.382073    
Consensus sequence: VAHAACYAATTAABHH

Reverse complement motif
0.382073    0.208307    0.099081    0.310539    
0.371747    0.221032    0.182405    0.224816    
0.330011    0.184800    0.303458    0.181731    
0.116224    0.027828    0.154852    0.701095    
0.006845    0.000354    0.005166    0.987635    
0.979532    0.006588    0.000191    0.013688    
0.987906    0.001857    0.001081    0.009156    
0.001828    0.005079    0.001457    0.991636    
0.002978    0.001484    0.009222    0.986316    
0.004935    0.000482    0.522968    0.471615    
0.038689    0.189096    0.673100    0.099115    
0.054537    0.088090    0.086904    0.770469    
0.057678    0.054130    0.133622    0.754569    
0.208781    0.293187    0.098524    0.399508    
0.099752    0.133830    0.164947    0.601471    
0.317812    0.231628    0.352438    0.098123    
Consensus sequence: HHVTTAATTKGTTHTV

Alignment:
HHVTTAATTKGTTHTV
----AAATGTGTTGT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00072        IRC900814_primary                  Reverse Complement                      Reverse Complement                      Backward       5              11             0.021651       

Species: Mus musculus

Original motif
0.365594    0.139520    0.170474    0.324412    
0.273874    0.192800    0.250453    0.282872    
0.161547    0.330332    0.098428    0.409694    
0.084003    0.205596    0.098191    0.612210    
0.953705    0.016367    0.006314    0.023614    
0.003494    0.989648    0.003278    0.003580    
0.004722    0.003156    0.988805    0.003317    
0.939828    0.001925    0.052151    0.006096    
0.183998    0.760396    0.030845    0.024762    
0.917564    0.003661    0.065438    0.013337    
0.965452    0.006559    0.005183    0.022807    
0.730611    0.054369    0.006576    0.208444    
0.266519    0.133801    0.067418    0.532262    
0.329952    0.210903    0.220319    0.238826    
0.250220    0.197954    0.314202    0.237625    
0.172311    0.401218    0.189340    0.237131    
Consensus sequence: DDHTACGACAAAWDDB

Reverse complement motif
0.172311    0.189340    0.401218    0.237131    
0.250220    0.314202    0.197954    0.237625    
0.238826    0.210903    0.220319    0.329952    
0.532262    0.133801    0.067418    0.266519    
0.208444    0.054369    0.006576    0.730611    
0.022807    0.006559    0.005183    0.965452    
0.013337    0.003661    0.065438    0.917564    
0.183998    0.030845    0.760396    0.024762    
0.006096    0.001925    0.052151    0.939828    
0.004722    0.988805    0.003156    0.003317    
0.003494    0.003278    0.989648    0.003580    
0.023614    0.016367    0.006314    0.953705    
0.612210    0.205596    0.098191    0.084003    
0.409694    0.330332    0.098428    0.161547    
0.282872    0.192800    0.250453    0.273874    
0.324412    0.139520    0.170474    0.365594    
Consensus sequence: BHDWTTTGTCGTAHDD

Alignment:
BHDWTTTGTCGTAHDD
-AAATGTGTTGT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00166        Barhl1                             Reverse Complement                      Reverse Complement                      Backward       2              11             0.023066       

Species: Mus musculus

Original motif
0.467514    0.210142    0.140580    0.181765    
0.607254    0.124874    0.137587    0.130285    
0.280889    0.423565    0.125411    0.170135    
0.748944    0.067655    0.136796    0.046605    
0.723747    0.023732    0.218759    0.033762    
0.075749    0.608701    0.182230    0.133321    
0.005053    0.764340    0.000825    0.229781    
0.951342    0.006010    0.029473    0.013175    
0.890431    0.010111    0.000910    0.098548    
0.004275    0.001291    0.002113    0.992321    
0.005850    0.006608    0.000432    0.987110    
0.979314    0.000732    0.001996    0.017957    
0.546971    0.034786    0.326876    0.091366    
0.120451    0.194359    0.328320    0.356870    
0.274765    0.177491    0.231888    0.315855    
0.223913    0.420032    0.139775    0.216280    
Consensus sequence: HAHAACCAATTARBDH

Reverse complement motif
0.223913    0.139775    0.420032    0.216280    
0.315855    0.177491    0.231888    0.274765    
0.356870    0.194359    0.328320    0.120451    
0.091366    0.034786    0.326876    0.546971    
0.017957    0.000732    0.001996    0.979314    
0.987110    0.006608    0.000432    0.005850    
0.992321    0.001291    0.002113    0.004275    
0.098548    0.010111    0.000910    0.890431    
0.013175    0.006010    0.029473    0.951342    
0.005053    0.000825    0.764340    0.229781    
0.075749    0.182230    0.608701    0.133321    
0.033762    0.023732    0.218759    0.723747    
0.046605    0.067655    0.136796    0.748944    
0.280889    0.125411    0.423565    0.170135    
0.130285    0.124874    0.137587    0.607254    
0.181765    0.210142    0.140580    0.467514    
Consensus sequence: DDVKTAATTGGTTDTH

Alignment:
DDVKTAATTGGTTDTH
----AAATGTGTTGT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Reverse Complement                      Original Motif                          Backward       7              11             0.023141       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
HAAWDTGCTGACDWARH
AAATGTGTTGT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_primary               Reverse Complement                      Reverse Complement                      Backward       10             11             0.027072       

Species: Mus musculus

Original motif
0.641428    0.180211    0.044767    0.133594    
0.171696    0.262981    0.334148    0.231174    
0.129726    0.322735    0.243462    0.304077    
0.165713    0.175735    0.256108    0.402445    
0.146090    0.171890    0.412753    0.269266    
0.212837    0.439192    0.280990    0.066980    
0.251088    0.275516    0.374380    0.099015    
0.575438    0.079656    0.338201    0.006704    
0.005634    0.003422    0.972597    0.018348    
0.890447    0.077034    0.031851    0.000668    
0.007128    0.986862    0.000496    0.005515    
0.001445    0.991564    0.001925    0.005066    
0.738761    0.190157    0.026399    0.044684    
0.013384    0.983783    0.000896    0.001937    
0.068077    0.929549    0.000773    0.001602    
0.040830    0.933742    0.005283    0.020145    
0.730274    0.029225    0.145689    0.094812    
0.165032    0.572838    0.162001    0.100129    
0.383584    0.129942    0.429497    0.056977    
0.455959    0.071959    0.208204    0.263878    
0.134271    0.262985    0.222626    0.380117    
0.071193    0.346594    0.346081    0.236132    
0.445661    0.405278    0.053901    0.095160    
Consensus sequence: ABBBBVVRGACCACCCACRDBBM

Reverse complement motif
0.095160    0.405278    0.053901    0.445661    
0.071193    0.346081    0.346594    0.236132    
0.380117    0.262985    0.222626    0.134271    
0.263878    0.071959    0.208204    0.455959    
0.383584    0.429497    0.129942    0.056977    
0.165032    0.162001    0.572838    0.100129    
0.094812    0.029225    0.145689    0.730274    
0.040830    0.005283    0.933742    0.020145    
0.068077    0.000773    0.929549    0.001602    
0.013384    0.000896    0.983783    0.001937    
0.044684    0.190157    0.026399    0.738761    
0.001445    0.001925    0.991564    0.005066    
0.007128    0.000496    0.986862    0.005515    
0.000668    0.077034    0.031851    0.890447    
0.005634    0.972597    0.003422    0.018348    
0.006704    0.079656    0.338201    0.575438    
0.251088    0.374380    0.275516    0.099015    
0.212837    0.280990    0.439192    0.066980    
0.146090    0.412753    0.171890    0.269266    
0.402445    0.175735    0.256108    0.165713    
0.129726    0.243462    0.322735    0.304077    
0.171696    0.334148    0.262981    0.231174    
0.133594    0.180211    0.044767    0.641428    
Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Alignment:
YBVDMGTGGGTGGTCKVVBVBBT
---AAATGTGTTGT---------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00236        Irx2                               Reverse Complement                      Reverse Complement                      Backward       1              11             0.027220       

Species: Mus musculus

Original motif
0.394106    0.081399    0.100827    0.423668    
0.466343    0.126236    0.130788    0.276633    
0.319347    0.127772    0.257087    0.295794    
0.406891    0.139766    0.252855    0.200488    
0.219982    0.007245    0.029337    0.743436    
0.947280    0.014984    0.012651    0.025086    
0.003955    0.974386    0.007466    0.014192    
0.956452    0.001229    0.011361    0.030959    
0.030959    0.011361    0.001229    0.956452    
0.014192    0.007466    0.974386    0.003955    
0.025086    0.012651    0.014984    0.947280    
0.743436    0.029337    0.007245    0.219982    
0.404816    0.174236    0.206626    0.214322    
0.295979    0.194049    0.285864    0.224108    
0.399608    0.106063    0.123706    0.370623    
0.176973    0.196462    0.269004    0.357560    
0.339978    0.107593    0.083682    0.468747    
Consensus sequence: WDDDTACATGTADDWBW

Reverse complement motif
0.468747    0.107593    0.083682    0.339978    
0.357560    0.196462    0.269004    0.176973    
0.370623    0.106063    0.123706    0.399608    
0.224108    0.194049    0.285864    0.295979    
0.214322    0.174236    0.206626    0.404816    
0.219982    0.029337    0.007245    0.743436    
0.947280    0.012651    0.014984    0.025086    
0.014192    0.974386    0.007466    0.003955    
0.956452    0.011361    0.001229    0.030959    
0.030959    0.001229    0.011361    0.956452    
0.003955    0.007466    0.974386    0.014192    
0.025086    0.014984    0.012651    0.947280    
0.743436    0.007245    0.029337    0.219982    
0.200488    0.139766    0.252855    0.406891    
0.295794    0.127772    0.257087    0.319347    
0.276633    0.126236    0.130788    0.466343    
0.423668    0.081399    0.100827    0.394106    
Consensus sequence: WVWDDTACATGTADDDW

Alignment:
WVWDDTACATGTADDDW
------AAATGTGTTGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Original Motif                          Original Motif                          Forward        9              11             0.027435       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
DTVBDDRGACCACCCAGDWDGBH
--------ACAACACATTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00146        Pou6f1_3733.1                      Reverse Complement                      Original Motif                          Backward       2              11             0.027581       

Species: Mus musculus

Original motif
0.380020    0.211224    0.295981    0.112776    
0.349734    0.309602    0.075135    0.265530    
0.356459    0.226592    0.169646    0.247302    
0.229673    0.350174    0.311906    0.108247    
0.757838    0.046686    0.016036    0.179440    
0.014478    0.002669    0.000464    0.982389    
0.984156    0.000563    0.002241    0.013039    
0.992195    0.001470    0.001823    0.004511    
0.001610    0.002156    0.003120    0.993114    
0.008328    0.001327    0.802239    0.188106    
0.990155    0.004149    0.002815    0.002881    
0.004992    0.004117    0.965215    0.025676    
0.091361    0.290495    0.533319    0.084826    
0.164763    0.143217    0.028702    0.663317    
0.164550    0.118473    0.276288    0.440689    
0.152985    0.151847    0.413228    0.281941    
0.241185    0.447249    0.135344    0.176222    
Consensus sequence: VHHVATAATGAGSTDDH

Reverse complement motif
0.241185    0.135344    0.447249    0.176222    
0.152985    0.413228    0.151847    0.281941    
0.440689    0.118473    0.276288    0.164550    
0.663317    0.143217    0.028702    0.164763    
0.091361    0.533319    0.290495    0.084826    
0.004992    0.965215    0.004117    0.025676    
0.002881    0.004149    0.002815    0.990155    
0.008328    0.802239    0.001327    0.188106    
0.993114    0.002156    0.003120    0.001610    
0.004511    0.001470    0.001823    0.992195    
0.013039    0.000563    0.002241    0.984156    
0.982389    0.002669    0.000464    0.014478    
0.179440    0.046686    0.016036    0.757838    
0.229673    0.311906    0.350174    0.108247    
0.247302    0.226592    0.169646    0.356459    
0.265530    0.309602    0.075135    0.349734    
0.112776    0.211224    0.295981    0.380020    
Consensus sequence: DHDASCTCATTATVHHB

Alignment:
VHHVATAATGAGSTDDH
-----AAATGTGTTGT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 13		Motif name: Motif 13

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.500000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAWATRTATTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAATAKATWTT


************************************************************************ Best Matches for Motif ID 13 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00266        Prrx1                              Original Motif                          Reverse Complement                      Backward       7              11             0.014242       

Species: Mus musculus

Original motif
0.253670    0.274722    0.311514    0.160094    
0.142661    0.147239    0.267582    0.442518    
0.550773    0.218031    0.102023    0.129173    
0.638511    0.097957    0.200256    0.063275    
0.033238    0.630091    0.034920    0.301751    
0.010596    0.084792    0.002672    0.901941    
0.978487    0.005759    0.012099    0.003655    
0.988730    0.002072    0.006630    0.002568    
0.003055    0.005516    0.002393    0.989036    
0.001886    0.013121    0.004234    0.980759    
0.945982    0.000473    0.036032    0.017513    
0.492644    0.048622    0.426186    0.032548    
0.032076    0.477120    0.163099    0.327705    
0.087306    0.062675    0.109007    0.741011    
0.398317    0.165475    0.249687    0.186521    
0.195630    0.391763    0.253591    0.159016    
0.054732    0.179801    0.168037    0.597430    
Consensus sequence: VBAACTAATTARYTDVT

Reverse complement motif
0.597430    0.179801    0.168037    0.054732    
0.195630    0.253591    0.391763    0.159016    
0.186521    0.165475    0.249687    0.398317    
0.741011    0.062675    0.109007    0.087306    
0.032076    0.163099    0.477120    0.327705    
0.032548    0.048622    0.426186    0.492644    
0.017513    0.000473    0.036032    0.945982    
0.980759    0.013121    0.004234    0.001886    
0.989036    0.005516    0.002393    0.003055    
0.002568    0.002072    0.006630    0.988730    
0.003655    0.005759    0.012099    0.978487    
0.901941    0.084792    0.002672    0.010596    
0.033238    0.034920    0.630091    0.301751    
0.063275    0.097957    0.200256    0.638511    
0.129173    0.218031    0.102023    0.550773    
0.442518    0.147239    0.267582    0.142661    
0.253670    0.311514    0.274722    0.160094    
Consensus sequence: AVDAKKTAATTAGTTVV

Alignment:
AVDAKKTAATTAGTTVV
AAWATRTATTT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00150        Irx6                               Original Motif                          Reverse Complement                      Backward       2              11             0.020069       

Species: Mus musculus

Original motif
0.356323    0.182245    0.120162    0.341271    
0.540549    0.133347    0.119342    0.206762    
0.401575    0.161837    0.116292    0.320296    
0.311151    0.164568    0.283941    0.240340    
0.198376    0.006596    0.030801    0.764227    
0.947120    0.014182    0.010382    0.028316    
0.006934    0.957983    0.007710    0.027373    
0.947314    0.001874    0.016190    0.034622    
0.034622    0.016190    0.001874    0.947314    
0.027373    0.007710    0.957983    0.006934    
0.028316    0.010382    0.014182    0.947120    
0.764227    0.030801    0.006596    0.198376    
0.372950    0.265937    0.182203    0.178910    
0.399793    0.101871    0.214477    0.283859    
0.478414    0.110202    0.114534    0.296850    
0.317990    0.215498    0.212041    0.254471    
0.131398    0.063397    0.070049    0.735156    
Consensus sequence: HAHDTACATGTAVDWHT

Reverse complement motif
0.735156    0.063397    0.070049    0.131398    
0.254471    0.215498    0.212041    0.317990    
0.296850    0.110202    0.114534    0.478414    
0.283859    0.101871    0.214477    0.399793    
0.178910    0.265937    0.182203    0.372950    
0.198376    0.030801    0.006596    0.764227    
0.947120    0.010382    0.014182    0.028316    
0.027373    0.957983    0.007710    0.006934    
0.947314    0.016190    0.001874    0.034622    
0.034622    0.001874    0.016190    0.947314    
0.006934    0.007710    0.957983    0.027373    
0.028316    0.014182    0.010382    0.947120    
0.764227    0.006596    0.030801    0.198376    
0.240340    0.164568    0.283941    0.311151    
0.320296    0.161837    0.116292    0.401575    
0.206762    0.133347    0.119342    0.540549    
0.341271    0.182245    0.120162    0.356323    
Consensus sequence: AHWDBTACATGTADHTH

Alignment:
AHWDBTACATGTADHTH
-----AAWATRTATTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00236        Irx2                               Original Motif                          Reverse Complement                      Forward        6              11             0.021442       

Species: Mus musculus

Original motif
0.394106    0.081399    0.100827    0.423668    
0.466343    0.126236    0.130788    0.276633    
0.319347    0.127772    0.257087    0.295794    
0.406891    0.139766    0.252855    0.200488    
0.219982    0.007245    0.029337    0.743436    
0.947280    0.014984    0.012651    0.025086    
0.003955    0.974386    0.007466    0.014192    
0.956452    0.001229    0.011361    0.030959    
0.030959    0.011361    0.001229    0.956452    
0.014192    0.007466    0.974386    0.003955    
0.025086    0.012651    0.014984    0.947280    
0.743436    0.029337    0.007245    0.219982    
0.404816    0.174236    0.206626    0.214322    
0.295979    0.194049    0.285864    0.224108    
0.399608    0.106063    0.123706    0.370623    
0.176973    0.196462    0.269004    0.357560    
0.339978    0.107593    0.083682    0.468747    
Consensus sequence: WDDDTACATGTADDWBW

Reverse complement motif
0.468747    0.107593    0.083682    0.339978    
0.357560    0.196462    0.269004    0.176973    
0.370623    0.106063    0.123706    0.399608    
0.224108    0.194049    0.285864    0.295979    
0.214322    0.174236    0.206626    0.404816    
0.219982    0.029337    0.007245    0.743436    
0.947280    0.012651    0.014984    0.025086    
0.014192    0.974386    0.007466    0.003955    
0.956452    0.011361    0.001229    0.030959    
0.030959    0.001229    0.011361    0.956452    
0.003955    0.007466    0.974386    0.014192    
0.025086    0.014984    0.012651    0.947280    
0.743436    0.007245    0.029337    0.219982    
0.200488    0.139766    0.252855    0.406891    
0.295794    0.127772    0.257087    0.319347    
0.276633    0.126236    0.130788    0.466343    
0.423668    0.081399    0.100827    0.394106    
Consensus sequence: WVWDDTACATGTADDDW

Alignment:
WVWDDTACATGTADDDW
-----AAWATRTATTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00261        Lhx4                               Reverse Complement                      Original Motif                          Backward       1              11             0.023028       

Species: Mus musculus

Original motif
0.238398    0.103056    0.288106    0.370441    
0.528663    0.240528    0.054646    0.176163    
0.410472    0.174022    0.180450    0.235056    
0.393508    0.221555    0.226049    0.158888    
0.076115    0.713665    0.129236    0.080984    
0.011391    0.202097    0.000933    0.785579    
0.915021    0.010032    0.073911    0.001035    
0.986624    0.004305    0.006656    0.002415    
0.002415    0.006656    0.004305    0.986624    
0.001035    0.073911    0.010032    0.915021    
0.785579    0.000933    0.202097    0.011391    
0.080984    0.129236    0.713665    0.076115    
0.093319    0.422657    0.265078    0.218946    
0.088211    0.105808    0.249479    0.556502    
0.310164    0.089961    0.144321    0.455554    
0.058447    0.084506    0.187743    0.669304    
0.180932    0.123294    0.545619    0.150155    
Consensus sequence: DADVCTAATTAGBTWTG

Reverse complement motif
0.180932    0.545619    0.123294    0.150155    
0.669304    0.084506    0.187743    0.058447    
0.455554    0.089961    0.144321    0.310164    
0.556502    0.105808    0.249479    0.088211    
0.093319    0.265078    0.422657    0.218946    
0.080984    0.713665    0.129236    0.076115    
0.011391    0.000933    0.202097    0.785579    
0.915021    0.073911    0.010032    0.001035    
0.986624    0.006656    0.004305    0.002415    
0.002415    0.004305    0.006656    0.986624    
0.001035    0.010032    0.073911    0.915021    
0.785579    0.202097    0.000933    0.011391    
0.076115    0.129236    0.713665    0.080984    
0.158888    0.221555    0.226049    0.393508    
0.235056    0.174022    0.180450    0.410472    
0.176163    0.240528    0.054646    0.528663    
0.370441    0.103056    0.288106    0.238398    
Consensus sequence: CAWABCTAATTAGBDTD

Alignment:
DADVCTAATTAGBTWTG
------AAATAKATWTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00170        Isl2                               Reverse Complement                      Reverse Complement                      Forward        5              11             0.023394       

Species: Mus musculus

Original motif
0.380653    0.464278    0.069710    0.085358    
0.372741    0.252485    0.094893    0.279881    
0.400406    0.346871    0.119279    0.133444    
0.582825    0.148558    0.126868    0.141748    
0.743019    0.117598    0.049691    0.089692    
0.055277    0.296642    0.093515    0.554566    
0.016892    0.507616    0.007671    0.467820    
0.599279    0.361703    0.019061    0.019957    
0.705284    0.282581    0.005323    0.006811    
0.013750    0.013079    0.004736    0.968435    
0.013264    0.013804    0.004612    0.968319    
0.933004    0.004447    0.005179    0.057370    
0.656051    0.041577    0.212432    0.089940    
0.145543    0.109863    0.307597    0.436997    
0.323514    0.098571    0.137254    0.440660    
0.204784    0.284909    0.075638    0.434669    
Consensus sequence: MHHAAYYMATTAADWH

Reverse complement motif
0.434669    0.284909    0.075638    0.204784    
0.440660    0.098571    0.137254    0.323514    
0.436997    0.109863    0.307597    0.145543    
0.089940    0.041577    0.212432    0.656051    
0.057370    0.004447    0.005179    0.933004    
0.968319    0.013804    0.004612    0.013264    
0.968435    0.013079    0.004736    0.013750    
0.006811    0.282581    0.005323    0.705284    
0.019957    0.361703    0.019061    0.599279    
0.016892    0.007671    0.507616    0.467820    
0.554566    0.296642    0.093515    0.055277    
0.089692    0.117598    0.049691    0.743019    
0.141748    0.148558    0.126868    0.582825    
0.133444    0.346871    0.119279    0.400406    
0.279881    0.252485    0.094893    0.372741    
0.380653    0.069710    0.464278    0.085358    
Consensus sequence: HWDTTAATYKMTTHHR

Alignment:
HWDTTAATYKMTTHHR
----AAATAKATWTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00212        Lhx5                               Original Motif                          Reverse Complement                      Backward       7              11             0.023628       

Species: Mus musculus

Original motif
0.192127    0.348816    0.300474    0.158583    
0.251871    0.201197    0.314740    0.232192    
0.469240    0.195840    0.137749    0.197171    
0.620351    0.063061    0.196615    0.119973    
0.026357    0.096838    0.024928    0.851877    
0.010301    0.066114    0.000301    0.923283    
0.980649    0.007663    0.010886    0.000802    
0.981397    0.001294    0.004654    0.012655    
0.012655    0.004654    0.001294    0.981397    
0.000802    0.010886    0.007663    0.980649    
0.923283    0.000301    0.066114    0.010301    
0.851877    0.024928    0.096838    0.026357    
0.528438    0.142302    0.071537    0.257724    
0.296647    0.115284    0.062688    0.525382    
0.401193    0.235971    0.157675    0.205160    
0.309966    0.315367    0.145959    0.228708    
0.089761    0.287439    0.205359    0.417441    
Consensus sequence: VDHATTAATTAAAWHHB

Reverse complement motif
0.417441    0.287439    0.205359    0.089761    
0.309966    0.145959    0.315367    0.228708    
0.205160    0.235971    0.157675    0.401193    
0.525382    0.115284    0.062688    0.296647    
0.257724    0.142302    0.071537    0.528438    
0.026357    0.024928    0.096838    0.851877    
0.010301    0.000301    0.066114    0.923283    
0.980649    0.010886    0.007663    0.000802    
0.981397    0.004654    0.001294    0.012655    
0.012655    0.001294    0.004654    0.981397    
0.000802    0.007663    0.010886    0.980649    
0.923283    0.066114    0.000301    0.010301    
0.851877    0.096838    0.024928    0.026357    
0.119973    0.063061    0.196615    0.620351    
0.197171    0.195840    0.137749    0.469240    
0.251871    0.314740    0.201197    0.232192    
0.192127    0.300474    0.348816    0.158583    
Consensus sequence: VDHWTTTAATTAATHHV

Alignment:
VDHWTTTAATTAATHHV
AAWATRTATTT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00108        Alx3                               Original Motif                          Reverse Complement                      Forward        1              11             0.024326       

Species: Mus musculus

Original motif
0.296149    0.033726    0.127017    0.543109    
0.366485    0.200783    0.243220    0.189512    
0.405110    0.180765    0.159571    0.254554    
0.534568    0.154903    0.228026    0.082504    
0.039813    0.476598    0.008603    0.474987    
0.003992    0.080226    0.001293    0.914489    
0.986740    0.006235    0.003288    0.003738    
0.985422    0.002561    0.008596    0.003421    
0.003421    0.008596    0.002561    0.985422    
0.003738    0.003288    0.006235    0.986740    
0.914489    0.001293    0.080226    0.003992    
0.474987    0.008603    0.476598    0.039813    
0.078830    0.442223    0.054744    0.424202    
0.068037    0.145671    0.102838    0.683453    
0.239872    0.271585    0.339298    0.149245    
0.434309    0.190824    0.135524    0.239342    
0.262173    0.253994    0.285560    0.198273    
Consensus sequence: WVHAYTAATTARYTVHV

Reverse complement motif
0.262173    0.285560    0.253994    0.198273    
0.239342    0.190824    0.135524    0.434309    
0.239872    0.339298    0.271585    0.149245    
0.683453    0.145671    0.102838    0.068037    
0.078830    0.054744    0.442223    0.424202    
0.474987    0.476598    0.008603    0.039813    
0.003992    0.001293    0.080226    0.914489    
0.986740    0.003288    0.006235    0.003738    
0.985422    0.008596    0.002561    0.003421    
0.003421    0.002561    0.008596    0.985422    
0.003738    0.006235    0.003288    0.986740    
0.914489    0.080226    0.001293    0.003992    
0.039813    0.008603    0.476598    0.474987    
0.082504    0.154903    0.228026    0.534568    
0.254554    0.180765    0.159571    0.405110    
0.189512    0.200783    0.243220    0.366485    
0.543109    0.033726    0.127017    0.296149    
Consensus sequence: VHVAKMTAATTAKTHBW

Alignment:
WVHAYTAATTARYTVHV
AAWATRTATTT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00171        Msx3                               Reverse Complement                      Reverse Complement                      Backward       2              11             0.025470       

Species: Mus musculus

Original motif
0.317812    0.352438    0.231628    0.098123    
0.601471    0.133830    0.164947    0.099752    
0.399508    0.293187    0.098524    0.208781    
0.754569    0.054130    0.133622    0.057678    
0.770469    0.088090    0.086904    0.054537    
0.038689    0.673100    0.189096    0.099115    
0.004935    0.522968    0.000482    0.471615    
0.986316    0.001484    0.009222    0.002978    
0.991636    0.005079    0.001457    0.001828    
0.009156    0.001857    0.001081    0.987906    
0.013688    0.006588    0.000191    0.979532    
0.987635    0.000354    0.005166    0.006845    
0.701095    0.027828    0.154852    0.116224    
0.181731    0.184800    0.303458    0.330011    
0.224816    0.221032    0.182405    0.371747    
0.310539    0.208307    0.099081    0.382073    
Consensus sequence: VAHAACYAATTAABHH

Reverse complement motif
0.382073    0.208307    0.099081    0.310539    
0.371747    0.221032    0.182405    0.224816    
0.330011    0.184800    0.303458    0.181731    
0.116224    0.027828    0.154852    0.701095    
0.006845    0.000354    0.005166    0.987635    
0.979532    0.006588    0.000191    0.013688    
0.987906    0.001857    0.001081    0.009156    
0.001828    0.005079    0.001457    0.991636    
0.002978    0.001484    0.009222    0.986316    
0.004935    0.000482    0.522968    0.471615    
0.038689    0.189096    0.673100    0.099115    
0.054537    0.088090    0.086904    0.770469    
0.057678    0.054130    0.133622    0.754569    
0.208781    0.293187    0.098524    0.399508    
0.099752    0.133830    0.164947    0.601471    
0.317812    0.231628    0.352438    0.098123    
Consensus sequence: HHVTTAATTKGTTHTV

Alignment:
HHVTTAATTKGTTHTV
----AAATAKATWTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00250        Irx5                               Original Motif                          Reverse Complement                      Forward        6              11             0.025927       

Species: Mus musculus

Original motif
0.367463    0.110357    0.154650    0.367530    
0.435675    0.104106    0.185653    0.274566    
0.309411    0.166534    0.199426    0.324629    
0.330171    0.218393    0.207727    0.243708    
0.326575    0.006155    0.067531    0.599738    
0.934344    0.018417    0.011430    0.035810    
0.004941    0.961788    0.005465    0.027806    
0.940152    0.001107    0.011177    0.047564    
0.047564    0.011177    0.001107    0.940152    
0.027806    0.005465    0.961788    0.004941    
0.035810    0.011430    0.018417    0.934344    
0.599738    0.067531    0.006155    0.326575    
0.348557    0.239288    0.195868    0.216288    
0.376605    0.112652    0.210787    0.299957    
0.540552    0.074408    0.115847    0.269192    
0.210439    0.212707    0.245294    0.331559    
0.303891    0.113735    0.133741    0.448633    
Consensus sequence: DDDHWACATGTWHDABW

Reverse complement motif
0.448633    0.113735    0.133741    0.303891    
0.331559    0.212707    0.245294    0.210439    
0.269192    0.074408    0.115847    0.540552    
0.299957    0.112652    0.210787    0.376605    
0.216288    0.239288    0.195868    0.348557    
0.326575    0.067531    0.006155    0.599738    
0.934344    0.011430    0.018417    0.035810    
0.027806    0.961788    0.005465    0.004941    
0.940152    0.011177    0.001107    0.047564    
0.047564    0.001107    0.011177    0.940152    
0.004941    0.005465    0.961788    0.027806    
0.035810    0.018417    0.011430    0.934344    
0.599738    0.006155    0.067531    0.326575    
0.243708    0.218393    0.207727    0.330171    
0.324629    0.166534    0.199426    0.309411    
0.274566    0.104106    0.185653    0.435675    
0.367530    0.110357    0.154650    0.367463    
Consensus sequence: WVTDHWACATGTWHDDD

Alignment:
WVTDHWACATGTWHDDD
-----AAWATRTATTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00223        Irx3_2226.1                        Original Motif                          Original Motif                          Forward        5              11             0.026343       

Species: Mus musculus

Original motif
0.402654    0.107068    0.157939    0.332339    
0.381229    0.129621    0.243277    0.245872    
0.271699    0.148903    0.261472    0.317925    
0.278393    0.239730    0.235045    0.246831    
0.223980    0.006073    0.031227    0.738720    
0.952925    0.013731    0.008900    0.024444    
0.005380    0.972117    0.004335    0.018169    
0.945295    0.001062    0.011429    0.042214    
0.042214    0.011429    0.001062    0.945295    
0.018169    0.004335    0.972117    0.005380    
0.024444    0.008900    0.013731    0.952925    
0.738720    0.031227    0.006073    0.223980    
0.449438    0.199271    0.196335    0.154956    
0.266542    0.085070    0.155050    0.493338    
0.412619    0.114771    0.151818    0.320792    
0.175351    0.270485    0.162372    0.391791    
0.355721    0.130415    0.156633    0.357231    
Consensus sequence: DDDHTACATGTAVWDHD

Reverse complement motif
0.357231    0.130415    0.156633    0.355721    
0.391791    0.270485    0.162372    0.175351    
0.320792    0.114771    0.151818    0.412619    
0.493338    0.085070    0.155050    0.266542    
0.154956    0.199271    0.196335    0.449438    
0.223980    0.031227    0.006073    0.738720    
0.952925    0.008900    0.013731    0.024444    
0.018169    0.972117    0.004335    0.005380    
0.945295    0.011429    0.001062    0.042214    
0.042214    0.001062    0.011429    0.945295    
0.005380    0.004335    0.972117    0.018169    
0.024444    0.013731    0.008900    0.952925    
0.738720    0.006073    0.031227    0.223980    
0.246831    0.239730    0.235045    0.278393    
0.317925    0.148903    0.261472    0.271699    
0.245872    0.129621    0.243277    0.381229    
0.332339    0.107068    0.157939    0.402654    
Consensus sequence: DHDWBTACATGTAHDDD

Alignment:
DDDHTACATGTAVWDHD
----AAWATRTATTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 14		Motif name: Motif 14

Original motif
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TAATKATATAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TTATATYATTA


************************************************************************ Best Matches for Motif ID 14 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00264        Hoxa1                              Original Motif                          Reverse Complement                      Forward        5              11             0.022966       

Species: Mus musculus

Original motif
0.189557    0.418057    0.185518    0.206868    
0.144310    0.147945    0.055643    0.652102    
0.268298    0.130092    0.466424    0.135186    
0.623662    0.095919    0.152772    0.127647    
0.266418    0.075174    0.613390    0.045018    
0.076341    0.532879    0.217968    0.172811    
0.006893    0.026113    0.001372    0.965621    
0.960763    0.031216    0.006700    0.001322    
0.990794    0.002636    0.002673    0.003897    
0.005841    0.002488    0.001753    0.989917    
0.002266    0.004876    0.007199    0.985660    
0.956522    0.001370    0.038129    0.003979    
0.280035    0.484469    0.167259    0.068237    
0.144906    0.449298    0.138450    0.267346    
0.107856    0.167050    0.411636    0.313458    
0.061823    0.304997    0.175127    0.458054    
Consensus sequence: HTDAGCTAATTAMHBY

Reverse complement motif
0.458054    0.304997    0.175127    0.061823    
0.107856    0.411636    0.167050    0.313458    
0.144906    0.138450    0.449298    0.267346    
0.280035    0.167259    0.484469    0.068237    
0.003979    0.001370    0.038129    0.956522    
0.985660    0.004876    0.007199    0.002266    
0.989917    0.002488    0.001753    0.005841    
0.003897    0.002636    0.002673    0.990794    
0.001322    0.031216    0.006700    0.960763    
0.965621    0.026113    0.001372    0.006893    
0.076341    0.217968    0.532879    0.172811    
0.266418    0.613390    0.075174    0.045018    
0.127647    0.095919    0.152772    0.623662    
0.268298    0.466424    0.130092    0.135186    
0.652102    0.147945    0.055643    0.144310    
0.189557    0.185518    0.418057    0.206868    
Consensus sequence: MBDRTAATTAGCTHAD

Alignment:
MBDRTAATTAGCTHAD
----TAATKATATAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00129        Pou3f1                             Original Motif                          Original Motif                          Forward        4              11             0.027670       

Species: Mus musculus

Original motif
0.383980    0.129273    0.292995    0.193752    
0.347530    0.257268    0.249014    0.146188    
0.202288    0.273246    0.214253    0.310213    
0.096662    0.048219    0.170550    0.684569    
0.817669    0.126839    0.019054    0.036439    
0.908384    0.034202    0.022731    0.034683    
0.049617    0.009722    0.007610    0.933051    
0.030623    0.010272    0.016239    0.942866    
0.942866    0.016239    0.010272    0.030623    
0.933051    0.007610    0.009722    0.049617    
0.034683    0.022731    0.034202    0.908384    
0.036439    0.019054    0.126839    0.817669    
0.808629    0.107163    0.007221    0.076987    
0.658159    0.103835    0.161364    0.076642    
0.120399    0.197946    0.334527    0.347128    
0.202637    0.115217    0.144762    0.537384    
0.269009    0.275163    0.221820    0.234008    
Consensus sequence: DVBTAATTAATTAABTH

Reverse complement motif
0.269009    0.221820    0.275163    0.234008    
0.537384    0.115217    0.144762    0.202637    
0.347128    0.197946    0.334527    0.120399    
0.076642    0.103835    0.161364    0.658159    
0.076987    0.107163    0.007221    0.808629    
0.817669    0.019054    0.126839    0.036439    
0.908384    0.022731    0.034202    0.034683    
0.049617    0.007610    0.009722    0.933051    
0.030623    0.016239    0.010272    0.942866    
0.942866    0.010272    0.016239    0.030623    
0.933051    0.009722    0.007610    0.049617    
0.034683    0.034202    0.022731    0.908384    
0.036439    0.126839    0.019054    0.817669    
0.684569    0.048219    0.170550    0.096662    
0.310213    0.273246    0.214253    0.202288    
0.146188    0.257268    0.249014    0.347530    
0.193752    0.129273    0.292995    0.383980    
Consensus sequence: DAVTTAATTAATTAVBD

Alignment:
DVBTAATTAATTAABTH
---TAATKATATAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00212        Lhx5                               Original Motif                          Original Motif                          Forward        6              11             0.029546       

Species: Mus musculus

Original motif
0.192127    0.348816    0.300474    0.158583    
0.251871    0.201197    0.314740    0.232192    
0.469240    0.195840    0.137749    0.197171    
0.620351    0.063061    0.196615    0.119973    
0.026357    0.096838    0.024928    0.851877    
0.010301    0.066114    0.000301    0.923283    
0.980649    0.007663    0.010886    0.000802    
0.981397    0.001294    0.004654    0.012655    
0.012655    0.004654    0.001294    0.981397    
0.000802    0.010886    0.007663    0.980649    
0.923283    0.000301    0.066114    0.010301    
0.851877    0.024928    0.096838    0.026357    
0.528438    0.142302    0.071537    0.257724    
0.296647    0.115284    0.062688    0.525382    
0.401193    0.235971    0.157675    0.205160    
0.309966    0.315367    0.145959    0.228708    
0.089761    0.287439    0.205359    0.417441    
Consensus sequence: VDHATTAATTAAAWHHB

Reverse complement motif
0.417441    0.287439    0.205359    0.089761    
0.309966    0.145959    0.315367    0.228708    
0.205160    0.235971    0.157675    0.401193    
0.525382    0.115284    0.062688    0.296647    
0.257724    0.142302    0.071537    0.528438    
0.026357    0.024928    0.096838    0.851877    
0.010301    0.000301    0.066114    0.923283    
0.980649    0.010886    0.007663    0.000802    
0.981397    0.004654    0.001294    0.012655    
0.012655    0.001294    0.004654    0.981397    
0.000802    0.007663    0.010886    0.980649    
0.923283    0.066114    0.000301    0.010301    
0.851877    0.096838    0.024928    0.026357    
0.119973    0.063061    0.196615    0.620351    
0.197171    0.195840    0.137749    0.469240    
0.251871    0.314740    0.201197    0.232192    
0.192127    0.300474    0.348816    0.158583    
Consensus sequence: VDHWTTTAATTAATHHV

Alignment:
VDHATTAATTAAAWHHB
-----TAATKATATAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00130        Lhx3                               Original Motif                          Original Motif                          Forward        6              11             0.029565       

Species: Mus musculus

Original motif
0.226746    0.289244    0.371785    0.112225    
0.256971    0.229670    0.248726    0.264633    
0.556784    0.228344    0.038490    0.176382    
0.631659    0.088282    0.196624    0.083434    
0.021306    0.098213    0.006109    0.874373    
0.016974    0.029949    0.000343    0.952734    
0.971885    0.004194    0.023228    0.000693    
0.983076    0.001653    0.004793    0.010478    
0.010478    0.004793    0.001653    0.983076    
0.000693    0.023228    0.004194    0.971885    
0.952734    0.000343    0.029949    0.016974    
0.874373    0.006109    0.098213    0.021306    
0.425814    0.086548    0.127397    0.360241    
0.343977    0.034349    0.079320    0.542354    
0.412597    0.281154    0.077380    0.228869    
0.338396    0.315969    0.106509    0.239127    
0.112285    0.233324    0.310745    0.343646    
Consensus sequence: VDAATTAATTAAWWHHB

Reverse complement motif
0.343646    0.233324    0.310745    0.112285    
0.239127    0.315969    0.106509    0.338396    
0.228869    0.281154    0.077380    0.412597    
0.542354    0.034349    0.079320    0.343977    
0.360241    0.086548    0.127397    0.425814    
0.021306    0.006109    0.098213    0.874373    
0.016974    0.000343    0.029949    0.952734    
0.971885    0.023228    0.004194    0.000693    
0.983076    0.004793    0.001653    0.010478    
0.010478    0.001653    0.004793    0.983076    
0.000693    0.004194    0.023228    0.971885    
0.952734    0.029949    0.000343    0.016974    
0.874373    0.098213    0.006109    0.021306    
0.083434    0.088282    0.196624    0.631659    
0.176382    0.228344    0.038490    0.556784    
0.264633    0.229670    0.248726    0.256971    
0.226746    0.371785    0.289244    0.112225    
Consensus sequence: VHHWWTTAATTAATTDV

Alignment:
VDAATTAATTAAWWHHB
-----TAATKATATAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00247        Pax4                               Original Motif                          Reverse Complement                      Backward       1              11             0.030993       

Species: Mus musculus

Original motif
0.418022    0.079008    0.069207    0.433763    
0.227146    0.305729    0.334351    0.132774    
0.403563    0.184272    0.244083    0.168082    
0.369663    0.142527    0.191981    0.295828    
0.017813    0.596801    0.016691    0.368695    
0.030042    0.009279    0.044474    0.916205    
0.982868    0.002754    0.008192    0.006185    
0.986424    0.003358    0.006127    0.004090    
0.004090    0.006127    0.003358    0.986424    
0.006185    0.008192    0.002754    0.982868    
0.916205    0.044474    0.009279    0.030042    
0.368695    0.016691    0.596801    0.017813    
0.114118    0.515974    0.077464    0.292444    
0.138586    0.368674    0.232821    0.259920    
0.177848    0.439823    0.318020    0.064310    
0.344798    0.096757    0.305287    0.253158    
0.284211    0.345130    0.175933    0.194726    
Consensus sequence: WVVDYTAATTARYBSDH

Reverse complement motif
0.284211    0.175933    0.345130    0.194726    
0.253158    0.096757    0.305287    0.344798    
0.177848    0.318020    0.439823    0.064310    
0.138586    0.232821    0.368674    0.259920    
0.114118    0.077464    0.515974    0.292444    
0.368695    0.596801    0.016691    0.017813    
0.030042    0.044474    0.009279    0.916205    
0.982868    0.008192    0.002754    0.006185    
0.986424    0.006127    0.003358    0.004090    
0.004090    0.003358    0.006127    0.986424    
0.006185    0.002754    0.008192    0.982868    
0.916205    0.009279    0.044474    0.030042    
0.017813    0.016691    0.596801    0.368695    
0.295828    0.142527    0.191981    0.369663    
0.168082    0.184272    0.244083    0.403563    
0.227146    0.334351    0.305729    0.132774    
0.433763    0.079008    0.069207    0.418022    
Consensus sequence: DDSBKMTAATTAKDBVW

Alignment:
DDSBKMTAATTAKDBVW
------TAATKATATAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00108        Alx3                               Original Motif                          Reverse Complement                      Forward        7              11             0.031908       

Species: Mus musculus

Original motif
0.296149    0.033726    0.127017    0.543109    
0.366485    0.200783    0.243220    0.189512    
0.405110    0.180765    0.159571    0.254554    
0.534568    0.154903    0.228026    0.082504    
0.039813    0.476598    0.008603    0.474987    
0.003992    0.080226    0.001293    0.914489    
0.986740    0.006235    0.003288    0.003738    
0.985422    0.002561    0.008596    0.003421    
0.003421    0.008596    0.002561    0.985422    
0.003738    0.003288    0.006235    0.986740    
0.914489    0.001293    0.080226    0.003992    
0.474987    0.008603    0.476598    0.039813    
0.078830    0.442223    0.054744    0.424202    
0.068037    0.145671    0.102838    0.683453    
0.239872    0.271585    0.339298    0.149245    
0.434309    0.190824    0.135524    0.239342    
0.262173    0.253994    0.285560    0.198273    
Consensus sequence: WVHAYTAATTARYTVHV

Reverse complement motif
0.262173    0.285560    0.253994    0.198273    
0.239342    0.190824    0.135524    0.434309    
0.239872    0.339298    0.271585    0.149245    
0.683453    0.145671    0.102838    0.068037    
0.078830    0.054744    0.442223    0.424202    
0.474987    0.476598    0.008603    0.039813    
0.003992    0.001293    0.080226    0.914489    
0.986740    0.003288    0.006235    0.003738    
0.985422    0.008596    0.002561    0.003421    
0.003421    0.002561    0.008596    0.985422    
0.003738    0.006235    0.003288    0.986740    
0.914489    0.080226    0.001293    0.003992    
0.039813    0.008603    0.476598    0.474987    
0.082504    0.154903    0.228026    0.534568    
0.254554    0.180765    0.159571    0.405110    
0.189512    0.200783    0.243220    0.366485    
0.543109    0.033726    0.127017    0.296149    
Consensus sequence: VHVAKMTAATTAKTHBW

Alignment:
VHVAKMTAATTAKTHBW
------TAATKATATAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00105        Pou3f4                             Original Motif                          Original Motif                          Forward        4              11             0.032354       

Species: Mus musculus

Original motif
0.333256    0.132424    0.289920    0.244400    
0.331200    0.265280    0.244521    0.158999    
0.206284    0.201415    0.180436    0.411864    
0.121526    0.066278    0.220348    0.591848    
0.836640    0.078351    0.021503    0.063506    
0.916787    0.033485    0.017390    0.032338    
0.064856    0.009246    0.006903    0.918996    
0.027148    0.008390    0.016874    0.947588    
0.947588    0.016874    0.008390    0.027148    
0.918996    0.006903    0.009246    0.064856    
0.032338    0.017390    0.033485    0.916787    
0.063506    0.021503    0.078351    0.836640    
0.822585    0.074316    0.009738    0.093361    
0.480273    0.158803    0.195041    0.165883    
0.248880    0.178794    0.261624    0.310702    
0.212936    0.127454    0.166193    0.493416    
0.157615    0.478760    0.161072    0.202554    
Consensus sequence: DVHTAATTAATTADDDB

Reverse complement motif
0.157615    0.161072    0.478760    0.202554    
0.493416    0.127454    0.166193    0.212936    
0.310702    0.178794    0.261624    0.248880    
0.165883    0.158803    0.195041    0.480273    
0.093361    0.074316    0.009738    0.822585    
0.836640    0.021503    0.078351    0.063506    
0.916787    0.017390    0.033485    0.032338    
0.064856    0.006903    0.009246    0.918996    
0.027148    0.016874    0.008390    0.947588    
0.947588    0.008390    0.016874    0.027148    
0.918996    0.009246    0.006903    0.064856    
0.032338    0.033485    0.017390    0.916787    
0.063506    0.078351    0.021503    0.836640    
0.591848    0.066278    0.220348    0.121526    
0.411864    0.201415    0.180436    0.206284    
0.158999    0.265280    0.244521    0.331200    
0.244400    0.132424    0.289920    0.333256    
Consensus sequence: BDDDTAATTAATTAHBD

Alignment:
DVHTAATTAATTADDDB
---TAATKATATAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00202        Dlx1                               Original Motif                          Reverse Complement                      Backward       2              11             0.032745       

Species: Mus musculus

Original motif
0.163842    0.291218    0.273647    0.271293    
0.132817    0.241988    0.127403    0.497792    
0.169467    0.114132    0.606759    0.109642    
0.447414    0.244155    0.212138    0.096293    
0.352705    0.065283    0.403228    0.178784    
0.285954    0.141939    0.371251    0.200856    
0.008260    0.119989    0.001052    0.870700    
0.987317    0.005592    0.005756    0.001335    
0.990185    0.002369    0.001821    0.005626    
0.007233    0.001028    0.002257    0.989482    
0.003462    0.007126    0.008135    0.981277    
0.942617    0.000920    0.045030    0.011433    
0.408909    0.192781    0.197071    0.201240    
0.076008    0.358323    0.120230    0.445440    
Consensus sequence: BHGVRDTAATTADY

Reverse complement motif
0.445440    0.358323    0.120230    0.076008    
0.201240    0.192781    0.197071    0.408909    
0.011433    0.000920    0.045030    0.942617    
0.981277    0.007126    0.008135    0.003462    
0.989482    0.001028    0.002257    0.007233    
0.005626    0.002369    0.001821    0.990185    
0.001335    0.005592    0.005756    0.987317    
0.870700    0.119989    0.001052    0.008260    
0.285954    0.371251    0.141939    0.200856    
0.352705    0.403228    0.065283    0.178784    
0.096293    0.244155    0.212138    0.447414    
0.169467    0.606759    0.114132    0.109642    
0.497792    0.241988    0.127403    0.132817    
0.163842    0.273647    0.291218    0.271293    
Consensus sequence: MDTAATTAHMBCHB

Alignment:
MDTAATTAHMBCHB
--TAATKATATAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00128        Pou3f2                             Original Motif                          Reverse Complement                      Forward        6              11             0.032890       

Species: Mus musculus

Original motif
0.153980    0.256313    0.453304    0.136403    
0.293307    0.185897    0.233506    0.287290    
0.231217    0.106311    0.217581    0.444891    
0.694066    0.066485    0.110573    0.128876    
0.617717    0.144842    0.099112    0.138329    
0.070264    0.240528    0.004998    0.684210    
0.014444    0.030268    0.005503    0.949784    
0.972612    0.013685    0.004717    0.008987    
0.980758    0.002352    0.003968    0.012922    
0.013839    0.002478    0.003880    0.979802    
0.010216    0.005118    0.047808    0.936857    
0.955106    0.017358    0.006582    0.020954    
0.358783    0.018538    0.532778    0.089901    
0.089493    0.164493    0.267539    0.478475    
0.247125    0.136760    0.281060    0.335056    
0.242054    0.255243    0.206580    0.296122    
0.284093    0.145319    0.355081    0.215506    
Consensus sequence: VDDAATTAATTARBDHD

Reverse complement motif
0.284093    0.355081    0.145319    0.215506    
0.296122    0.255243    0.206580    0.242054    
0.335056    0.136760    0.281060    0.247125    
0.478475    0.164493    0.267539    0.089493    
0.358783    0.532778    0.018538    0.089901    
0.020954    0.017358    0.006582    0.955106    
0.936857    0.005118    0.047808    0.010216    
0.979802    0.002478    0.003880    0.013839    
0.012922    0.002352    0.003968    0.980758    
0.008987    0.013685    0.004717    0.972612    
0.949784    0.030268    0.005503    0.014444    
0.684210    0.240528    0.004998    0.070264    
0.138329    0.144842    0.099112    0.617717    
0.128876    0.066485    0.110573    0.694066    
0.444891    0.106311    0.217581    0.231217    
0.287290    0.185897    0.233506    0.293307    
0.153980    0.453304    0.256313    0.136403    
Consensus sequence: HHDVMTAATTAATTDDV

Alignment:
HHDVMTAATTAATTDDV
-----TAATKATATAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00266        Prrx1                              Original Motif                          Reverse Complement                      Forward        7              11             0.033147       

Species: Mus musculus

Original motif
0.253670    0.274722    0.311514    0.160094    
0.142661    0.147239    0.267582    0.442518    
0.550773    0.218031    0.102023    0.129173    
0.638511    0.097957    0.200256    0.063275    
0.033238    0.630091    0.034920    0.301751    
0.010596    0.084792    0.002672    0.901941    
0.978487    0.005759    0.012099    0.003655    
0.988730    0.002072    0.006630    0.002568    
0.003055    0.005516    0.002393    0.989036    
0.001886    0.013121    0.004234    0.980759    
0.945982    0.000473    0.036032    0.017513    
0.492644    0.048622    0.426186    0.032548    
0.032076    0.477120    0.163099    0.327705    
0.087306    0.062675    0.109007    0.741011    
0.398317    0.165475    0.249687    0.186521    
0.195630    0.391763    0.253591    0.159016    
0.054732    0.179801    0.168037    0.597430    
Consensus sequence: VBAACTAATTARYTDVT

Reverse complement motif
0.597430    0.179801    0.168037    0.054732    
0.195630    0.253591    0.391763    0.159016    
0.186521    0.165475    0.249687    0.398317    
0.741011    0.062675    0.109007    0.087306    
0.032076    0.163099    0.477120    0.327705    
0.032548    0.048622    0.426186    0.492644    
0.017513    0.000473    0.036032    0.945982    
0.980759    0.013121    0.004234    0.001886    
0.989036    0.005516    0.002393    0.003055    
0.002568    0.002072    0.006630    0.988730    
0.003655    0.005759    0.012099    0.978487    
0.901941    0.084792    0.002672    0.010596    
0.033238    0.034920    0.630091    0.301751    
0.063275    0.097957    0.200256    0.638511    
0.129173    0.218031    0.102023    0.550773    
0.442518    0.147239    0.267582    0.142661    
0.253670    0.311514    0.274722    0.160094    
Consensus sequence: AVDAKKTAATTAGTTVV

Alignment:
AVDAKKTAATTAGTTVV
------TAATKATATAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 15		Motif name: Motif 15

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.500000    0.000000    0.500000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.500000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAAGRTMAAACTA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TAGTTTYAKCTTT


************************************************************************ Best Matches for Motif ID 15 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00074        Isgf3g_primary                     Reverse Complement                      Reverse Complement                      Forward        2              13             0.035956       

Species: Mus musculus

Original motif
0.276786    0.305435    0.213026    0.204753    
0.396362    0.114731    0.248667    0.240240    
0.461284    0.092047    0.334734    0.111936    
0.775091    0.019703    0.057075    0.148131    
0.860742    0.032827    0.020878    0.085553    
0.318035    0.134940    0.114054    0.432971    
0.031989    0.819436    0.031529    0.117045    
0.038741    0.005309    0.945956    0.009995    
0.961581    0.018494    0.013401    0.006524    
0.943392    0.004223    0.007869    0.044516    
0.964748    0.010789    0.003727    0.020735    
0.029401    0.875794    0.079869    0.014937    
0.034572    0.294928    0.012201    0.658299    
0.370121    0.165750    0.227886    0.236243    
0.803710    0.072510    0.054519    0.069261    
Consensus sequence: VDRAAWCGAAACTDA

Reverse complement motif
0.069261    0.072510    0.054519    0.803710    
0.236243    0.165750    0.227886    0.370121    
0.658299    0.294928    0.012201    0.034572    
0.029401    0.079869    0.875794    0.014937    
0.020735    0.010789    0.003727    0.964748    
0.044516    0.004223    0.007869    0.943392    
0.006524    0.018494    0.013401    0.961581    
0.038741    0.945956    0.005309    0.009995    
0.031989    0.031529    0.819436    0.117045    
0.432971    0.134940    0.114054    0.318035    
0.085553    0.032827    0.020878    0.860742    
0.148131    0.019703    0.057075    0.775091    
0.111936    0.092047    0.334734    0.461284    
0.240240    0.114731    0.248667    0.396362    
0.276786    0.213026    0.305435    0.204753    
Consensus sequence: TDAGTTTCGWTTKDV

Alignment:
TDAGTTTCGWTTKDV
-TAGTTTYAKCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Original Motif                          Reverse Complement                      Backward       4              13             0.037114       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
BDDASATCAAAGGMDDD
-AAAGRTMAAACTA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Original Motif                          Backward       4              13             0.037717       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH
-AAAGRTMAAACTA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Original Motif                          Backward       4              13             0.039468       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHASATCAAAGVRHHH
-AAAGRTMAAACTA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Reverse Complement                      Reverse Complement                      Backward       6              13             0.040601       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
HBHDVHDTCTTATCTHTDDHDV
----TAGTTTYAKCTTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Backward       4              13             0.041194       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
-AAAGRTMAAACTA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Original Motif                          Backward       1              13             0.042799       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
----AAAGRTMAAACTA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Original Motif                          Forward        2              13             0.047360       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
DWAATRTAAACAAWVVB
-AAAGRTMAAACTA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00040        Irf5_primary                       Reverse Complement                      Reverse Complement                      Backward       2              13             0.047451       

Species: Mus musculus

Original motif
0.337548    0.193688    0.194039    0.274725    
0.279950    0.185928    0.199501    0.334621    
0.357304    0.160203    0.278768    0.203725    
0.499782    0.069569    0.166858    0.263790    
0.832538    0.022992    0.085287    0.059183    
0.144788    0.434769    0.040595    0.379848    
0.016035    0.943520    0.003379    0.037067    
0.014208    0.001713    0.982579    0.001500    
0.985572    0.004274    0.008722    0.001432    
0.894404    0.001440    0.007585    0.096571    
0.991307    0.002706    0.001993    0.003994    
0.011143    0.973529    0.013241    0.002087    
0.016468    0.532173    0.009621    0.441739    
0.462373    0.120288    0.237126    0.180213    
0.392685    0.223865    0.229697    0.153753    
Consensus sequence: DDDWAYCGAAACYDV

Reverse complement motif
0.153753    0.223865    0.229697    0.392685    
0.180213    0.120288    0.237126    0.462373    
0.016468    0.009621    0.532173    0.441739    
0.011143    0.013241    0.973529    0.002087    
0.003994    0.002706    0.001993    0.991307    
0.096571    0.001440    0.007585    0.894404    
0.001432    0.004274    0.008722    0.985572    
0.014208    0.982579    0.001713    0.001500    
0.016035    0.003379    0.943520    0.037067    
0.144788    0.040595    0.434769    0.379848    
0.059183    0.022992    0.085287    0.832538    
0.263790    0.069569    0.166858    0.499782    
0.203725    0.160203    0.278768    0.357304    
0.334621    0.185928    0.199501    0.279950    
0.274725    0.193688    0.194039    0.337548    
Consensus sequence: BDKGTTTCGKTWDDD

Alignment:
BDKGTTTCGKTWDDD
-TAGTTTYAKCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00199        Six4                               Reverse Complement                      Reverse Complement                      Backward       1              13             0.047702       

Species: Mus musculus

Original motif
0.523054    0.168817    0.140331    0.167798    
0.187385    0.177009    0.246164    0.389442    
0.414492    0.118547    0.308876    0.158085    
0.345234    0.289795    0.130249    0.234723    
0.611522    0.116948    0.098944    0.172586    
0.016342    0.029436    0.015062    0.939161    
0.014351    0.004796    0.962435    0.018418    
0.987454    0.005228    0.002590    0.004727    
0.007431    0.812214    0.005849    0.174506    
0.969354    0.025386    0.002362    0.002898    
0.005123    0.989068    0.003362    0.002447    
0.001424    0.969981    0.012011    0.016585    
0.209729    0.227411    0.210523    0.352337    
0.341679    0.297940    0.104590    0.255792    
0.126190    0.288862    0.245018    0.339930    
0.173008    0.295896    0.252422    0.278674    
0.409639    0.210750    0.296197    0.083415    
Consensus sequence: ADDHATGACACCBHBBV

Reverse complement motif
0.083415    0.210750    0.296197    0.409639    
0.173008    0.252422    0.295896    0.278674    
0.339930    0.288862    0.245018    0.126190    
0.255792    0.297940    0.104590    0.341679    
0.352337    0.227411    0.210523    0.209729    
0.001424    0.012011    0.969981    0.016585    
0.005123    0.003362    0.989068    0.002447    
0.002898    0.025386    0.002362    0.969354    
0.007431    0.005849    0.812214    0.174506    
0.004727    0.005228    0.002590    0.987454    
0.014351    0.962435    0.004796    0.018418    
0.939161    0.029436    0.015062    0.016342    
0.172586    0.116948    0.098944    0.611522    
0.234723    0.289795    0.130249    0.345234    
0.158085    0.118547    0.308876    0.414492    
0.389442    0.177009    0.246164    0.187385    
0.167798    0.168817    0.140331    0.523054    
Consensus sequence: BBVHVGGTGTCATHDDT

Alignment:
BBVHVGGTGTCATHDDT
----TAGTTTYAKCTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 16		Motif name: Motif 16

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TCTKTGTCAAWA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TWTTGACAYAGA


************************************************************************ Best Matches for Motif ID 16 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00258        Tgif2                              Reverse Complement                      Reverse Complement                      Forward        2              12             0.002945       

Species: Mus musculus

Original motif
0.519684    0.141807    0.112153    0.226356    
0.614097    0.079211    0.138045    0.168647    
0.186975    0.327654    0.245051    0.240320    
0.108289    0.303530    0.219106    0.369076    
0.914812    0.012014    0.046628    0.026546    
0.070482    0.163253    0.689315    0.076951    
0.016354    0.972639    0.003648    0.007359    
0.002043    0.018718    0.000384    0.978855    
0.006109    0.001408    0.990736    0.001747    
0.024783    0.002060    0.000402    0.972755    
0.001485    0.991963    0.001756    0.004796    
0.989335    0.001052    0.002320    0.007293    
0.778804    0.056366    0.037632    0.127198    
0.377980    0.094597    0.086888    0.440535    
0.458125    0.289431    0.152762    0.099682    
0.223103    0.435348    0.216962    0.124587    
Consensus sequence: AABBAGCTGTCAAWVV

Reverse complement motif
0.223103    0.216962    0.435348    0.124587    
0.099682    0.289431    0.152762    0.458125    
0.440535    0.094597    0.086888    0.377980    
0.127198    0.056366    0.037632    0.778804    
0.007293    0.001052    0.002320    0.989335    
0.001485    0.001756    0.991963    0.004796    
0.972755    0.002060    0.000402    0.024783    
0.006109    0.990736    0.001408    0.001747    
0.978855    0.018718    0.000384    0.002043    
0.016354    0.003648    0.972639    0.007359    
0.070482    0.689315    0.163253    0.076951    
0.026546    0.012014    0.046628    0.914812    
0.369076    0.303530    0.219106    0.108289    
0.186975    0.245051    0.327654    0.240320    
0.168647    0.079211    0.138045    0.614097    
0.226356    0.141807    0.112153    0.519684    
Consensus sequence: VBWTTGACAGCTVBTT

Alignment:
VBWTTGACAGCTVBTT
-TWTTGACAYAGA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00210        Mrg2                               Reverse Complement                      Reverse Complement                      Backward       4              12             0.007097       

Species: Mus musculus

Original motif
0.451361    0.129344    0.139593    0.279702    
0.590642    0.061045    0.179638    0.168676    
0.264848    0.211505    0.252514    0.271134    
0.108876    0.280056    0.299987    0.311081    
0.771098    0.021050    0.148609    0.059244    
0.030292    0.505912    0.423702    0.040094    
0.053400    0.869563    0.021964    0.055073    
0.001749    0.029333    0.000487    0.968430    
0.007267    0.000536    0.989450    0.002747    
0.031237    0.006659    0.000558    0.961545    
0.001520    0.992342    0.001637    0.004501    
0.976582    0.004910    0.010811    0.007697    
0.640869    0.062002    0.032830    0.264299    
0.318843    0.128253    0.123096    0.429808    
0.432137    0.269895    0.155457    0.142512    
0.247124    0.427480    0.147164    0.178233    
Consensus sequence: DADBASCTGTCAAHVH

Reverse complement motif
0.247124    0.147164    0.427480    0.178233    
0.142512    0.269895    0.155457    0.432137    
0.429808    0.128253    0.123096    0.318843    
0.264299    0.062002    0.032830    0.640869    
0.007697    0.004910    0.010811    0.976582    
0.001520    0.001637    0.992342    0.004501    
0.961545    0.006659    0.000558    0.031237    
0.007267    0.989450    0.000536    0.002747    
0.968430    0.029333    0.000487    0.001749    
0.053400    0.021964    0.869563    0.055073    
0.030292    0.423702    0.505912    0.040094    
0.059244    0.021050    0.148609    0.771098    
0.311081    0.280056    0.299987    0.108876    
0.271134    0.211505    0.252514    0.264848    
0.168676    0.061045    0.179638    0.590642    
0.279702    0.129344    0.139593    0.451361    
Consensus sequence: DBHTTGACAGSTVDTD

Alignment:
DBHTTGACAGSTVDTD
-TWTTGACAYAGA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00186        Meis1                              Original Motif                          Original Motif                          Forward        4              12             0.008839       

Species: Mus musculus

Original motif
0.432115    0.114994    0.130835    0.322056    
0.508081    0.060822    0.214256    0.216841    
0.225875    0.276028    0.280982    0.217115    
0.092373    0.286687    0.360933    0.260007    
0.947172    0.005937    0.028595    0.018297    
0.027829    0.439935    0.505051    0.027185    
0.023801    0.963424    0.008205    0.004571    
0.001548    0.018215    0.000406    0.979831    
0.008422    0.001124    0.989007    0.001446    
0.025343    0.004094    0.000241    0.970323    
0.001451    0.992789    0.002037    0.003724    
0.991202    0.001638    0.003159    0.004002    
0.695910    0.022145    0.013657    0.268288    
0.357895    0.090931    0.093796    0.457378    
0.453163    0.204395    0.181067    0.161376    
0.200615    0.393437    0.171398    0.234551    
Consensus sequence: WAVBASCTGTCAAWVH

Reverse complement motif
0.200615    0.171398    0.393437    0.234551    
0.161376    0.204395    0.181067    0.453163    
0.457378    0.090931    0.093796    0.357895    
0.268288    0.022145    0.013657    0.695910    
0.004002    0.001638    0.003159    0.991202    
0.001451    0.002037    0.992789    0.003724    
0.970323    0.004094    0.000241    0.025343    
0.008422    0.989007    0.001124    0.001446    
0.979831    0.018215    0.000406    0.001548    
0.023801    0.008205    0.963424    0.004571    
0.027829    0.505051    0.439935    0.027185    
0.018297    0.005937    0.028595    0.947172    
0.092373    0.360933    0.286687    0.260007    
0.225875    0.280982    0.276028    0.217115    
0.216841    0.060822    0.214256    0.508081    
0.322056    0.114994    0.130835    0.432115    
Consensus sequence: DBWTTGACAGSTBVTW

Alignment:
WAVBASCTGTCAAWVH
---TCTKTGTCAAWA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00226        Mrg1                               Original Motif                          Original Motif                          Forward        4              12             0.009000       

Species: Mus musculus

Original motif
0.378836    0.145096    0.102046    0.374022    
0.507161    0.090730    0.177058    0.225051    
0.277496    0.234581    0.275775    0.212149    
0.065300    0.339403    0.360939    0.234358    
0.918963    0.010948    0.043262    0.026826    
0.017295    0.545133    0.416603    0.020969    
0.023391    0.962223    0.007311    0.007075    
0.001760    0.020258    0.000360    0.977622    
0.013946    0.000586    0.983699    0.001769    
0.035910    0.004825    0.000197    0.959068    
0.001465    0.991446    0.001338    0.005750    
0.986785    0.001158    0.005848    0.006209    
0.715894    0.043046    0.018966    0.222093    
0.332332    0.084841    0.098421    0.484405    
0.473739    0.198580    0.152072    0.175610    
0.211505    0.325971    0.212211    0.250313    
Consensus sequence: WAVBASCTGTCAAWHB

Reverse complement motif
0.211505    0.212211    0.325971    0.250313    
0.175610    0.198580    0.152072    0.473739    
0.484405    0.084841    0.098421    0.332332    
0.222093    0.043046    0.018966    0.715894    
0.006209    0.001158    0.005848    0.986785    
0.001465    0.001338    0.991446    0.005750    
0.959068    0.004825    0.000197    0.035910    
0.013946    0.983699    0.000586    0.001769    
0.977622    0.020258    0.000360    0.001760    
0.023391    0.007311    0.962223    0.007075    
0.017295    0.416603    0.545133    0.020969    
0.026826    0.010948    0.043262    0.918963    
0.065300    0.360939    0.339403    0.234358    
0.212149    0.234581    0.275775    0.277496    
0.225051    0.090730    0.177058    0.507161    
0.374022    0.145096    0.102046    0.378836    
Consensus sequence: BHWTTGACAGSTBBTW

Alignment:
WAVBASCTGTCAAWHB
---TCTKTGTCAAWA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Reverse Complement                      Original Motif                          Forward        3              12             0.012804       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DABWWTGACAGCTVVBD
--TWTTGACAYAGA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Reverse Complement                      Reverse Complement                      Backward       1              12             0.014575       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
BDVTTTKTTTACWTWHH
-----TWTTGACAYAGA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00205        Pknox2                             Reverse Complement                      Reverse Complement                      Backward       4              12             0.014737       

Species: Mus musculus

Original motif
0.428425    0.195557    0.163102    0.212916    
0.596487    0.103248    0.171370    0.128895    
0.255216    0.203813    0.424426    0.116546    
0.034183    0.441823    0.347767    0.176227    
0.613880    0.025627    0.347719    0.012774    
0.028636    0.551817    0.409264    0.010283    
0.020873    0.969731    0.003025    0.006371    
0.001171    0.039795    0.000323    0.958710    
0.004303    0.001241    0.992873    0.001583    
0.014490    0.007334    0.000309    0.977866    
0.000873    0.991756    0.001920    0.005451    
0.979609    0.000960    0.015793    0.003638    
0.586289    0.199905    0.051181    0.162625    
0.207586    0.157832    0.051564    0.583018    
0.295651    0.262238    0.182998    0.259112    
0.158213    0.267067    0.215259    0.359461    
Consensus sequence: HAVSRSCTGTCAATHB

Reverse complement motif
0.359461    0.267067    0.215259    0.158213    
0.259112    0.262238    0.182998    0.295651    
0.583018    0.157832    0.051564    0.207586    
0.162625    0.199905    0.051181    0.586289    
0.003638    0.000960    0.015793    0.979609    
0.000873    0.001920    0.991756    0.005451    
0.977866    0.007334    0.000309    0.014490    
0.004303    0.992873    0.001241    0.001583    
0.958710    0.039795    0.000323    0.001171    
0.020873    0.003025    0.969731    0.006371    
0.028636    0.409264    0.551817    0.010283    
0.012774    0.025627    0.347719    0.613880    
0.034183    0.347767    0.441823    0.176227    
0.255216    0.424426    0.203813    0.116546    
0.128895    0.103248    0.171370    0.596487    
0.212916    0.195557    0.163102    0.428425    
Consensus sequence: VHATTGACAGSKSVTH

Alignment:
VHATTGACAGSKSVTH
-TWTTGACAYAGA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00203        Pknox1                             Original Motif                          Original Motif                          Forward        4              12             0.014779       

Species: Mus musculus

Original motif
0.436259    0.086706    0.169714    0.307321    
0.433826    0.063296    0.358082    0.144795    
0.324190    0.284651    0.208786    0.182372    
0.054648    0.285295    0.518967    0.141090    
0.922874    0.012239    0.042656    0.022231    
0.036668    0.581917    0.338993    0.042422    
0.021599    0.968542    0.006920    0.002939    
0.001846    0.026071    0.000271    0.971812    
0.007232    0.000773    0.989645    0.002350    
0.019103    0.005771    0.000209    0.974917    
0.001535    0.989111    0.000852    0.008502    
0.989698    0.000915    0.004907    0.004480    
0.679114    0.077050    0.037931    0.205904    
0.330007    0.110122    0.067993    0.491878    
0.286458    0.421726    0.186579    0.105236    
0.199258    0.473968    0.173008    0.153766    
Consensus sequence: DRVSASCTGTCAAWVV

Reverse complement motif
0.199258    0.173008    0.473968    0.153766    
0.286458    0.186579    0.421726    0.105236    
0.491878    0.110122    0.067993    0.330007    
0.205904    0.077050    0.037931    0.679114    
0.004480    0.000915    0.004907    0.989698    
0.001535    0.000852    0.989111    0.008502    
0.974917    0.005771    0.000209    0.019103    
0.007232    0.989645    0.000773    0.002350    
0.971812    0.026071    0.000271    0.001846    
0.021599    0.006920    0.968542    0.002939    
0.036668    0.338993    0.581917    0.042422    
0.022231    0.012239    0.042656    0.922874    
0.054648    0.518967    0.285295    0.141090    
0.182372    0.284651    0.208786    0.324190    
0.144795    0.063296    0.358082    0.433826    
0.307321    0.086706    0.169714    0.436259    
Consensus sequence: VVWTTGACAGSTSBKD

Alignment:
DRVSASCTGTCAAWVV
---TCTKTGTCAAWA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Reverse Complement                      Original Motif                          Backward       1              12             0.015047       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
HAAWDTGCTGACDWARH
-----TWTTGACAYAGA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00103        Jundm2_secondary                   Reverse Complement                      Reverse Complement                      Backward       4              12             0.016711       

Species: Mus musculus

Original motif
0.330782    0.277751    0.217248    0.174219    
0.254084    0.133750    0.268028    0.344139    
0.102715    0.138642    0.266735    0.491907    
0.211090    0.115754    0.489453    0.183704    
0.634392    0.029243    0.325725    0.010641    
0.004585    0.006792    0.004564    0.984059    
0.003235    0.005036    0.896873    0.094857    
0.914016    0.069061    0.002354    0.014569    
0.011308    0.444033    0.533844    0.010815    
0.007986    0.005770    0.003251    0.982993    
0.043876    0.948120    0.005054    0.002950    
0.985583    0.003417    0.008056    0.002944    
0.017035    0.521313    0.032053    0.429599    
0.331412    0.414679    0.097833    0.156076    
0.317623    0.218390    0.235348    0.228638    
0.308376    0.291095    0.191412    0.209116    
Consensus sequence: VDKDRTGASTCAYHDH

Reverse complement motif
0.209116    0.291095    0.191412    0.308376    
0.228638    0.218390    0.235348    0.317623    
0.331412    0.097833    0.414679    0.156076    
0.017035    0.032053    0.521313    0.429599    
0.002944    0.003417    0.008056    0.985583    
0.043876    0.005054    0.948120    0.002950    
0.982993    0.005770    0.003251    0.007986    
0.011308    0.533844    0.444033    0.010815    
0.014569    0.069061    0.002354    0.914016    
0.003235    0.896873    0.005036    0.094857    
0.984059    0.006792    0.004564    0.004585    
0.010641    0.029243    0.325725    0.634392    
0.211090    0.489453    0.115754    0.183704    
0.491907    0.138642    0.266735    0.102715    
0.344139    0.133750    0.268028    0.254084    
0.174219    0.277751    0.217248    0.330782    
Consensus sequence: HDDKTGASTCAKHRDB

Alignment:
HDDKTGASTCAKHRDB
-TWTTGACAYAGA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 17		Motif name: Motif 17

Original motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: CTTCTGACCTC

Reserve complement motif
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: GAGGTCAGAAG


************************************************************************ Best Matches for Motif ID 17 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_secondary                    Reverse Complement                      Original Motif                          Forward        6              11             0.000000       

Species: Mus musculus

Original motif
0.252126    0.268706    0.351590    0.127578    
0.158171    0.083434    0.389646    0.368749    
0.180010    0.290882    0.279192    0.249916    
0.206905    0.249360    0.275438    0.268296    
0.756588    0.046202    0.023921    0.173289    
0.018262    0.022596    0.949143    0.010000    
0.206468    0.046491    0.745475    0.001566    
0.005511    0.001141    0.983152    0.010196    
0.004791    0.001893    0.985951    0.007365    
0.027643    0.001133    0.008565    0.962659    
0.002459    0.970934    0.007826    0.018780    
0.924387    0.003164    0.071225    0.001224    
0.419387    0.230189    0.111588    0.238836    
0.290954    0.163823    0.341233    0.203991    
0.196768    0.281307    0.313868    0.208056    
0.128428    0.260428    0.378607    0.232537    
0.269305    0.378895    0.123480    0.228320    
Consensus sequence: VKBBAGGGGTCAHDBBH

Reverse complement motif
0.269305    0.123480    0.378895    0.228320    
0.128428    0.378607    0.260428    0.232537    
0.196768    0.313868    0.281307    0.208056    
0.290954    0.341233    0.163823    0.203991    
0.238836    0.230189    0.111588    0.419387    
0.001224    0.003164    0.071225    0.924387    
0.002459    0.007826    0.970934    0.018780    
0.962659    0.001133    0.008565    0.027643    
0.004791    0.985951    0.001893    0.007365    
0.005511    0.983152    0.001141    0.010196    
0.206468    0.745475    0.046491    0.001566    
0.018262    0.949143    0.022596    0.010000    
0.173289    0.046202    0.023921    0.756588    
0.206905    0.275438    0.249360    0.268296    
0.180010    0.279192    0.290882    0.249916    
0.158171    0.389646    0.083434    0.368749    
0.252126    0.351590    0.268706    0.127578    
Consensus sequence: DBBHHTGACCCCTBBYV

Alignment:
VKBBAGGGGTCAHDBBH
-----GAGGTCAGAAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Reverse Complement                      Reverse Complement                      Backward       5              11             0.003154       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
DMTWDGTCAGCADWTTH
--GAGGTCAGAAG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Reverse Complement                      Original Motif                          Backward       1              11             0.004350       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
DHBHAAAGGTCAHVHB
-----GAGGTCAGAAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Reverse Complement                      Original Motif                          Forward        6              11             0.004996       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
-----GAGGTCAGAAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Original Motif                          Original Motif                          Backward       6              11             0.005037       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
DBHBDTGACCCCDHVHB
-CTTCTGACCTC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Reverse Complement                      Forward        2              11             0.008556       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
HHBVHTGACCTTGVDHD
-CTTCTGACCTC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00020        Atf1_primary                       Reverse Complement                      Reverse Complement                      Backward       1              11             0.010647       

Species: Mus musculus

Original motif
0.381335    0.135129    0.244887    0.238648    
0.139538    0.419619    0.195665    0.245178    
0.158070    0.098493    0.409974    0.333462    
0.472756    0.096594    0.388246    0.042403    
0.008868    0.028811    0.005332    0.956990    
0.014102    0.014269    0.863476    0.108153    
0.962594    0.004653    0.011816    0.020937    
0.003091    0.949099    0.003165    0.044646    
0.044646    0.003165    0.949099    0.003091    
0.020937    0.011816    0.004653    0.962594    
0.108153    0.863476    0.014269    0.014102    
0.956990    0.005332    0.028811    0.008868    
0.049761    0.357863    0.144826    0.447550    
0.225769    0.448432    0.142340    0.183460    
0.264766    0.097627    0.493031    0.144576    
0.352319    0.180279    0.236767    0.230635    
Consensus sequence: DBDRTGACGTCAYHRD

Reverse complement motif
0.230635    0.180279    0.236767    0.352319    
0.264766    0.493031    0.097627    0.144576    
0.225769    0.142340    0.448432    0.183460    
0.447550    0.357863    0.144826    0.049761    
0.008868    0.005332    0.028811    0.956990    
0.108153    0.014269    0.863476    0.014102    
0.962594    0.011816    0.004653    0.020937    
0.044646    0.949099    0.003165    0.003091    
0.003091    0.003165    0.949099    0.044646    
0.020937    0.004653    0.011816    0.962594    
0.014102    0.863476    0.014269    0.108153    
0.956990    0.028811    0.005332    0.008868    
0.042403    0.096594    0.388246    0.472756    
0.158070    0.409974    0.098493    0.333462    
0.139538    0.195665    0.419619    0.245178    
0.238648    0.135129    0.244887    0.381335    
Consensus sequence: DMDMTGACGTCAKHBD

Alignment:
DMDMTGACGTCAKHBD
-----GAGGTCAGAAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_primary                      Reverse Complement                      Original Motif                          Backward       2              11             0.010819       

Species: Mus musculus

Original motif
0.223704    0.280688    0.251889    0.243719    
0.198683    0.190981    0.267970    0.342366    
0.150012    0.319579    0.206063    0.324347    
0.274896    0.302572    0.238597    0.183935    
0.438853    0.331148    0.021186    0.208812    
0.133937    0.027342    0.832490    0.006231    
0.141462    0.002336    0.854359    0.001843    
0.003464    0.000753    0.987433    0.008349    
0.004388    0.000692    0.884494    0.110426    
0.003808    0.001605    0.016793    0.977794    
0.001992    0.976605    0.003739    0.017664    
0.881237    0.089981    0.026017    0.002764    
0.735041    0.106592    0.083260    0.075107    
0.164419    0.315518    0.181031    0.339032    
0.228285    0.176364    0.157583    0.437768    
0.233407    0.193567    0.327076    0.245951    
0.320479    0.312566    0.195701    0.171254    
Consensus sequence: BDBVMGGGGTCAABHDV

Reverse complement motif
0.171254    0.312566    0.195701    0.320479    
0.233407    0.327076    0.193567    0.245951    
0.437768    0.176364    0.157583    0.228285    
0.339032    0.315518    0.181031    0.164419    
0.075107    0.106592    0.083260    0.735041    
0.002764    0.089981    0.026017    0.881237    
0.001992    0.003739    0.976605    0.017664    
0.977794    0.001605    0.016793    0.003808    
0.004388    0.884494    0.000692    0.110426    
0.003464    0.987433    0.000753    0.008349    
0.141462    0.854359    0.002336    0.001843    
0.133937    0.832490    0.027342    0.006231    
0.208812    0.331148    0.021186    0.438853    
0.274896    0.238597    0.302572    0.183935    
0.324347    0.319579    0.206063    0.150012    
0.342366    0.190981    0.267970    0.198683    
0.223704    0.251889    0.280688    0.243719    
Consensus sequence: BHHVTTGACCCCYVVDB

Alignment:
BDBVMGGGGTCAABHDV
-----GAGGTCAGAAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_primary                      Reverse Complement                      Original Motif                          Backward       4              11             0.013118       

Species: Mus musculus

Original motif
0.186316    0.215541    0.297644    0.300499    
0.300381    0.234276    0.266283    0.199061    
0.317841    0.211418    0.183235    0.287507    
0.482598    0.095323    0.245062    0.177017    
0.654197    0.008988    0.261951    0.074864    
0.095656    0.022883    0.843364    0.038097    
0.002655    0.008355    0.976390    0.012600    
0.003287    0.080755    0.001057    0.914900    
0.006753    0.001517    0.989917    0.001813    
0.039940    0.098800    0.003305    0.857955    
0.009015    0.039036    0.844029    0.107921    
0.984070    0.002369    0.008852    0.004709    
0.789505    0.101528    0.029294    0.079672    
0.649685    0.139882    0.090466    0.119966    
0.421759    0.205595    0.073074    0.299573    
0.214779    0.290522    0.134050    0.360649    
0.202141    0.270323    0.176798    0.350738    
Consensus sequence: BVHDAGGTGTGAAAHHH

Reverse complement motif
0.350738    0.270323    0.176798    0.202141    
0.360649    0.290522    0.134050    0.214779    
0.299573    0.205595    0.073074    0.421759    
0.119966    0.139882    0.090466    0.649685    
0.079672    0.101528    0.029294    0.789505    
0.004709    0.002369    0.008852    0.984070    
0.009015    0.844029    0.039036    0.107921    
0.857955    0.098800    0.003305    0.039940    
0.006753    0.989917    0.001517    0.001813    
0.914900    0.080755    0.001057    0.003287    
0.002655    0.976390    0.008355    0.012600    
0.095656    0.843364    0.022883    0.038097    
0.074864    0.008988    0.261951    0.654197    
0.177017    0.095323    0.245062    0.482598    
0.287507    0.211418    0.183235    0.317841    
0.199061    0.234276    0.266283    0.300381    
0.300499    0.215541    0.297644    0.186316    
Consensus sequence: HHHTTTCACACCTDHBV

Alignment:
BVHDAGGTGTGAAAHHH
---GAGGTCAGAAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00103        Jundm2_primary                     Original Motif                          Reverse Complement                      Backward       6              11             0.013220       

Species: Mus musculus

Original motif
0.213023    0.312553    0.241727    0.232696    
0.126878    0.453780    0.251405    0.167937    
0.127927    0.138541    0.528637    0.204895    
0.572671    0.136079    0.242107    0.049142    
0.004569    0.015235    0.003215    0.976981    
0.004594    0.008024    0.836426    0.150956    
0.966548    0.003255    0.009947    0.020250    
0.001636    0.899650    0.004880    0.093834    
0.093834    0.004880    0.899650    0.001636    
0.020250    0.009947    0.003255    0.966548    
0.150956    0.836426    0.008024    0.004594    
0.976981    0.003215    0.015235    0.004569    
0.006508    0.324308    0.040126    0.629058    
0.170728    0.554933    0.116757    0.157582    
0.255966    0.170983    0.430910    0.142142    
0.228601    0.267456    0.166199    0.337744    
Consensus sequence: BBGATGACGTCAYCVH

Reverse complement motif
0.337744    0.267456    0.166199    0.228601    
0.255966    0.430910    0.170983    0.142142    
0.170728    0.116757    0.554933    0.157582    
0.629058    0.324308    0.040126    0.006508    
0.004569    0.003215    0.015235    0.976981    
0.150956    0.008024    0.836426    0.004594    
0.966548    0.009947    0.003255    0.020250    
0.093834    0.899650    0.004880    0.001636    
0.001636    0.004880    0.899650    0.093834    
0.020250    0.003255    0.009947    0.966548    
0.004594    0.836426    0.008024    0.150956    
0.976981    0.015235    0.003215    0.004569    
0.049142    0.136079    0.242107    0.572671    
0.127927    0.528637    0.138541    0.204895    
0.126878    0.251405    0.453780    0.167937    
0.213023    0.241727    0.312553    0.232696    
Consensus sequence: HVGMTGACGTCATCBB

Alignment:
HVGMTGACGTCATCBB
CTTCTGACCTC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 18		Motif name: Motif 18

Original motif
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: CAAAGTCCAGC

Reserve complement motif
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: GCTGGACTTTG


************************************************************************ Best Matches for Motif ID 18 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Reverse Complement                      Reverse Complement                      Forward        3              11             0.000000       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
HHAYTGGACTTTHDBV
--GCTGGACTTTG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Reverse Complement                      Reverse Complement                      Forward        3              11             0.031385       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
HHBVHTGACCTTGVDHD
--GCTGGACTTTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Original Motif                          Original Motif                          Backward       3              11             0.034759       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
---CAAAGTCCAGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Original Motif                          Original Motif                          Backward       3              11             0.044887       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
DHBHAAAGGTCAHVHB
---CAAAGTCCAGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Original Motif                          Forward        10             11             0.046168       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
---------GCTGGACTTTG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Original Motif                          Original Motif                          Forward        4              11             0.046843       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
DTVBDDRGACCACCCAGDWDGBH
---CAAAGTCCAGC---------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00047        Zbtb7b_secondary                   Reverse Complement                      Reverse Complement                      Backward       2              11             0.047455       

Species: Mus musculus

Original motif
0.203365    0.307129    0.203712    0.285795    
0.306328    0.182359    0.203143    0.308170    
0.220878    0.174035    0.265341    0.339746    
0.475421    0.085294    0.281054    0.158231    
0.395971    0.330114    0.260810    0.013104    
0.001970    0.006366    0.962058    0.029606    
0.907785    0.081900    0.001279    0.009036    
0.008745    0.981422    0.002970    0.006863    
0.006791    0.966163    0.017605    0.009441    
0.894233    0.081139    0.004949    0.019679    
0.007553    0.970771    0.004892    0.016783    
0.016719    0.797465    0.011842    0.173974    
0.415678    0.189952    0.165207    0.229163    
0.092707    0.182206    0.346121    0.378967    
0.175722    0.130498    0.215118    0.478662    
0.365762    0.163282    0.315788    0.155168    
0.214734    0.272805    0.243194    0.269267    
Consensus sequence: BDDRVGACCACCHBDVB

Reverse complement motif
0.214734    0.243194    0.272805    0.269267    
0.155168    0.163282    0.315788    0.365762    
0.478662    0.130498    0.215118    0.175722    
0.378967    0.182206    0.346121    0.092707    
0.229163    0.189952    0.165207    0.415678    
0.016719    0.011842    0.797465    0.173974    
0.007553    0.004892    0.970771    0.016783    
0.019679    0.081139    0.004949    0.894233    
0.006791    0.017605    0.966163    0.009441    
0.008745    0.002970    0.981422    0.006863    
0.009036    0.081900    0.001279    0.907785    
0.001970    0.962058    0.006366    0.029606    
0.013104    0.330114    0.260810    0.395971    
0.158231    0.085294    0.281054    0.475421    
0.339746    0.174035    0.265341    0.220878    
0.308170    0.182359    0.203143    0.306328    
0.203365    0.203712    0.307129    0.285795    
Consensus sequence: BBDVHGGTGGTCBKDDB

Alignment:
BBDVHGGTGGTCBKDDB
-----GCTGGACTTTG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00416        Fli1                               Reverse Complement                      Reverse Complement                      Forward        4              11             0.047526       

Species: Mus musculus

Original motif
0.306248    0.320757    0.227284    0.145711    
0.154859    0.254523    0.255295    0.335323    
0.131261    0.300255    0.356247    0.212237    
0.349545    0.222549    0.254062    0.173844    
0.736280    0.006475    0.242691    0.014555    
0.001696    0.522360    0.010544    0.465399    
0.082657    0.000819    0.004666    0.911858    
0.007818    0.001869    0.001302    0.989011    
0.002303    0.992768    0.002361    0.002568    
0.002417    0.992259    0.003375    0.001949    
0.000360    0.004820    0.907484    0.087336    
0.004749    0.022225    0.959164    0.013862    
0.197948    0.147167    0.034749    0.620136    
0.340568    0.182434    0.187068    0.289930    
0.240105    0.146975    0.344334    0.268587    
0.189372    0.384338    0.143385    0.282906    
Consensus sequence: VBBVAYTTCCGGTDDH

Reverse complement motif
0.189372    0.143385    0.384338    0.282906    
0.240105    0.344334    0.146975    0.268587    
0.289930    0.182434    0.187068    0.340568    
0.620136    0.147167    0.034749    0.197948    
0.004749    0.959164    0.022225    0.013862    
0.000360    0.907484    0.004820    0.087336    
0.002417    0.003375    0.992259    0.001949    
0.002303    0.002361    0.992768    0.002568    
0.989011    0.001869    0.001302    0.007818    
0.911858    0.000819    0.004666    0.082657    
0.001696    0.010544    0.522360    0.465399    
0.014555    0.006475    0.242691    0.736280    
0.173844    0.222549    0.254062    0.349545    
0.131261    0.356247    0.300255    0.212237    
0.335323    0.254523    0.255295    0.154859    
0.306248    0.227284    0.320757    0.145711    
Consensus sequence: DHDACCGGAAKTBBVV

Alignment:
DHDACCGGAAKTBBVV
---GCTGGACTTTG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Original Motif                          Original Motif                          Forward        5              11             0.047631       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
HDGHHBHRGACCACCCGSVDVG
----CAAAGTCCAGC-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_primary               Original Motif                          Original Motif                          Forward        5              11             0.049240       

Species: Mus musculus

Original motif
0.641428    0.180211    0.044767    0.133594    
0.171696    0.262981    0.334148    0.231174    
0.129726    0.322735    0.243462    0.304077    
0.165713    0.175735    0.256108    0.402445    
0.146090    0.171890    0.412753    0.269266    
0.212837    0.439192    0.280990    0.066980    
0.251088    0.275516    0.374380    0.099015    
0.575438    0.079656    0.338201    0.006704    
0.005634    0.003422    0.972597    0.018348    
0.890447    0.077034    0.031851    0.000668    
0.007128    0.986862    0.000496    0.005515    
0.001445    0.991564    0.001925    0.005066    
0.738761    0.190157    0.026399    0.044684    
0.013384    0.983783    0.000896    0.001937    
0.068077    0.929549    0.000773    0.001602    
0.040830    0.933742    0.005283    0.020145    
0.730274    0.029225    0.145689    0.094812    
0.165032    0.572838    0.162001    0.100129    
0.383584    0.129942    0.429497    0.056977    
0.455959    0.071959    0.208204    0.263878    
0.134271    0.262985    0.222626    0.380117    
0.071193    0.346594    0.346081    0.236132    
0.445661    0.405278    0.053901    0.095160    
Consensus sequence: ABBBBVVRGACCACCCACRDBBM

Reverse complement motif
0.095160    0.405278    0.053901    0.445661    
0.071193    0.346081    0.346594    0.236132    
0.380117    0.262985    0.222626    0.134271    
0.263878    0.071959    0.208204    0.455959    
0.383584    0.429497    0.129942    0.056977    
0.165032    0.162001    0.572838    0.100129    
0.094812    0.029225    0.145689    0.730274    
0.040830    0.005283    0.933742    0.020145    
0.068077    0.000773    0.929549    0.001602    
0.013384    0.000896    0.983783    0.001937    
0.044684    0.190157    0.026399    0.738761    
0.001445    0.001925    0.991564    0.005066    
0.007128    0.000496    0.986862    0.005515    
0.000668    0.077034    0.031851    0.890447    
0.005634    0.972597    0.003422    0.018348    
0.006704    0.079656    0.338201    0.575438    
0.251088    0.374380    0.275516    0.099015    
0.212837    0.280990    0.439192    0.066980    
0.146090    0.412753    0.171890    0.269266    
0.402445    0.175735    0.256108    0.165713    
0.129726    0.243462    0.322735    0.304077    
0.171696    0.334148    0.262981    0.231174    
0.133594    0.180211    0.044767    0.641428    
Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Alignment:
ABBBBVVRGACCACCCACRDBBM
----CAAAGTCCAGC--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 19		Motif name: Motif 19

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: AGAGAAAG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: CTTTCTCT


************************************************************************ Best Matches for Motif ID 19 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00101        Sox12_secondary                    Original Motif                          Original Motif                          Backward       5              8              0.000000       

Species: Mus musculus

Original motif
0.378898    0.318901    0.205859    0.096341    
0.352524    0.321236    0.224504    0.101736    
0.323551    0.182056    0.210897    0.283496    
0.135539    0.325230    0.208031    0.331200    
0.663106    0.055471    0.154459    0.126963    
0.051748    0.292567    0.537307    0.118378    
0.886489    0.042361    0.035742    0.035408    
0.043647    0.688744    0.094358    0.173252    
0.882052    0.039818    0.018899    0.059231    
0.864171    0.036011    0.068363    0.031455    
0.790158    0.046868    0.041594    0.121379    
0.087447    0.143905    0.707798    0.060849    
0.295919    0.132479    0.485703    0.085899    
0.653156    0.133004    0.110012    0.103828    
0.351764    0.131771    0.217730    0.298736    
0.203977    0.196773    0.099958    0.499292    
Consensus sequence: VVDBASACAAAGRADH

Reverse complement motif
0.499292    0.196773    0.099958    0.203977    
0.298736    0.131771    0.217730    0.351764    
0.103828    0.133004    0.110012    0.653156    
0.295919    0.485703    0.132479    0.085899    
0.087447    0.707798    0.143905    0.060849    
0.121379    0.046868    0.041594    0.790158    
0.031455    0.036011    0.068363    0.864171    
0.059231    0.039818    0.018899    0.882052    
0.043647    0.094358    0.688744    0.173252    
0.035408    0.042361    0.035742    0.886489    
0.051748    0.537307    0.292567    0.118378    
0.126963    0.055471    0.154459    0.663106    
0.331200    0.325230    0.208031    0.135539    
0.283496    0.182056    0.210897    0.323551    
0.101736    0.321236    0.224504    0.352524    
0.096341    0.318901    0.205859    0.378898    
Consensus sequence: HDTMCTTTGTSTVDBB

Alignment:
VVDBASACAAAGRADH
----AGAGAAAG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00419        Spic                               Original Motif                          Original Motif                          Backward       4              8              0.002185       

Species: Mus musculus

Original motif
0.372554    0.181557    0.296001    0.149888    
0.734552    0.057250    0.044752    0.163446    
0.707604    0.045049    0.110341    0.137006    
0.637848    0.057252    0.071934    0.232966    
0.125449    0.108933    0.689441    0.076176    
0.266215    0.517339    0.207018    0.009428    
0.015016    0.002582    0.979670    0.002732    
0.004303    0.002322    0.989973    0.003401    
0.982327    0.003552    0.003393    0.010727    
0.974155    0.001662    0.003294    0.020889    
0.040023    0.128522    0.821560    0.009894    
0.027635    0.045828    0.016297    0.910239    
0.317500    0.045635    0.172234    0.464631    
0.342838    0.107812    0.284775    0.264576    
Consensus sequence: VAAAGMGGAAGTWD

Reverse complement motif
0.264576    0.107812    0.284775    0.342838    
0.464631    0.045635    0.172234    0.317500    
0.910239    0.045828    0.016297    0.027635    
0.040023    0.821560    0.128522    0.009894    
0.020889    0.001662    0.003294    0.974155    
0.010727    0.003552    0.003393    0.982327    
0.004303    0.989973    0.002322    0.003401    
0.015016    0.979670    0.002582    0.002732    
0.266215    0.207018    0.517339    0.009428    
0.125449    0.689441    0.108933    0.076176    
0.232966    0.057252    0.071934    0.637848    
0.137006    0.045049    0.110341    0.707604    
0.163446    0.057250    0.044752    0.734552    
0.149888    0.181557    0.296001    0.372554    
Consensus sequence: DWACTTCCRCTTTB

Alignment:
VAAAGMGGAAGTWD
---AGAGAAAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00074        Isgf3g_primary                     Reverse Complement                      Reverse Complement                      Forward        4              8              0.013036       

Species: Mus musculus

Original motif
0.276786    0.305435    0.213026    0.204753    
0.396362    0.114731    0.248667    0.240240    
0.461284    0.092047    0.334734    0.111936    
0.775091    0.019703    0.057075    0.148131    
0.860742    0.032827    0.020878    0.085553    
0.318035    0.134940    0.114054    0.432971    
0.031989    0.819436    0.031529    0.117045    
0.038741    0.005309    0.945956    0.009995    
0.961581    0.018494    0.013401    0.006524    
0.943392    0.004223    0.007869    0.044516    
0.964748    0.010789    0.003727    0.020735    
0.029401    0.875794    0.079869    0.014937    
0.034572    0.294928    0.012201    0.658299    
0.370121    0.165750    0.227886    0.236243    
0.803710    0.072510    0.054519    0.069261    
Consensus sequence: VDRAAWCGAAACTDA

Reverse complement motif
0.069261    0.072510    0.054519    0.803710    
0.236243    0.165750    0.227886    0.370121    
0.658299    0.294928    0.012201    0.034572    
0.029401    0.079869    0.875794    0.014937    
0.020735    0.010789    0.003727    0.964748    
0.044516    0.004223    0.007869    0.943392    
0.006524    0.018494    0.013401    0.961581    
0.038741    0.945956    0.005309    0.009995    
0.031989    0.031529    0.819436    0.117045    
0.432971    0.134940    0.114054    0.318035    
0.085553    0.032827    0.020878    0.860742    
0.148131    0.019703    0.057075    0.775091    
0.111936    0.092047    0.334734    0.461284    
0.240240    0.114731    0.248667    0.396362    
0.276786    0.213026    0.305435    0.204753    
Consensus sequence: TDAGTTTCGWTTKDV

Alignment:
TDAGTTTCGWTTKDV
---CTTTCTCT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00085        Sfpi1_primary                      Original Motif                          Original Motif                          Forward        4              8              0.013531       

Species: Mus musculus

Original motif
0.211586    0.273653    0.234763    0.279998    
0.298032    0.104818    0.290385    0.306764    
0.593467    0.048056    0.154602    0.203875    
0.459746    0.052697    0.169949    0.317608    
0.188623    0.155357    0.591543    0.064477    
0.402746    0.286227    0.290285    0.020742    
0.048569    0.001240    0.946397    0.003793    
0.004354    0.001387    0.990819    0.003441    
0.974272    0.001416    0.001466    0.022847    
0.938748    0.003090    0.000833    0.057329    
0.045831    0.270321    0.674644    0.009204    
0.055664    0.092552    0.026061    0.825722    
0.301235    0.122653    0.267039    0.309073    
0.278680    0.276099    0.219159    0.226061    
Consensus sequence: BDAWGVGGAAGTDH

Reverse complement motif
0.226061    0.276099    0.219159    0.278680    
0.309073    0.122653    0.267039    0.301235    
0.825722    0.092552    0.026061    0.055664    
0.045831    0.674644    0.270321    0.009204    
0.057329    0.003090    0.000833    0.938748    
0.022847    0.001416    0.001466    0.974272    
0.004354    0.990819    0.001387    0.003441    
0.048569    0.946397    0.001240    0.003793    
0.020742    0.286227    0.290285    0.402746    
0.188623    0.591543    0.155357    0.064477    
0.317608    0.052697    0.169949    0.459746    
0.203875    0.048056    0.154602    0.593467    
0.306764    0.104818    0.290385    0.298032    
0.279998    0.273653    0.234763    0.211586    
Consensus sequence: HDACTTCCBCWTDV

Alignment:
BDAWGVGGAAGTDH
---AGAGAAAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00018        Irf4_primary                       Reverse Complement                      Reverse Complement                      Forward        5              8              0.015051       

Species: Mus musculus

Original motif
0.302723    0.390309    0.162248    0.144720    
0.263298    0.109753    0.466266    0.160683    
0.314007    0.079943    0.170722    0.435328    
0.657943    0.042407    0.054822    0.244828    
0.175125    0.281452    0.069422    0.474000    
0.014866    0.891988    0.005489    0.087657    
0.012252    0.001771    0.982933    0.003044    
0.985642    0.006248    0.005379    0.002731    
0.933526    0.002109    0.003143    0.061222    
0.988146    0.003436    0.001669    0.006749    
0.021771    0.945675    0.026522    0.006032    
0.029305    0.568908    0.017908    0.383879    
0.396869    0.133807    0.324146    0.145178    
0.326865    0.278882    0.198196    0.196056    
0.506287    0.142988    0.165503    0.185222    
Consensus sequence: VDDAYCGAAACYDVA

Reverse complement motif
0.185222    0.142988    0.165503    0.506287    
0.196056    0.278882    0.198196    0.326865    
0.145178    0.133807    0.324146    0.396869    
0.029305    0.017908    0.568908    0.383879    
0.021771    0.026522    0.945675    0.006032    
0.006749    0.003436    0.001669    0.988146    
0.061222    0.002109    0.003143    0.933526    
0.002731    0.006248    0.005379    0.985642    
0.012252    0.982933    0.001771    0.003044    
0.014866    0.005489    0.891988    0.087657    
0.474000    0.281452    0.069422    0.175125    
0.244828    0.042407    0.054822    0.657943    
0.435328    0.079943    0.170722    0.314007    
0.263298    0.466266    0.109753    0.160683    
0.302723    0.162248    0.390309    0.144720    
Consensus sequence: TBDKGTTTCGMTDHV

Alignment:
TBDKGTTTCGMTDHV
----CTTTCTCT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00409        Elf5                               Original Motif                          Original Motif                          Backward       4              8              0.015365       

Species: Mus musculus

Original motif
0.179167    0.229135    0.279326    0.312372    
0.421239    0.102900    0.145609    0.330252    
0.791978    0.009721    0.028951    0.169350    
0.237609    0.375543    0.161526    0.225321    
0.145845    0.325411    0.516045    0.012699    
0.431007    0.516333    0.051679    0.000982    
0.005750    0.001408    0.990928    0.001915    
0.002025    0.001886    0.992021    0.004068    
0.986405    0.001705    0.001039    0.010851    
0.950652    0.003619    0.000482    0.045248    
0.165221    0.013897    0.819076    0.001805    
0.032042    0.049374    0.014632    0.903953    
0.285325    0.108010    0.127373    0.479292    
0.366131    0.141246    0.290661    0.201963    
Consensus sequence: BWAHSMGGAAGTWD

Reverse complement motif
0.201963    0.141246    0.290661    0.366131    
0.479292    0.108010    0.127373    0.285325    
0.903953    0.049374    0.014632    0.032042    
0.165221    0.819076    0.013897    0.001805    
0.045248    0.003619    0.000482    0.950652    
0.010851    0.001705    0.001039    0.986405    
0.002025    0.992021    0.001886    0.004068    
0.005750    0.990928    0.001408    0.001915    
0.431007    0.051679    0.516333    0.000982    
0.145845    0.516045    0.325411    0.012699    
0.237609    0.161526    0.375543    0.225321    
0.169350    0.009721    0.028951    0.791978    
0.330252    0.102900    0.145609    0.421239    
0.312372    0.229135    0.279326    0.179167    
Consensus sequence: DWACTTCCRSDTWV

Alignment:
BWAHSMGGAAGTWD
---AGAGAAAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Original Motif                          Original Motif                          Forward        8              8              0.017738       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
BDHDDADAGATAAGADHBDHVD
-------AGAGAAAG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Original Motif                          Backward       6              8              0.017774       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HBDDDAACAAAGRVBHH
----AGAGAAAG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Original Motif                          Backward       6              8              0.019138       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HBDDRAACAAAGRABHH
----AGAGAAAG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00040        Irf5_primary                       Reverse Complement                      Reverse Complement                      Backward       5              8              0.020254       

Species: Mus musculus

Original motif
0.337548    0.193688    0.194039    0.274725    
0.279950    0.185928    0.199501    0.334621    
0.357304    0.160203    0.278768    0.203725    
0.499782    0.069569    0.166858    0.263790    
0.832538    0.022992    0.085287    0.059183    
0.144788    0.434769    0.040595    0.379848    
0.016035    0.943520    0.003379    0.037067    
0.014208    0.001713    0.982579    0.001500    
0.985572    0.004274    0.008722    0.001432    
0.894404    0.001440    0.007585    0.096571    
0.991307    0.002706    0.001993    0.003994    
0.011143    0.973529    0.013241    0.002087    
0.016468    0.532173    0.009621    0.441739    
0.462373    0.120288    0.237126    0.180213    
0.392685    0.223865    0.229697    0.153753    
Consensus sequence: DDDWAYCGAAACYDV

Reverse complement motif
0.153753    0.223865    0.229697    0.392685    
0.180213    0.120288    0.237126    0.462373    
0.016468    0.009621    0.532173    0.441739    
0.011143    0.013241    0.973529    0.002087    
0.003994    0.002706    0.001993    0.991307    
0.096571    0.001440    0.007585    0.894404    
0.001432    0.004274    0.008722    0.985572    
0.014208    0.982579    0.001713    0.001500    
0.016035    0.003379    0.943520    0.037067    
0.144788    0.040595    0.434769    0.379848    
0.059183    0.022992    0.085287    0.832538    
0.263790    0.069569    0.166858    0.499782    
0.203725    0.160203    0.278768    0.357304    
0.334621    0.185928    0.199501    0.279950    
0.274725    0.193688    0.194039    0.337548    
Consensus sequence: BDKGTTTCGKTWDDD

Alignment:
BDKGTTTCGKTWDDD
---CTTTCTCT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 20		Motif name: Motif 20

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TCCTCCTGGAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TTCCAGGAGGA


************************************************************************ Best Matches for Motif ID 20 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Reverse Complement                      Original Motif                          Backward       8              11             0.014251       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
YDYBDHTMCACGTGGADDBMDGT
-----TTCCAGGAGGA-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00043        Bcl6b_primary                      Original Motif                          Reverse Complement                      Forward        3              11             0.021979       

Species: Mus musculus

Original motif
0.346550    0.082299    0.202982    0.368169    
0.169328    0.599178    0.046508    0.184986    
0.085619    0.105820    0.059390    0.749172    
0.128756    0.084682    0.076780    0.709782    
0.032381    0.009923    0.016477    0.941220    
0.013184    0.868651    0.009399    0.108766    
0.018397    0.104497    0.450474    0.426632    
0.800902    0.010911    0.015982    0.172205    
0.141166    0.055397    0.762379    0.041059    
0.073467    0.021239    0.811630    0.093665    
0.878497    0.015031    0.044964    0.061509    
0.875924    0.027013    0.013780    0.083283    
0.205684    0.213313    0.040936    0.540067    
0.244336    0.228277    0.168227    0.359160    
0.208971    0.304437    0.148473    0.338119    
0.201607    0.294079    0.334889    0.169425    
Consensus sequence: DCTTTCKAGGAATHHV

Reverse complement motif
0.201607    0.334889    0.294079    0.169425    
0.338119    0.304437    0.148473    0.208971    
0.359160    0.228277    0.168227    0.244336    
0.540067    0.213313    0.040936    0.205684    
0.083283    0.027013    0.013780    0.875924    
0.061509    0.015031    0.044964    0.878497    
0.073467    0.811630    0.021239    0.093665    
0.141166    0.762379    0.055397    0.041059    
0.172205    0.010911    0.015982    0.800902    
0.018397    0.450474    0.104497    0.426632    
0.013184    0.009399    0.868651    0.108766    
0.941220    0.009923    0.016477    0.032381    
0.709782    0.084682    0.076780    0.128756    
0.749172    0.105820    0.059390    0.085619    
0.169328    0.046508    0.599178    0.184986    
0.368169    0.082299    0.202982    0.346550    
Consensus sequence: VHHATTCCTYGAAAGD

Alignment:
VHHATTCCTYGAAAGD
--TCCTCCTGGAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00102        Zic1_secondary                     Original Motif                          Reverse Complement                      Forward        3              11             0.022091       

Species: Mus musculus

Original motif
0.161683    0.405114    0.171743    0.261460    
0.259478    0.357988    0.146793    0.235741    
0.371334    0.026439    0.283598    0.318630    
0.092229    0.883389    0.018758    0.005623    
0.419591    0.169874    0.253266    0.157270    
0.002985    0.976375    0.002722    0.017918    
0.909381    0.021357    0.013299    0.055963    
0.039418    0.007014    0.948302    0.005266    
0.001711    0.845894    0.005756    0.146640    
0.803792    0.003049    0.148687    0.044472    
0.015314    0.017153    0.680239    0.287294    
0.003793    0.011414    0.937403    0.047390    
0.431916    0.266291    0.144154    0.157638    
0.269331    0.239338    0.366817    0.124513    
0.395873    0.103980    0.214796    0.285351    
Consensus sequence: BHDCVCAGCAGGHVD

Reverse complement motif
0.285351    0.103980    0.214796    0.395873    
0.269331    0.366817    0.239338    0.124513    
0.157638    0.266291    0.144154    0.431916    
0.003793    0.937403    0.011414    0.047390    
0.015314    0.680239    0.017153    0.287294    
0.044472    0.003049    0.148687    0.803792    
0.001711    0.005756    0.845894    0.146640    
0.039418    0.948302    0.007014    0.005266    
0.055963    0.021357    0.013299    0.909381    
0.002985    0.002722    0.976375    0.017918    
0.157270    0.169874    0.253266    0.419591    
0.092229    0.018758    0.883389    0.005623    
0.318630    0.026439    0.283598    0.371334    
0.259478    0.146793    0.357988    0.235741    
0.161683    0.171743    0.405114    0.261460    
Consensus sequence: DVHCCTGCTGBGDDB

Alignment:
DVHCCTGCTGBGDDB
--TCCTCCTGGAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00022        Zfp740_secondary                   Original Motif                          Original Motif                          Forward        5              11             0.024028       

Species: Mus musculus

Original motif
0.398967    0.071604    0.323957    0.205472    
0.457709    0.058192    0.267218    0.216881    
0.393346    0.032365    0.329533    0.244756    
0.119528    0.091191    0.190078    0.599202    
0.273933    0.123548    0.073075    0.529444    
0.068935    0.812883    0.015245    0.102937    
0.029664    0.907790    0.024804    0.037742    
0.020725    0.933422    0.016796    0.029057    
0.015086    0.948448    0.018030    0.018436    
0.015628    0.884941    0.061172    0.038259    
0.067508    0.744063    0.107305    0.081125    
0.108097    0.140614    0.650174    0.101115    
0.065696    0.247239    0.506149    0.180916    
0.395005    0.077185    0.345914    0.181895    
0.527081    0.093650    0.281853    0.097416    
0.289378    0.245159    0.348803    0.116660    
0.147136    0.260117    0.145993    0.446754    
Consensus sequence: DDDTWCCCCCCGGDRVH

Reverse complement motif
0.446754    0.260117    0.145993    0.147136    
0.289378    0.348803    0.245159    0.116660    
0.097416    0.093650    0.281853    0.527081    
0.181895    0.077185    0.345914    0.395005    
0.065696    0.506149    0.247239    0.180916    
0.108097    0.650174    0.140614    0.101115    
0.067508    0.107305    0.744063    0.081125    
0.015628    0.061172    0.884941    0.038259    
0.015086    0.018030    0.948448    0.018436    
0.020725    0.016796    0.933422    0.029057    
0.029664    0.024804    0.907790    0.037742    
0.068935    0.015245    0.812883    0.102937    
0.529444    0.123548    0.073075    0.273933    
0.599202    0.091191    0.190078    0.119528    
0.244756    0.032365    0.329533    0.393346    
0.216881    0.058192    0.267218    0.457709    
0.205472    0.071604    0.323957    0.398967    
Consensus sequence: HVKDCCGGGGGGWADDD

Alignment:
DDDTWCCCCCCGGDRVH
----TCCTCCTGGAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00057        Zic2_secondary                     Original Motif                          Reverse Complement                      Backward       3              11             0.025516       

Species: Mus musculus

Original motif
0.201522    0.336845    0.183740    0.277892    
0.238705    0.354378    0.165332    0.241585    
0.350858    0.031427    0.308482    0.309233    
0.104423    0.870794    0.018676    0.006107    
0.313246    0.259944    0.277570    0.149241    
0.003590    0.973377    0.002520    0.020513    
0.899716    0.025489    0.015458    0.059336    
0.049224    0.006415    0.938214    0.006147    
0.002021    0.859631    0.007903    0.130445    
0.772818    0.002659    0.187334    0.037190    
0.008456    0.015170    0.594695    0.381679    
0.004118    0.009188    0.961506    0.025188    
0.367151    0.230955    0.204475    0.197419    
0.267508    0.193660    0.430070    0.108762    
0.444449    0.099127    0.212182    0.244241    
Consensus sequence: HHDCVCAGCAKGVVD

Reverse complement motif
0.244241    0.099127    0.212182    0.444449    
0.267508    0.430070    0.193660    0.108762    
0.197419    0.230955    0.204475    0.367151    
0.004118    0.961506    0.009188    0.025188    
0.008456    0.594695    0.015170    0.381679    
0.037190    0.002659    0.187334    0.772818    
0.002021    0.007903    0.859631    0.130445    
0.049224    0.938214    0.006415    0.006147    
0.059336    0.025489    0.015458    0.899716    
0.003590    0.002520    0.973377    0.020513    
0.149241    0.259944    0.277570    0.313246    
0.104423    0.018676    0.870794    0.006107    
0.309233    0.031427    0.308482    0.350858    
0.238705    0.165332    0.354378    0.241585    
0.201522    0.183740    0.336845    0.277892    
Consensus sequence: DVBCYTGCTGBGDDD

Alignment:
DVBCYTGCTGBGDDD
--TCCTCCTGGAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00420        Elk3                               Reverse Complement                      Reverse Complement                      Forward        7              11             0.025883       

Species: Mus musculus

Original motif
0.418636    0.167911    0.195103    0.218350    
0.246759    0.378552    0.216618    0.158071    
0.170474    0.198507    0.329732    0.301287    
0.153827    0.338948    0.166531    0.340694    
0.680337    0.052303    0.181512    0.085848    
0.019707    0.916463    0.055898    0.007932    
0.087081    0.910099    0.002387    0.000433    
0.007321    0.001499    0.990022    0.001157    
0.002298    0.001866    0.993126    0.002710    
0.982141    0.000524    0.001717    0.015617    
0.903999    0.006376    0.001427    0.088198    
0.079522    0.183730    0.730171    0.006577    
0.009983    0.341624    0.056464    0.591929    
0.329404    0.110758    0.301227    0.258611    
0.263984    0.375830    0.189175    0.171012    
0.415962    0.256170    0.174350    0.153518    
0.208242    0.316512    0.281982    0.193264    
Consensus sequence: DVBBACCGGAAGYDVVV

Reverse complement motif
0.208242    0.281982    0.316512    0.193264    
0.153518    0.256170    0.174350    0.415962    
0.263984    0.189175    0.375830    0.171012    
0.258611    0.110758    0.301227    0.329404    
0.591929    0.341624    0.056464    0.009983    
0.079522    0.730171    0.183730    0.006577    
0.088198    0.006376    0.001427    0.903999    
0.015617    0.000524    0.001717    0.982141    
0.002298    0.993126    0.001866    0.002710    
0.007321    0.990022    0.001499    0.001157    
0.087081    0.002387    0.910099    0.000433    
0.019707    0.055898    0.916463    0.007932    
0.085848    0.052303    0.181512    0.680337    
0.340694    0.338948    0.166531    0.153827    
0.170474    0.329732    0.198507    0.301287    
0.246759    0.216618    0.378552    0.158071    
0.218350    0.167911    0.195103    0.418636    
Consensus sequence: VBVDMCTTCCGGTVBVD

Alignment:
VBVDMCTTCCGGTVBVD
------TTCCAGGAGGA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00006        Zic3_secondary                     Original Motif                          Reverse Complement                      Backward       3              11             0.026127       

Species: Mus musculus

Original motif
0.225537    0.223459    0.280507    0.270498    
0.332396    0.181810    0.207290    0.278505    
0.309873    0.017922    0.386135    0.286070    
0.101947    0.871607    0.020267    0.006179    
0.541366    0.089100    0.242170    0.127364    
0.003307    0.969997    0.002414    0.024283    
0.903286    0.021590    0.015872    0.059253    
0.039887    0.009732    0.945083    0.005298    
0.001704    0.827209    0.006276    0.164810    
0.723052    0.003102    0.221051    0.052795    
0.011758    0.024398    0.560633    0.403211    
0.003656    0.012952    0.939586    0.043807    
0.477846    0.270399    0.113113    0.138642    
0.225706    0.298505    0.258523    0.217266    
0.365251    0.191780    0.197411    0.245557    
Consensus sequence: DDDCACAGCAKGHVD

Reverse complement motif
0.245557    0.191780    0.197411    0.365251    
0.225706    0.258523    0.298505    0.217266    
0.138642    0.270399    0.113113    0.477846    
0.003656    0.939586    0.012952    0.043807    
0.011758    0.560633    0.024398    0.403211    
0.052795    0.003102    0.221051    0.723052    
0.001704    0.006276    0.827209    0.164810    
0.039887    0.945083    0.009732    0.005298    
0.059253    0.021590    0.015872    0.903286    
0.003307    0.002414    0.969997    0.024283    
0.127364    0.089100    0.242170    0.541366    
0.101947    0.020267    0.871607    0.006179    
0.309873    0.386135    0.017922    0.286070    
0.278505    0.181810    0.207290    0.332396    
0.225537    0.280507    0.223459    0.270498    
Consensus sequence: DVHCYTGCTGTGHDH

Alignment:
DVHCYTGCTGTGHDH
--TCCTCCTGGAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00013        Gabpa_primary                      Reverse Complement                      Reverse Complement                      Backward       1              11             0.028019       

Species: Mus musculus

Original motif
0.347579    0.362501    0.122567    0.167353    
0.291516    0.289483    0.243331    0.175670    
0.444682    0.202283    0.117720    0.235315    
0.286823    0.160493    0.154998    0.397686    
0.777207    0.031168    0.138668    0.052958    
0.020187    0.935458    0.041166    0.003190    
0.044954    0.947416    0.006517    0.001112    
0.004962    0.002315    0.991007    0.001716    
0.002572    0.002766    0.992355    0.002307    
0.989037    0.001723    0.001769    0.007471    
0.898665    0.004213    0.001115    0.096007    
0.219936    0.020606    0.754552    0.004906    
0.021686    0.134459    0.014432    0.829423    
0.197325    0.176901    0.362465    0.263309    
0.245978    0.264865    0.197336    0.291821    
0.323340    0.203013    0.195793    0.277854    
0.279355    0.250354    0.250472    0.219819    
Consensus sequence: HVHHACCGGAAGTDHHV

Reverse complement motif
0.219819    0.250354    0.250472    0.279355    
0.277854    0.203013    0.195793    0.323340    
0.291821    0.264865    0.197336    0.245978    
0.197325    0.362465    0.176901    0.263309    
0.829423    0.134459    0.014432    0.021686    
0.219936    0.754552    0.020606    0.004906    
0.096007    0.004213    0.001115    0.898665    
0.007471    0.001723    0.001769    0.989037    
0.002572    0.992355    0.002766    0.002307    
0.004962    0.991007    0.002315    0.001716    
0.044954    0.006517    0.947416    0.001112    
0.020187    0.041166    0.935458    0.003190    
0.052958    0.031168    0.138668    0.777207    
0.397686    0.160493    0.154998    0.286823    
0.235315    0.202283    0.117720    0.444682    
0.175670    0.289483    0.243331    0.291516    
0.347579    0.122567    0.362501    0.167353    
Consensus sequence: BHHHACTTCCGGTHHBD

Alignment:
BHHHACTTCCGGTHHBD
------TTCCAGGAGGA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00410        Elk1                               Reverse Complement                      Reverse Complement                      Backward       1              11             0.029275       

Species: Mus musculus

Original motif
0.430685    0.247184    0.200279    0.121853    
0.170474    0.344859    0.320328    0.164339    
0.289040    0.209865    0.151683    0.349412    
0.153609    0.191266    0.230615    0.424510    
0.717152    0.035619    0.128912    0.118318    
0.015844    0.931939    0.044019    0.008198    
0.074710    0.923143    0.001579    0.000568    
0.005662    0.001876    0.991367    0.001095    
0.002915    0.001618    0.993221    0.002246    
0.986317    0.000532    0.001970    0.011180    
0.891841    0.003746    0.000912    0.103501    
0.077493    0.231881    0.682573    0.008053    
0.012287    0.247896    0.024535    0.715282    
0.291287    0.134464    0.256360    0.317889    
0.223530    0.285605    0.253558    0.237306    
0.373509    0.307981    0.133817    0.184693    
0.294043    0.208400    0.267829    0.229728    
Consensus sequence: VVHBACCGGAAGTDBHD

Reverse complement motif
0.229728    0.208400    0.267829    0.294043    
0.184693    0.307981    0.133817    0.373509    
0.223530    0.253558    0.285605    0.237306    
0.317889    0.134464    0.256360    0.291287    
0.715282    0.247896    0.024535    0.012287    
0.077493    0.682573    0.231881    0.008053    
0.103501    0.003746    0.000912    0.891841    
0.011180    0.000532    0.001970    0.986317    
0.002915    0.993221    0.001618    0.002246    
0.005662    0.991367    0.001876    0.001095    
0.074710    0.001579    0.923143    0.000568    
0.015844    0.044019    0.931939    0.008198    
0.118318    0.035619    0.128912    0.717152    
0.424510    0.191266    0.230615    0.153609    
0.349412    0.209865    0.151683    0.289040    
0.170474    0.320328    0.344859    0.164339    
0.121853    0.247184    0.200279    0.430685    
Consensus sequence: DHBDACTTCCGGTVHVB

Alignment:
DHBDACTTCCGGTVHVB
------TTCCAGGAGGA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00183        Hoxa13                             Original Motif                          Original Motif                          Forward        3              11             0.030718       

Species: Mus musculus

Original motif
0.349550    0.172903    0.163906    0.313641    
0.315011    0.194211    0.195948    0.294830    
0.368766    0.201805    0.178542    0.250887    
0.145880    0.295376    0.295376    0.263368    
0.015331    0.929453    0.054675    0.000540    
0.001365    0.028771    0.001559    0.968304    
0.010908    0.940311    0.000350    0.048431    
0.197963    0.000370    0.796987    0.004680    
0.001758    0.010551    0.000808    0.986883    
0.926536    0.000378    0.002732    0.070353    
0.969248    0.000662    0.000790    0.029301    
0.981050    0.005733    0.000805    0.012411    
0.621561    0.122585    0.047087    0.208767    
0.297436    0.133532    0.093665    0.475368    
0.178579    0.227666    0.232495    0.361260    
0.234668    0.133863    0.220639    0.410829    
Consensus sequence: HDHBCTCGTAAAAWBD

Reverse complement motif
0.410829    0.133863    0.220639    0.234668    
0.361260    0.227666    0.232495    0.178579    
0.475368    0.133532    0.093665    0.297436    
0.208767    0.122585    0.047087    0.621561    
0.012411    0.005733    0.000805    0.981050    
0.029301    0.000662    0.000790    0.969248    
0.070353    0.000378    0.002732    0.926536    
0.986883    0.010551    0.000808    0.001758    
0.197963    0.796987    0.000370    0.004680    
0.010908    0.000350    0.940311    0.048431    
0.968304    0.028771    0.001559    0.001365    
0.015331    0.054675    0.929453    0.000540    
0.145880    0.295376    0.295376    0.263368    
0.250887    0.201805    0.178542    0.368766    
0.294830    0.194211    0.195948    0.315011    
0.313641    0.172903    0.163906    0.349550    
Consensus sequence: DVWTTTTACGAGBHDH

Alignment:
HDHBCTCGTAAAAWBD
--TCCTCCTGGAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 21		Motif name: Motif 21

Original motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.500000    0.500000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: CTGCTTTCCMAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: TTYGGAAAGCAG


************************************************************************ Best Matches for Motif ID 21 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00018        Irf4_primary                       Original Motif                          Reverse Complement                      Forward        2              12             0.032857       

Species: Mus musculus

Original motif
0.302723    0.390309    0.162248    0.144720    
0.263298    0.109753    0.466266    0.160683    
0.314007    0.079943    0.170722    0.435328    
0.657943    0.042407    0.054822    0.244828    
0.175125    0.281452    0.069422    0.474000    
0.014866    0.891988    0.005489    0.087657    
0.012252    0.001771    0.982933    0.003044    
0.985642    0.006248    0.005379    0.002731    
0.933526    0.002109    0.003143    0.061222    
0.988146    0.003436    0.001669    0.006749    
0.021771    0.945675    0.026522    0.006032    
0.029305    0.568908    0.017908    0.383879    
0.396869    0.133807    0.324146    0.145178    
0.326865    0.278882    0.198196    0.196056    
0.506287    0.142988    0.165503    0.185222    
Consensus sequence: VDDAYCGAAACYDVA

Reverse complement motif
0.185222    0.142988    0.165503    0.506287    
0.196056    0.278882    0.198196    0.326865    
0.145178    0.133807    0.324146    0.396869    
0.029305    0.017908    0.568908    0.383879    
0.021771    0.026522    0.945675    0.006032    
0.006749    0.003436    0.001669    0.988146    
0.061222    0.002109    0.003143    0.933526    
0.002731    0.006248    0.005379    0.985642    
0.012252    0.982933    0.001771    0.003044    
0.014866    0.005489    0.891988    0.087657    
0.474000    0.281452    0.069422    0.175125    
0.244828    0.042407    0.054822    0.657943    
0.435328    0.079943    0.170722    0.314007    
0.263298    0.466266    0.109753    0.160683    
0.302723    0.162248    0.390309    0.144720    
Consensus sequence: TBDKGTTTCGMTDHV

Alignment:
TBDKGTTTCGMTDHV
-CTGCTTTCCMAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00015        Ehf_secondary                      Reverse Complement                      Reverse Complement                      Forward        4              12             0.033930       

Species: Mus musculus

Original motif
0.307205    0.034440    0.106635    0.551720    
0.363403    0.109044    0.178564    0.348988    
0.296409    0.241179    0.359666    0.102746    
0.239304    0.113815    0.274725    0.372156    
0.742404    0.063158    0.121573    0.072864    
0.160692    0.233592    0.260062    0.345653    
0.073999    0.014007    0.012486    0.899508    
0.074874    0.014298    0.009907    0.900921    
0.022623    0.925966    0.008378    0.043033    
0.027723    0.921907    0.020088    0.030282    
0.029405    0.074965    0.595500    0.300130    
0.776422    0.083024    0.041124    0.099429    
0.270188    0.158044    0.134940    0.436827    
0.070564    0.545506    0.345463    0.038467    
0.316962    0.128938    0.151826    0.402274    
0.327940    0.106122    0.104097    0.461841    
Consensus sequence: WDVDABTTCCKAHSDW

Reverse complement motif
0.461841    0.106122    0.104097    0.327940    
0.402274    0.128938    0.151826    0.316962    
0.070564    0.345463    0.545506    0.038467    
0.436827    0.158044    0.134940    0.270188    
0.099429    0.083024    0.041124    0.776422    
0.029405    0.595500    0.074965    0.300130    
0.027723    0.020088    0.921907    0.030282    
0.022623    0.008378    0.925966    0.043033    
0.900921    0.014298    0.009907    0.074874    
0.899508    0.014007    0.012486    0.073999    
0.345653    0.233592    0.260062    0.160692    
0.072864    0.063158    0.121573    0.742404    
0.372156    0.113815    0.274725    0.239304    
0.296409    0.359666    0.241179    0.102746    
0.348988    0.109044    0.178564    0.363403    
0.551720    0.034440    0.106635    0.307205    
Consensus sequence: WDSHTYGGAAVTDVDW

Alignment:
WDSHTYGGAAVTDVDW
---TTYGGAAAGCAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Reverse Complement                      Reverse Complement                      Forward        2              12             0.036261       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
DMTWDGTCAGCADWTTH
-TTYGGAAAGCAG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Original Motif                          Reverse Complement                      Backward       3              12             0.037318       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DBVVAGCTGTCAWWVTH
---CTGCTTTCCMAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00258        Tgif2                              Original Motif                          Original Motif                          Backward       2              12             0.038517       

Species: Mus musculus

Original motif
0.519684    0.141807    0.112153    0.226356    
0.614097    0.079211    0.138045    0.168647    
0.186975    0.327654    0.245051    0.240320    
0.108289    0.303530    0.219106    0.369076    
0.914812    0.012014    0.046628    0.026546    
0.070482    0.163253    0.689315    0.076951    
0.016354    0.972639    0.003648    0.007359    
0.002043    0.018718    0.000384    0.978855    
0.006109    0.001408    0.990736    0.001747    
0.024783    0.002060    0.000402    0.972755    
0.001485    0.991963    0.001756    0.004796    
0.989335    0.001052    0.002320    0.007293    
0.778804    0.056366    0.037632    0.127198    
0.377980    0.094597    0.086888    0.440535    
0.458125    0.289431    0.152762    0.099682    
0.223103    0.435348    0.216962    0.124587    
Consensus sequence: AABBAGCTGTCAAWVV

Reverse complement motif
0.223103    0.216962    0.435348    0.124587    
0.099682    0.289431    0.152762    0.458125    
0.440535    0.094597    0.086888    0.377980    
0.127198    0.056366    0.037632    0.778804    
0.007293    0.001052    0.002320    0.989335    
0.001485    0.001756    0.991963    0.004796    
0.972755    0.002060    0.000402    0.024783    
0.006109    0.990736    0.001408    0.001747    
0.978855    0.018718    0.000384    0.002043    
0.016354    0.003648    0.972639    0.007359    
0.070482    0.689315    0.163253    0.076951    
0.026546    0.012014    0.046628    0.914812    
0.369076    0.303530    0.219106    0.108289    
0.186975    0.245051    0.327654    0.240320    
0.168647    0.079211    0.138045    0.614097    
0.226356    0.141807    0.112153    0.519684    
Consensus sequence: VBWTTGACAGCTVBTT

Alignment:
AABBAGCTGTCAAWVV
---CTGCTTTCCMAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00148        Hdx                                Reverse Complement                      Original Motif                          Forward        2              12             0.039168       

Species: Mus musculus

Original motif
0.311640    0.203273    0.213311    0.271776    
0.341055    0.177799    0.257310    0.223836    
0.047573    0.089551    0.516163    0.346713    
0.195776    0.119326    0.352322    0.332576    
0.295379    0.306027    0.157574    0.241020    
0.213770    0.018770    0.724927    0.042533    
0.702123    0.228608    0.050137    0.019133    
0.826735    0.011735    0.061646    0.099884    
0.920071    0.005458    0.026253    0.048218    
0.018655    0.024240    0.028915    0.928190    
0.029929    0.896758    0.043300    0.030013    
0.864548    0.044943    0.013744    0.076766    
0.177175    0.216931    0.155519    0.450375    
0.228403    0.325164    0.203649    0.242785    
0.140135    0.298665    0.306153    0.255047    
0.338324    0.345500    0.057864    0.258313    
0.402538    0.228867    0.191777    0.176818    
Consensus sequence: DDKDHGAAATCAHHBHV

Reverse complement motif
0.176818    0.228867    0.191777    0.402538    
0.338324    0.057864    0.345500    0.258313    
0.140135    0.306153    0.298665    0.255047    
0.228403    0.203649    0.325164    0.242785    
0.450375    0.216931    0.155519    0.177175    
0.076766    0.044943    0.013744    0.864548    
0.029929    0.043300    0.896758    0.030013    
0.928190    0.024240    0.028915    0.018655    
0.048218    0.005458    0.026253    0.920071    
0.099884    0.011735    0.061646    0.826735    
0.019133    0.228608    0.050137    0.702123    
0.213770    0.724927    0.018770    0.042533    
0.295379    0.157574    0.306027    0.241020    
0.195776    0.352322    0.119326    0.332576    
0.047573    0.516163    0.089551    0.346713    
0.223836    0.177799    0.257310    0.341055    
0.271776    0.203273    0.213311    0.311640    
Consensus sequence: BDBDHTGATTTCDHYDD

Alignment:
DDKDHGAAATCAHHBHV
-TTYGGAAAGCAG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00040        Irf5_primary                       Reverse Complement                      Original Motif                          Forward        4              12             0.040570       

Species: Mus musculus

Original motif
0.337548    0.193688    0.194039    0.274725    
0.279950    0.185928    0.199501    0.334621    
0.357304    0.160203    0.278768    0.203725    
0.499782    0.069569    0.166858    0.263790    
0.832538    0.022992    0.085287    0.059183    
0.144788    0.434769    0.040595    0.379848    
0.016035    0.943520    0.003379    0.037067    
0.014208    0.001713    0.982579    0.001500    
0.985572    0.004274    0.008722    0.001432    
0.894404    0.001440    0.007585    0.096571    
0.991307    0.002706    0.001993    0.003994    
0.011143    0.973529    0.013241    0.002087    
0.016468    0.532173    0.009621    0.441739    
0.462373    0.120288    0.237126    0.180213    
0.392685    0.223865    0.229697    0.153753    
Consensus sequence: DDDWAYCGAAACYDV

Reverse complement motif
0.153753    0.223865    0.229697    0.392685    
0.180213    0.120288    0.237126    0.462373    
0.016468    0.009621    0.532173    0.441739    
0.011143    0.013241    0.973529    0.002087    
0.003994    0.002706    0.001993    0.991307    
0.096571    0.001440    0.007585    0.894404    
0.001432    0.004274    0.008722    0.985572    
0.014208    0.982579    0.001713    0.001500    
0.016035    0.003379    0.943520    0.037067    
0.144788    0.040595    0.434769    0.379848    
0.059183    0.022992    0.085287    0.832538    
0.263790    0.069569    0.166858    0.499782    
0.203725    0.160203    0.278768    0.357304    
0.334621    0.185928    0.199501    0.279950    
0.274725    0.193688    0.194039    0.337548    
Consensus sequence: BDKGTTTCGKTWDDD

Alignment:
DDDWAYCGAAACYDV
---TTYGGAAAGCAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00192        Six1                               Original Motif                          Reverse Complement                      Forward        5              12             0.041417       

Species: Mus musculus

Original motif
0.319306    0.130147    0.399309    0.151238    
0.482636    0.211172    0.085871    0.220321    
0.214292    0.085504    0.207353    0.492851    
0.392819    0.136859    0.403883    0.066438    
0.215886    0.049341    0.685932    0.048842    
0.039793    0.053756    0.870240    0.036211    
0.202525    0.005026    0.791396    0.001053    
0.001092    0.001021    0.052968    0.944919    
0.963185    0.001738    0.033596    0.001480    
0.002017    0.001886    0.002847    0.993250    
0.009914    0.974962    0.001987    0.013137    
0.909252    0.021586    0.037899    0.031263    
0.177851    0.274190    0.117998    0.429961    
0.228906    0.159459    0.303955    0.307681    
0.330938    0.158106    0.118706    0.392251    
0.160453    0.267920    0.280244    0.291383    
0.176707    0.068175    0.229538    0.525580    
Consensus sequence: DHDRGGGTATCAHDHBT

Reverse complement motif
0.525580    0.068175    0.229538    0.176707    
0.291383    0.267920    0.280244    0.160453    
0.392251    0.158106    0.118706    0.330938    
0.307681    0.159459    0.303955    0.228906    
0.429961    0.274190    0.117998    0.177851    
0.031263    0.021586    0.037899    0.909252    
0.009914    0.001987    0.974962    0.013137    
0.993250    0.001886    0.002847    0.002017    
0.001480    0.001738    0.033596    0.963185    
0.944919    0.001021    0.052968    0.001092    
0.202525    0.791396    0.005026    0.001053    
0.039793    0.870240    0.053756    0.036211    
0.215886    0.685932    0.049341    0.048842    
0.392819    0.403883    0.136859    0.066438    
0.492851    0.085504    0.207353    0.214292    
0.220321    0.211172    0.085871    0.482636    
0.319306    0.399309    0.130147    0.151238    
Consensus sequence: AVHDHTGATACCCMDHH

Alignment:
AVHDHTGATACCCMDHH
----CTGCTTTCCMAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00159        Six2                               Original Motif                          Reverse Complement                      Forward        5              12             0.042052       

Species: Mus musculus

Original motif
0.452545    0.099192    0.290852    0.157411    
0.587199    0.117373    0.086707    0.208721    
0.191837    0.044362    0.256539    0.507262    
0.299111    0.107464    0.518651    0.074774    
0.118226    0.040974    0.797168    0.043631    
0.010113    0.030311    0.923661    0.035916    
0.126925    0.002828    0.869144    0.001103    
0.001338    0.000719    0.046297    0.951646    
0.958864    0.001525    0.038365    0.001246    
0.003353    0.001741    0.001927    0.992979    
0.007665    0.981087    0.001717    0.009531    
0.903866    0.022768    0.054074    0.019292    
0.165996    0.505327    0.077238    0.251439    
0.252666    0.168847    0.288545    0.289942    
0.336830    0.080857    0.058862    0.523451    
0.234102    0.268721    0.215252    0.281925    
0.172036    0.083695    0.223889    0.520379    
Consensus sequence: DAKRGGGTATCACDWHT

Reverse complement motif
0.520379    0.083695    0.223889    0.172036    
0.281925    0.268721    0.215252    0.234102    
0.523451    0.080857    0.058862    0.336830    
0.289942    0.168847    0.288545    0.252666    
0.165996    0.077238    0.505327    0.251439    
0.019292    0.022768    0.054074    0.903866    
0.007665    0.001717    0.981087    0.009531    
0.992979    0.001741    0.001927    0.003353    
0.001246    0.001525    0.038365    0.958864    
0.951646    0.000719    0.046297    0.001338    
0.126925    0.869144    0.002828    0.001103    
0.010113    0.923661    0.030311    0.035916    
0.118226    0.797168    0.040974    0.043631    
0.299111    0.518651    0.107464    0.074774    
0.507262    0.044362    0.256539    0.191837    
0.208721    0.117373    0.086707    0.587199    
0.157411    0.099192    0.290852    0.452545    
Consensus sequence: AHWDGTGATACCCMRTD

Alignment:
AHWDGTGATACCCMRTD
----CTGCTTTCCMAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00235        Hoxc11                             Reverse Complement                      Original Motif                          Forward        5              12             0.042144       

Species: Mus musculus

Original motif
0.233269    0.248491    0.135443    0.382797    
0.530699    0.117734    0.196458    0.155109    
0.520162    0.128349    0.129047    0.222442    
0.383288    0.142763    0.265367    0.208581    
0.082604    0.036330    0.879729    0.001337    
0.001490    0.025603    0.000959    0.971949    
0.011271    0.977559    0.000430    0.010739    
0.234170    0.001531    0.762912    0.001387    
0.002139    0.001352    0.004590    0.991918    
0.858371    0.001955    0.000717    0.138958    
0.981016    0.000748    0.001915    0.016321    
0.985345    0.003895    0.001793    0.008967    
0.542364    0.130700    0.106606    0.220330    
0.222953    0.268192    0.191329    0.317526    
0.353019    0.168556    0.262332    0.216093    
0.196584    0.119005    0.352701    0.331710    
Consensus sequence: HAADGTCGTAAAAHDD

Reverse complement motif
0.196584    0.352701    0.119005    0.331710    
0.216093    0.168556    0.262332    0.353019    
0.317526    0.268192    0.191329    0.222953    
0.220330    0.130700    0.106606    0.542364    
0.008967    0.003895    0.001793    0.985345    
0.016321    0.000748    0.001915    0.981016    
0.138958    0.001955    0.000717    0.858371    
0.991918    0.001352    0.004590    0.002139    
0.234170    0.762912    0.001531    0.001387    
0.011271    0.000430    0.977559    0.010739    
0.971949    0.025603    0.000959    0.001490    
0.082604    0.879729    0.036330    0.001337    
0.208581    0.142763    0.265367    0.383288    
0.222442    0.128349    0.129047    0.520162    
0.155109    0.117734    0.196458    0.530699    
0.382797    0.248491    0.135443    0.233269    
Consensus sequence: HDHTTTTACGACDTTH

Alignment:
HAADGTCGTAAAAHDD
----TTYGGAAAGCAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 22		Motif name: Motif 22

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTTATGGTGAGCAT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: ATGCTCACCATAAA


************************************************************************ Best Matches for Motif ID 22 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00146        Pou6f1_3733.1                      Reverse Complement                      Reverse Complement                      Forward        3              14             0.026920       

Species: Mus musculus

Original motif
0.380020    0.211224    0.295981    0.112776    
0.349734    0.309602    0.075135    0.265530    
0.356459    0.226592    0.169646    0.247302    
0.229673    0.350174    0.311906    0.108247    
0.757838    0.046686    0.016036    0.179440    
0.014478    0.002669    0.000464    0.982389    
0.984156    0.000563    0.002241    0.013039    
0.992195    0.001470    0.001823    0.004511    
0.001610    0.002156    0.003120    0.993114    
0.008328    0.001327    0.802239    0.188106    
0.990155    0.004149    0.002815    0.002881    
0.004992    0.004117    0.965215    0.025676    
0.091361    0.290495    0.533319    0.084826    
0.164763    0.143217    0.028702    0.663317    
0.164550    0.118473    0.276288    0.440689    
0.152985    0.151847    0.413228    0.281941    
0.241185    0.447249    0.135344    0.176222    
Consensus sequence: VHHVATAATGAGSTDDH

Reverse complement motif
0.241185    0.135344    0.447249    0.176222    
0.152985    0.413228    0.151847    0.281941    
0.440689    0.118473    0.276288    0.164550    
0.663317    0.143217    0.028702    0.164763    
0.091361    0.533319    0.290495    0.084826    
0.004992    0.965215    0.004117    0.025676    
0.002881    0.004149    0.002815    0.990155    
0.008328    0.802239    0.001327    0.188106    
0.993114    0.002156    0.003120    0.001610    
0.004511    0.001470    0.001823    0.992195    
0.013039    0.000563    0.002241    0.984156    
0.982389    0.002669    0.000464    0.014478    
0.179440    0.046686    0.016036    0.757838    
0.229673    0.311906    0.350174    0.108247    
0.247302    0.226592    0.169646    0.356459    
0.265530    0.309602    0.075135    0.349734    
0.112776    0.211224    0.295981    0.380020    
Consensus sequence: DHDASCTCATTATVHHB

Alignment:
DHDASCTCATTATVHHB
--ATGCTCACCATAAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Original Motif                          Reverse Complement                      Backward       10             13             0.511393       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
-DCATDBTGHGCATKMTTBRSWR
TTTATGGTGAGCAT---------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Reverse Complement                      Original Motif                          Forward        5              13             0.520342       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
HAAWDTGCTGACDWARH-
----ATGCTCACCATAAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00097        Mtf1_primary                       Original Motif                          Original Motif                          Forward        2              13             0.520462       

Species: Mus musculus

Original motif
0.220880    0.102939    0.418146    0.258035    
0.154303    0.210788    0.420671    0.214238    
0.229141    0.160788    0.412818    0.197253    
0.167193    0.404248    0.092489    0.336070    
0.025978    0.931335    0.023830    0.018857    
0.009150    0.002023    0.977342    0.011485    
0.044768    0.024113    0.039091    0.892028    
0.007577    0.008370    0.973767    0.010286    
0.005251    0.264996    0.004018    0.725735    
0.009165    0.002428    0.980566    0.007841    
0.021296    0.956027    0.008893    0.013784    
0.982532    0.003341    0.005773    0.008353    
0.500983    0.226027    0.143944    0.129045    
0.544466    0.285936    0.044719    0.124879    
0.321158    0.168428    0.261827    0.248587    
0.271460    0.263221    0.199083    0.266236    
Consensus sequence: DBDHCGTGTGCAAMDH

Reverse complement motif
0.266236    0.263221    0.199083    0.271460    
0.248587    0.168428    0.261827    0.321158    
0.124879    0.285936    0.044719    0.544466    
0.129045    0.226027    0.143944    0.500983    
0.008353    0.003341    0.005773    0.982532    
0.021296    0.008893    0.956027    0.013784    
0.009165    0.980566    0.002428    0.007841    
0.725735    0.264996    0.004018    0.005251    
0.007577    0.973767    0.008370    0.010286    
0.892028    0.024113    0.039091    0.044768    
0.009150    0.977342    0.002023    0.011485    
0.025978    0.023830    0.931335    0.018857    
0.167193    0.092489    0.404248    0.336070    
0.229141    0.412818    0.160788    0.197253    
0.154303    0.420671    0.210788    0.214238    
0.220880    0.418146    0.102939    0.258035    
Consensus sequence: HDYTTGCACACGDHBH

Alignment:
DBDHCGTGTGCAAMDH-
-TTTATGGTGAGCAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_primary                       Original Motif                          Reverse Complement                      Backward       4              13             0.524109       

Species: Mus musculus

Original motif
0.275207    0.211375    0.250277    0.263141    
0.135064    0.327571    0.217556    0.319808    
0.145659    0.242586    0.267179    0.344576    
0.656519    0.009712    0.315174    0.018595    
0.002265    0.004755    0.001656    0.991325    
0.041873    0.001128    0.955340    0.001659    
0.001306    0.974834    0.022215    0.001645    
0.001978    0.992066    0.002638    0.003317    
0.921032    0.072388    0.001237    0.005344    
0.582027    0.211694    0.115736    0.090542    
0.005990    0.927450    0.028306    0.038254    
0.027374    0.799879    0.053667    0.119080    
0.203510    0.191263    0.168997    0.436229    
0.402253    0.154087    0.291346    0.152314    
0.201201    0.414412    0.145330    0.239056    
0.241094    0.332661    0.143464    0.282781    
Consensus sequence: DBBATGCCAACCHVHH

Reverse complement motif
0.241094    0.143464    0.332661    0.282781    
0.201201    0.145330    0.414412    0.239056    
0.152314    0.154087    0.291346    0.402253    
0.436229    0.191263    0.168997    0.203510    
0.027374    0.053667    0.799879    0.119080    
0.005990    0.028306    0.927450    0.038254    
0.090542    0.211694    0.115736    0.582027    
0.005344    0.072388    0.001237    0.921032    
0.001978    0.002638    0.992066    0.003317    
0.001306    0.022215    0.974834    0.001645    
0.041873    0.955340    0.001128    0.001659    
0.991325    0.004755    0.001656    0.002265    
0.018595    0.009712    0.315174    0.656519    
0.344576    0.242586    0.267179    0.145659    
0.135064    0.217556    0.327571    0.319808    
0.263141    0.211375    0.250277    0.275207    
Consensus sequence: DDBHGGTTGGCATVBD

Alignment:
-DDBHGGTTGGCATVBD
TTTATGGTGAGCAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00072        IRC900814_primary                  Original Motif                          Reverse Complement                      Backward       3              12             1.017146       

Species: Mus musculus

Original motif
0.365594    0.139520    0.170474    0.324412    
0.273874    0.192800    0.250453    0.282872    
0.161547    0.330332    0.098428    0.409694    
0.084003    0.205596    0.098191    0.612210    
0.953705    0.016367    0.006314    0.023614    
0.003494    0.989648    0.003278    0.003580    
0.004722    0.003156    0.988805    0.003317    
0.939828    0.001925    0.052151    0.006096    
0.183998    0.760396    0.030845    0.024762    
0.917564    0.003661    0.065438    0.013337    
0.965452    0.006559    0.005183    0.022807    
0.730611    0.054369    0.006576    0.208444    
0.266519    0.133801    0.067418    0.532262    
0.329952    0.210903    0.220319    0.238826    
0.250220    0.197954    0.314202    0.237625    
0.172311    0.401218    0.189340    0.237131    
Consensus sequence: DDHTACGACAAAWDDB

Reverse complement motif
0.172311    0.189340    0.401218    0.237131    
0.250220    0.314202    0.197954    0.237625    
0.238826    0.210903    0.220319    0.329952    
0.532262    0.133801    0.067418    0.266519    
0.208444    0.054369    0.006576    0.730611    
0.022807    0.006559    0.005183    0.965452    
0.013337    0.003661    0.065438    0.917564    
0.183998    0.030845    0.760396    0.024762    
0.006096    0.001925    0.052151    0.939828    
0.004722    0.988805    0.003156    0.003317    
0.003494    0.003278    0.989648    0.003580    
0.023614    0.016367    0.006314    0.953705    
0.612210    0.205596    0.098191    0.084003    
0.409694    0.330332    0.098428    0.161547    
0.282872    0.192800    0.250453    0.273874    
0.324412    0.139520    0.170474    0.365594    
Consensus sequence: BHDWTTTGTCGTAHDD

Alignment:
--DDHTACGACAAAWDDB
--TTTATGGTGAGCAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00191        Pou2f2                             Original Motif                          Reverse Complement                      Forward        3              12             1.017403       

Species: Mus musculus

Original motif
0.143441    0.268530    0.212213    0.375817    
0.267386    0.204043    0.174256    0.354316    
0.230583    0.148604    0.348518    0.272295    
0.127633    0.095216    0.030997    0.746154    
0.987721    0.002410    0.003474    0.006395    
0.003588    0.019280    0.002951    0.974182    
0.005844    0.003199    0.919428    0.071529    
0.004446    0.890754    0.005987    0.098813    
0.743311    0.001562    0.003671    0.251456    
0.893912    0.003008    0.014228    0.088852    
0.982166    0.003049    0.002708    0.012076    
0.027054    0.005668    0.023977    0.943301    
0.197736    0.122428    0.271727    0.408108    
0.496910    0.196661    0.105572    0.200857    
0.347287    0.129915    0.369062    0.153737    
0.409641    0.236160    0.215425    0.138774    
Consensus sequence: BHDTATGCAAATDHDV

Reverse complement motif
0.138774    0.236160    0.215425    0.409641    
0.347287    0.369062    0.129915    0.153737    
0.200857    0.196661    0.105572    0.496910    
0.408108    0.122428    0.271727    0.197736    
0.943301    0.005668    0.023977    0.027054    
0.012076    0.003049    0.002708    0.982166    
0.088852    0.003008    0.014228    0.893912    
0.251456    0.001562    0.003671    0.743311    
0.004446    0.005987    0.890754    0.098813    
0.005844    0.919428    0.003199    0.071529    
0.974182    0.019280    0.002951    0.003588    
0.006395    0.002410    0.003474    0.987721    
0.746154    0.095216    0.030997    0.127633    
0.230583    0.348518    0.148604    0.272295    
0.354316    0.204043    0.174256    0.267386    
0.375817    0.268530    0.212213    0.143441    
Consensus sequence: BHHDATTTGCATAHHV

Alignment:
BHDTATGCAAATDHDV--
--TTTATGGTGAGCAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00179        Pou2f3                             Original Motif                          Reverse Complement                      Forward        3              12             1.017817       

Species: Mus musculus

Original motif
0.163923    0.199410    0.196283    0.440385    
0.244854    0.217834    0.151102    0.386210    
0.185934    0.134662    0.398787    0.280618    
0.090352    0.119462    0.037157    0.753030    
0.990346    0.001754    0.001818    0.006083    
0.002450    0.011715    0.002154    0.983680    
0.002638    0.001114    0.938678    0.057569    
0.002016    0.911319    0.003818    0.082847    
0.740177    0.001090    0.002005    0.256728    
0.905415    0.001757    0.014660    0.078168    
0.987356    0.003190    0.001846    0.007608    
0.016362    0.004807    0.016312    0.962520    
0.153576    0.155400    0.290074    0.400950    
0.455331    0.242511    0.111337    0.190822    
0.293425    0.163528    0.350203    0.192844    
0.411723    0.243796    0.182398    0.162083    
Consensus sequence: BHDTATGCAAATBHDV

Reverse complement motif
0.162083    0.243796    0.182398    0.411723    
0.293425    0.350203    0.163528    0.192844    
0.190822    0.242511    0.111337    0.455331    
0.400950    0.155400    0.290074    0.153576    
0.962520    0.004807    0.016312    0.016362    
0.007608    0.003190    0.001846    0.987356    
0.078168    0.001757    0.014660    0.905415    
0.256728    0.001090    0.002005    0.740177    
0.002016    0.003818    0.911319    0.082847    
0.002638    0.938678    0.001114    0.057569    
0.983680    0.011715    0.002154    0.002450    
0.006083    0.001754    0.001818    0.990346    
0.753030    0.119462    0.037157    0.090352    
0.185934    0.398787    0.134662    0.280618    
0.386210    0.217834    0.151102    0.244854    
0.440385    0.199410    0.196283    0.163923    
Consensus sequence: BHHVATTTGCATAHHV

Alignment:
BHDTATGCAAATBHDV--
--TTTATGGTGAGCAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00133        Cdx2                               Reverse Complement                      Original Motif                          Backward       5              12             1.022114       

Species: Mus musculus

Original motif
0.314704    0.147028    0.248638    0.289630    
0.358628    0.179740    0.325491    0.136141    
0.298646    0.303363    0.300590    0.097401    
0.188478    0.055557    0.664045    0.091921    
0.171259    0.033449    0.790542    0.004751    
0.002849    0.464940    0.000596    0.531615    
0.576948    0.399193    0.001565    0.022295    
0.968872    0.001511    0.028582    0.001035    
0.006970    0.003535    0.000486    0.989010    
0.878078    0.003399    0.000389    0.118134    
0.951183    0.000842    0.001555    0.046419    
0.939504    0.006021    0.000818    0.053657    
0.567732    0.151536    0.050535    0.230197    
0.172713    0.264434    0.122553    0.440299    
0.142175    0.107265    0.258247    0.492313    
0.215178    0.302818    0.133613    0.348391    
Consensus sequence: DVVGGYMATAAAAHKH

Reverse complement motif
0.348391    0.302818    0.133613    0.215178    
0.492313    0.107265    0.258247    0.142175    
0.440299    0.264434    0.122553    0.172713    
0.230197    0.151536    0.050535    0.567732    
0.053657    0.006021    0.000818    0.939504    
0.046419    0.000842    0.001555    0.951183    
0.118134    0.003399    0.000389    0.878078    
0.989010    0.003535    0.000486    0.006970    
0.001035    0.001511    0.028582    0.968872    
0.022295    0.399193    0.001565    0.576948    
0.531615    0.464940    0.000596    0.002849    
0.171259    0.790542    0.033449    0.004751    
0.188478    0.664045    0.055557    0.091921    
0.298646    0.300590    0.303363    0.097401    
0.136141    0.179740    0.325491    0.358628    
0.289630    0.147028    0.248638    0.314704    
Consensus sequence: HRHTTTTATYMCCVBD

Alignment:
--DVVGGYMATAAAAHKH
ATGCTCACCATAAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00173        Hoxc13                             Reverse Complement                      Original Motif                          Forward        3              12             1.029208       

Species: Mus musculus

Original motif
0.329750    0.218875    0.126085    0.325290    
0.359529    0.208886    0.161839    0.269746    
0.422361    0.147886    0.154953    0.274800    
0.109858    0.231755    0.365475    0.292912    
0.026731    0.838331    0.133884    0.001054    
0.001860    0.034063    0.001665    0.962411    
0.018979    0.887508    0.000421    0.093092    
0.394654    0.000419    0.598992    0.005935    
0.001269    0.017200    0.000611    0.980919    
0.897441    0.000397    0.003712    0.098450    
0.958993    0.000593    0.000873    0.039541    
0.981006    0.004963    0.001000    0.013032    
0.645464    0.081310    0.051136    0.222090    
0.298300    0.138406    0.094463    0.468832    
0.158954    0.229153    0.156589    0.455305    
0.325279    0.092193    0.241621    0.340907    
Consensus sequence: HHDBCTCRTAAAAWHD

Reverse complement motif
0.340907    0.092193    0.241621    0.325279    
0.455305    0.229153    0.156589    0.158954    
0.468832    0.138406    0.094463    0.298300    
0.222090    0.081310    0.051136    0.645464    
0.013032    0.004963    0.001000    0.981006    
0.039541    0.000593    0.000873    0.958993    
0.098450    0.000397    0.003712    0.897441    
0.980919    0.017200    0.000611    0.001269    
0.394654    0.598992    0.000419    0.005935    
0.018979    0.000421    0.887508    0.093092    
0.962411    0.034063    0.001665    0.001860    
0.026731    0.133884    0.838331    0.001054    
0.109858    0.365475    0.231755    0.292912    
0.274800    0.147886    0.154953    0.422361    
0.269746    0.208886    0.161839    0.359529    
0.325290    0.218875    0.126085    0.329750    
Consensus sequence: DHWTTTTAMGAGBDHH

Alignment:
DHWTTTTAMGAGBDHH--
--ATGCTCACCATAAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 23		Motif name: Motif 23

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.500000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: ATGTWTTCATTMAT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: ATYAATGAAWACAT


************************************************************************ Best Matches for Motif ID 23 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00130        Lhx3                               Reverse Complement                      Original Motif                          Backward       1              14             0.028564       

Species: Mus musculus

Original motif
0.226746    0.289244    0.371785    0.112225    
0.256971    0.229670    0.248726    0.264633    
0.556784    0.228344    0.038490    0.176382    
0.631659    0.088282    0.196624    0.083434    
0.021306    0.098213    0.006109    0.874373    
0.016974    0.029949    0.000343    0.952734    
0.971885    0.004194    0.023228    0.000693    
0.983076    0.001653    0.004793    0.010478    
0.010478    0.004793    0.001653    0.983076    
0.000693    0.023228    0.004194    0.971885    
0.952734    0.000343    0.029949    0.016974    
0.874373    0.006109    0.098213    0.021306    
0.425814    0.086548    0.127397    0.360241    
0.343977    0.034349    0.079320    0.542354    
0.412597    0.281154    0.077380    0.228869    
0.338396    0.315969    0.106509    0.239127    
0.112285    0.233324    0.310745    0.343646    
Consensus sequence: VDAATTAATTAAWWHHB

Reverse complement motif
0.343646    0.233324    0.310745    0.112285    
0.239127    0.315969    0.106509    0.338396    
0.228869    0.281154    0.077380    0.412597    
0.542354    0.034349    0.079320    0.343977    
0.360241    0.086548    0.127397    0.425814    
0.021306    0.006109    0.098213    0.874373    
0.016974    0.000343    0.029949    0.952734    
0.971885    0.023228    0.004194    0.000693    
0.983076    0.004793    0.001653    0.010478    
0.010478    0.001653    0.004793    0.983076    
0.000693    0.004194    0.023228    0.971885    
0.952734    0.029949    0.000343    0.016974    
0.874373    0.098213    0.006109    0.021306    
0.083434    0.088282    0.196624    0.631659    
0.176382    0.228344    0.038490    0.556784    
0.264633    0.229670    0.248726    0.256971    
0.226746    0.371785    0.289244    0.112225    
Consensus sequence: VHHWWTTAATTAATTDV

Alignment:
VDAATTAATTAAWWHHB
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00212        Lhx5                               Reverse Complement                      Original Motif                          Forward        4              14             0.030639       

Species: Mus musculus

Original motif
0.192127    0.348816    0.300474    0.158583    
0.251871    0.201197    0.314740    0.232192    
0.469240    0.195840    0.137749    0.197171    
0.620351    0.063061    0.196615    0.119973    
0.026357    0.096838    0.024928    0.851877    
0.010301    0.066114    0.000301    0.923283    
0.980649    0.007663    0.010886    0.000802    
0.981397    0.001294    0.004654    0.012655    
0.012655    0.004654    0.001294    0.981397    
0.000802    0.010886    0.007663    0.980649    
0.923283    0.000301    0.066114    0.010301    
0.851877    0.024928    0.096838    0.026357    
0.528438    0.142302    0.071537    0.257724    
0.296647    0.115284    0.062688    0.525382    
0.401193    0.235971    0.157675    0.205160    
0.309966    0.315367    0.145959    0.228708    
0.089761    0.287439    0.205359    0.417441    
Consensus sequence: VDHATTAATTAAAWHHB

Reverse complement motif
0.417441    0.287439    0.205359    0.089761    
0.309966    0.145959    0.315367    0.228708    
0.205160    0.235971    0.157675    0.401193    
0.525382    0.115284    0.062688    0.296647    
0.257724    0.142302    0.071537    0.528438    
0.026357    0.024928    0.096838    0.851877    
0.010301    0.000301    0.066114    0.923283    
0.980649    0.010886    0.007663    0.000802    
0.981397    0.004654    0.001294    0.012655    
0.012655    0.001294    0.004654    0.981397    
0.000802    0.007663    0.010886    0.980649    
0.923283    0.066114    0.000301    0.010301    
0.851877    0.096838    0.024928    0.026357    
0.119973    0.063061    0.196615    0.620351    
0.197171    0.195840    0.137749    0.469240    
0.251871    0.314740    0.201197    0.232192    
0.192127    0.300474    0.348816    0.158583    
Consensus sequence: VDHWTTTAATTAATHHV

Alignment:
VDHATTAATTAAAWHHB
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00169        Lmx1b                              Original Motif                          Original Motif                          Forward        1              14             0.034320       

Species: Mus musculus

Original motif
0.336931    0.220707    0.306671    0.135692    
0.251068    0.126246    0.394767    0.227919    
0.318914    0.086872    0.150663    0.443551    
0.368649    0.051170    0.092361    0.487819    
0.359682    0.088506    0.064771    0.487041    
0.019535    0.162692    0.015925    0.801848    
0.015902    0.024224    0.000652    0.959222    
0.974698    0.006086    0.002334    0.016882    
0.978085    0.001281    0.005421    0.015214    
0.015214    0.005421    0.001281    0.978085    
0.016882    0.002334    0.006086    0.974698    
0.959222    0.000652    0.024224    0.015902    
0.801848    0.015925    0.162692    0.019535    
0.242323    0.115688    0.116364    0.525625    
0.283782    0.097563    0.188384    0.430271    
0.252386    0.255982    0.135946    0.355686    
0.141430    0.249462    0.350759    0.258349    
Consensus sequence: VDWWWTTAATTAATDHB

Reverse complement motif
0.141430    0.350759    0.249462    0.258349    
0.355686    0.255982    0.135946    0.252386    
0.430271    0.097563    0.188384    0.283782    
0.525625    0.115688    0.116364    0.242323    
0.019535    0.015925    0.162692    0.801848    
0.015902    0.000652    0.024224    0.959222    
0.974698    0.002334    0.006086    0.016882    
0.978085    0.005421    0.001281    0.015214    
0.015214    0.001281    0.005421    0.978085    
0.016882    0.006086    0.002334    0.974698    
0.959222    0.024224    0.000652    0.015902    
0.801848    0.162692    0.015925    0.019535    
0.487041    0.088506    0.064771    0.359682    
0.487819    0.051170    0.092361    0.368649    
0.443551    0.086872    0.150663    0.318914    
0.251068    0.394767    0.126246    0.227919    
0.135692    0.220707    0.306671    0.336931    
Consensus sequence: BHDATTAATTAAWWWHB

Alignment:
VDWWWTTAATTAATDHB
ATGTWTTCATTMAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00262        Lhx1                               Reverse Complement                      Original Motif                          Forward        4              14             0.034957       

Species: Mus musculus

Original motif
0.315209    0.366241    0.224448    0.094102    
0.226797    0.179144    0.492088    0.101972    
0.381904    0.174944    0.190109    0.253043    
0.579946    0.093451    0.164863    0.161740    
0.033857    0.165951    0.023937    0.776255    
0.010562    0.080337    0.000382    0.908720    
0.983678    0.007671    0.007262    0.001389    
0.976701    0.001039    0.004283    0.017977    
0.017977    0.004283    0.001039    0.976701    
0.001389    0.007262    0.007671    0.983678    
0.908720    0.000382    0.080337    0.010562    
0.776255    0.023937    0.165951    0.033857    
0.372268    0.146397    0.084885    0.396450    
0.497647    0.117799    0.091325    0.293229    
0.643159    0.113094    0.055630    0.188117    
0.275637    0.292310    0.136698    0.295355    
0.149905    0.181595    0.349326    0.319174    
Consensus sequence: VVDATTAATTAAWWAHB

Reverse complement motif
0.149905    0.349326    0.181595    0.319174    
0.295355    0.292310    0.136698    0.275637    
0.188117    0.113094    0.055630    0.643159    
0.293229    0.117799    0.091325    0.497647    
0.396450    0.146397    0.084885    0.372268    
0.033857    0.023937    0.165951    0.776255    
0.010562    0.000382    0.080337    0.908720    
0.983678    0.007262    0.007671    0.001389    
0.976701    0.004283    0.001039    0.017977    
0.017977    0.001039    0.004283    0.976701    
0.001389    0.007671    0.007262    0.983678    
0.908720    0.080337    0.000382    0.010562    
0.776255    0.165951    0.023937    0.033857    
0.161740    0.093451    0.164863    0.579946    
0.253043    0.174944    0.190109    0.381904    
0.226797    0.492088    0.179144    0.101972    
0.315209    0.224448    0.366241    0.094102    
Consensus sequence: BHTWWTTAATTAATDVV

Alignment:
VVDATTAATTAAWWAHB
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00244        Tlx2                               Original Motif                          Reverse Complement                      Backward       3              14             0.036191       

Species: Mus musculus

Original motif
0.105929    0.200768    0.276304    0.416999    
0.605737    0.082484    0.045449    0.266331    
0.616140    0.070870    0.219578    0.093411    
0.207168    0.101768    0.138909    0.552155    
0.205588    0.314073    0.063564    0.416776    
0.753104    0.060249    0.064598    0.122049    
0.785626    0.028841    0.041793    0.143739    
0.035001    0.038504    0.018619    0.907876    
0.039875    0.038526    0.009504    0.912095    
0.920557    0.010057    0.045031    0.024356    
0.806507    0.031077    0.030857    0.131559    
0.170184    0.056552    0.043413    0.729851    
0.630114    0.051409    0.080078    0.238398    
0.554265    0.093528    0.223411    0.128796    
0.183854    0.390999    0.093847    0.331300    
0.289988    0.101149    0.103803    0.505061    
0.400594    0.061089    0.136478    0.401839    
Consensus sequence: BAATHAATTAATAAHWW

Reverse complement motif
0.401839    0.061089    0.136478    0.400594    
0.505061    0.101149    0.103803    0.289988    
0.183854    0.093847    0.390999    0.331300    
0.128796    0.093528    0.223411    0.554265    
0.238398    0.051409    0.080078    0.630114    
0.729851    0.056552    0.043413    0.170184    
0.131559    0.031077    0.030857    0.806507    
0.024356    0.010057    0.045031    0.920557    
0.912095    0.038526    0.009504    0.039875    
0.907876    0.038504    0.018619    0.035001    
0.143739    0.028841    0.041793    0.785626    
0.122049    0.060249    0.064598    0.753104    
0.416776    0.314073    0.063564    0.205588    
0.552155    0.101768    0.138909    0.207168    
0.093411    0.070870    0.219578    0.616140    
0.266331    0.082484    0.045449    0.605737    
0.416999    0.200768    0.276304    0.105929    
Consensus sequence: WWDTTATTAATTHATTV

Alignment:
WWDTTATTAATTHATTV
-ATGTWTTCATTMAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00188        Lmx1a                              Reverse Complement                      Original Motif                          Backward       1              14             0.037513       

Species: Mus musculus

Original motif
0.163027    0.506393    0.246327    0.084254    
0.173471    0.211164    0.477036    0.138330    
0.431859    0.182416    0.155298    0.230427    
0.420560    0.127574    0.126915    0.324951    
0.060842    0.128686    0.037075    0.773398    
0.032236    0.035967    0.001358    0.930439    
0.938541    0.008352    0.007051    0.046057    
0.964464    0.001596    0.003362    0.030579    
0.030579    0.003362    0.001596    0.964464    
0.046057    0.007051    0.008352    0.938541    
0.930439    0.001358    0.035967    0.032236    
0.773398    0.037075    0.128686    0.060842    
0.498149    0.057242    0.091924    0.352686    
0.520755    0.121277    0.054120    0.303848    
0.483290    0.175070    0.069683    0.271957    
0.221557    0.366894    0.153619    0.257930    
0.167920    0.342643    0.169856    0.319581    
Consensus sequence: CVHHTTAATTAAWWWHB

Reverse complement motif
0.167920    0.169856    0.342643    0.319581    
0.221557    0.153619    0.366894    0.257930    
0.271957    0.175070    0.069683    0.483290    
0.303848    0.121277    0.054120    0.520755    
0.352686    0.057242    0.091924    0.498149    
0.060842    0.037075    0.128686    0.773398    
0.032236    0.001358    0.035967    0.930439    
0.938541    0.007051    0.008352    0.046057    
0.964464    0.003362    0.001596    0.030579    
0.030579    0.001596    0.003362    0.964464    
0.046057    0.008352    0.007051    0.938541    
0.930439    0.035967    0.001358    0.032236    
0.773398    0.128686    0.037075    0.060842    
0.324951    0.127574    0.126915    0.420560    
0.230427    0.182416    0.155298    0.431859    
0.173471    0.477036    0.211164    0.138330    
0.163027    0.246327    0.506393    0.084254    
Consensus sequence: BDWWWTTAATTAAHHVG

Alignment:
CVHHTTAATTAAWWWHB
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00155        Hmx2                               Reverse Complement                      Original Motif                          Backward       1              14             0.038600       

Species: Mus musculus

Original motif
0.496013    0.201439    0.234082    0.068466    
0.187731    0.442491    0.232786    0.136992    
0.546269    0.190140    0.171225    0.092365    
0.766900    0.055660    0.121480    0.055959    
0.166703    0.152146    0.573689    0.107463    
0.008586    0.974989    0.003194    0.013231    
0.847648    0.001099    0.146478    0.004775    
0.851907    0.131324    0.006893    0.009877    
0.005053    0.003719    0.001092    0.990135    
0.015092    0.055361    0.000333    0.929213    
0.934792    0.001369    0.011244    0.052595    
0.890982    0.010911    0.022703    0.075405    
0.360898    0.185917    0.109871    0.343315    
0.248362    0.207536    0.407845    0.136257    
0.413889    0.266826    0.266667    0.052618    
0.472173    0.104750    0.246154    0.176923    
0.094095    0.071488    0.092888    0.741528    
Consensus sequence: VVAAGCAATTAAHVVDT

Reverse complement motif
0.741528    0.071488    0.092888    0.094095    
0.176923    0.104750    0.246154    0.472173    
0.052618    0.266826    0.266667    0.413889    
0.248362    0.407845    0.207536    0.136257    
0.343315    0.185917    0.109871    0.360898    
0.075405    0.010911    0.022703    0.890982    
0.052595    0.001369    0.011244    0.934792    
0.929213    0.055361    0.000333    0.015092    
0.990135    0.003719    0.001092    0.005053    
0.009877    0.131324    0.006893    0.851907    
0.004775    0.001099    0.146478    0.847648    
0.008586    0.003194    0.974989    0.013231    
0.166703    0.573689    0.152146    0.107463    
0.055959    0.055660    0.121480    0.766900    
0.092365    0.190140    0.171225    0.546269    
0.187731    0.232786    0.442491    0.136992    
0.068466    0.201439    0.234082    0.496013    
Consensus sequence: ADBVHTTAATTGCTTVB

Alignment:
ADBVHTTAATTGCTTVB
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00157        Hmx3                               Reverse Complement                      Original Motif                          Forward        4              14             0.039022       

Species: Mus musculus

Original motif
0.493883    0.207908    0.206555    0.091654    
0.124338    0.490519    0.252638    0.132506    
0.482613    0.229280    0.188509    0.099597    
0.758821    0.067165    0.111206    0.062809    
0.154132    0.098232    0.594074    0.153562    
0.015565    0.938529    0.001667    0.044239    
0.835485    0.001163    0.156926    0.006426    
0.869937    0.118961    0.001666    0.009435    
0.005815    0.004470    0.001031    0.988683    
0.014066    0.042296    0.000378    0.943259    
0.924765    0.001168    0.024126    0.049941    
0.873425    0.020468    0.034636    0.071470    
0.387156    0.148327    0.115500    0.349017    
0.256863    0.183824    0.381900    0.177413    
0.472131    0.208576    0.255773    0.063519    
0.524326    0.109150    0.180486    0.186038    
0.125721    0.103316    0.133298    0.637666    
Consensus sequence: VBVAGCAATTAAHVVAT

Reverse complement motif
0.637666    0.103316    0.133298    0.125721    
0.186038    0.109150    0.180486    0.524326    
0.063519    0.208576    0.255773    0.472131    
0.256863    0.381900    0.183824    0.177413    
0.349017    0.148327    0.115500    0.387156    
0.071470    0.020468    0.034636    0.873425    
0.049941    0.001168    0.024126    0.924765    
0.943259    0.042296    0.000378    0.014066    
0.988683    0.004470    0.001031    0.005815    
0.009435    0.118961    0.001666    0.869937    
0.006426    0.001163    0.156926    0.835485    
0.015565    0.001667    0.938529    0.044239    
0.154132    0.594074    0.098232    0.153562    
0.062809    0.067165    0.111206    0.758821    
0.099597    0.229280    0.188509    0.482613    
0.124338    0.252638    0.490519    0.132506    
0.091654    0.207908    0.206555    0.493883    
Consensus sequence: ATBVHTTAATTGCTBBB

Alignment:
VBVAGCAATTAAHVVAT
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00172        Prop1                              Reverse Complement                      Original Motif                          Forward        4              14             0.039792       

Species: Mus musculus

Original motif
0.239694    0.382964    0.212782    0.164560    
0.211105    0.192638    0.471186    0.125071    
0.361402    0.251084    0.217415    0.170099    
0.474402    0.180412    0.249562    0.095624    
0.015257    0.155181    0.007371    0.822191    
0.011633    0.033757    0.000947    0.953662    
0.984150    0.005351    0.005253    0.005247    
0.982857    0.001638    0.005309    0.010196    
0.010196    0.005309    0.001638    0.982857    
0.005247    0.005253    0.005351    0.984150    
0.953662    0.000947    0.033757    0.011633    
0.822191    0.007371    0.155181    0.015257    
0.159439    0.160044    0.349613    0.330903    
0.454571    0.111567    0.175216    0.258646    
0.305750    0.183822    0.246269    0.264159    
0.351726    0.178703    0.236408    0.233163    
0.142463    0.525857    0.103778    0.227902    
Consensus sequence: VVVVTTAATTAABDDDC

Reverse complement motif
0.142463    0.103778    0.525857    0.227902    
0.233163    0.178703    0.236408    0.351726    
0.264159    0.183822    0.246269    0.305750    
0.258646    0.111567    0.175216    0.454571    
0.159439    0.349613    0.160044    0.330903    
0.015257    0.007371    0.155181    0.822191    
0.011633    0.000947    0.033757    0.953662    
0.984150    0.005253    0.005351    0.005247    
0.982857    0.005309    0.001638    0.010196    
0.010196    0.001638    0.005309    0.982857    
0.005247    0.005351    0.005253    0.984150    
0.953662    0.033757    0.000947    0.011633    
0.822191    0.155181    0.007371    0.015257    
0.095624    0.180412    0.249562    0.474402    
0.170099    0.251084    0.217415    0.361402    
0.211105    0.471186    0.192638    0.125071    
0.239694    0.212782    0.382964    0.164560    
Consensus sequence: GDDDBTTAATTAABBVV

Alignment:
VVVVTTAATTAABDDDC
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00237        Otp                                Reverse Complement                      Reverse Complement                      Backward       1              14             0.041444       

Species: Mus musculus

Original motif
0.230993    0.375169    0.212909    0.180928    
0.308053    0.197960    0.335842    0.158144    
0.146999    0.355311    0.118315    0.379375    
0.411189    0.175886    0.183790    0.229135    
0.473168    0.101553    0.388483    0.036796    
0.007589    0.115608    0.001555    0.875248    
0.008817    0.035417    0.000301    0.955465    
0.983825    0.008430    0.006604    0.001141    
0.983066    0.001256    0.010977    0.004701    
0.004701    0.010977    0.001256    0.983066    
0.001141    0.006604    0.008430    0.983825    
0.955465    0.000301    0.035417    0.008817    
0.875248    0.001555    0.115608    0.007589    
0.059530    0.422614    0.086819    0.431037    
0.234910    0.104731    0.282998    0.377362    
0.222053    0.180868    0.345763    0.251316    
0.124269    0.122352    0.604547    0.148832    
Consensus sequence: VVHDRTTAATTAAYDDG

Reverse complement motif
0.124269    0.604547    0.122352    0.148832    
0.222053    0.345763    0.180868    0.251316    
0.377362    0.104731    0.282998    0.234910    
0.431037    0.422614    0.086819    0.059530    
0.007589    0.001555    0.115608    0.875248    
0.008817    0.000301    0.035417    0.955465    
0.983825    0.006604    0.008430    0.001141    
0.983066    0.010977    0.001256    0.004701    
0.004701    0.001256    0.010977    0.983066    
0.001141    0.008430    0.006604    0.983825    
0.955465    0.035417    0.000301    0.008817    
0.875248    0.115608    0.001555    0.007589    
0.036796    0.101553    0.388483    0.473168    
0.229135    0.175886    0.183790    0.411189    
0.379375    0.355311    0.118315    0.146999    
0.308053    0.335842    0.197960    0.158144    
0.230993    0.212909    0.375169    0.180928    
Consensus sequence: CHDMTTAATTAAKDHVV

Alignment:
CHDMTTAATTAAKDHVV
---ATYAATGAAWACAT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 24		Motif name: Motif 24

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAAGWCATWAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTWATGWCTTT


************************************************************************ Best Matches for Motif ID 24 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00246        Hoxa11                             Original Motif                          Original Motif                          Backward       5              11             0.011591       

Species: Mus musculus

Original motif
0.250495    0.214554    0.138272    0.396679    
0.492850    0.123424    0.196803    0.186923    
0.540281    0.151603    0.140529    0.167586    
0.428463    0.099563    0.270775    0.201200    
0.102254    0.050731    0.845038    0.001977    
0.001884    0.019008    0.001029    0.978079    
0.016931    0.973797    0.000596    0.008676    
0.258728    0.001705    0.738135    0.001431    
0.003545    0.001680    0.003370    0.991405    
0.832666    0.002250    0.000866    0.164218    
0.983610    0.001278    0.002546    0.012566    
0.980677    0.005645    0.001242    0.012435    
0.599219    0.090422    0.088183    0.222176    
0.212685    0.399896    0.114218    0.273202    
0.287588    0.220283    0.249419    0.242710    
0.152138    0.145873    0.312609    0.389380    
Consensus sequence: HDADGTCGTAAAAHDD

Reverse complement motif
0.389380    0.145873    0.312609    0.152138    
0.242710    0.220283    0.249419    0.287588    
0.212685    0.114218    0.399896    0.273202    
0.222176    0.090422    0.088183    0.599219    
0.012435    0.005645    0.001242    0.980677    
0.012566    0.001278    0.002546    0.983610    
0.164218    0.002250    0.000866    0.832666    
0.991405    0.001680    0.003370    0.003545    
0.258728    0.738135    0.001705    0.001431    
0.016931    0.000596    0.973797    0.008676    
0.978079    0.019008    0.001029    0.001884    
0.102254    0.845038    0.050731    0.001977    
0.201200    0.099563    0.270775    0.428463    
0.167586    0.151603    0.140529    0.540281    
0.186923    0.123424    0.196803    0.492850    
0.396679    0.214554    0.138272    0.250495    
Consensus sequence: DDDTTTTACGACDTDH

Alignment:
HDADGTCGTAAAAHDD
-AAAGWCATWAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00235        Hoxc11                             Original Motif                          Original Motif                          Backward       5              11             0.012423       

Species: Mus musculus

Original motif
0.233269    0.248491    0.135443    0.382797    
0.530699    0.117734    0.196458    0.155109    
0.520162    0.128349    0.129047    0.222442    
0.383288    0.142763    0.265367    0.208581    
0.082604    0.036330    0.879729    0.001337    
0.001490    0.025603    0.000959    0.971949    
0.011271    0.977559    0.000430    0.010739    
0.234170    0.001531    0.762912    0.001387    
0.002139    0.001352    0.004590    0.991918    
0.858371    0.001955    0.000717    0.138958    
0.981016    0.000748    0.001915    0.016321    
0.985345    0.003895    0.001793    0.008967    
0.542364    0.130700    0.106606    0.220330    
0.222953    0.268192    0.191329    0.317526    
0.353019    0.168556    0.262332    0.216093    
0.196584    0.119005    0.352701    0.331710    
Consensus sequence: HAADGTCGTAAAAHDD

Reverse complement motif
0.196584    0.352701    0.119005    0.331710    
0.216093    0.168556    0.262332    0.353019    
0.317526    0.268192    0.191329    0.222953    
0.220330    0.130700    0.106606    0.542364    
0.008967    0.003895    0.001793    0.985345    
0.016321    0.000748    0.001915    0.981016    
0.138958    0.001955    0.000717    0.858371    
0.991918    0.001352    0.004590    0.002139    
0.234170    0.762912    0.001531    0.001387    
0.011271    0.000430    0.977559    0.010739    
0.971949    0.025603    0.000959    0.001490    
0.082604    0.879729    0.036330    0.001337    
0.208581    0.142763    0.265367    0.383288    
0.222442    0.128349    0.129047    0.520162    
0.155109    0.117734    0.196458    0.530699    
0.382797    0.248491    0.135443    0.233269    
Consensus sequence: HDHTTTTACGACDTTH

Alignment:
HAADGTCGTAAAAHDD
-AAAGWCATWAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00207        Hoxb9                              Original Motif                          Original Motif                          Forward        1              11             0.016352       

Species: Mus musculus

Original motif
0.369205    0.191401    0.373182    0.066211    
0.357429    0.160246    0.408701    0.073624    
0.576965    0.069294    0.310696    0.043045    
0.103797    0.127691    0.646641    0.121871    
0.023188    0.657132    0.005598    0.314082    
0.420260    0.543925    0.009350    0.026464    
0.944117    0.003851    0.047375    0.004658    
0.007642    0.006158    0.004106    0.982094    
0.728623    0.003283    0.002505    0.265589    
0.958302    0.002642    0.002614    0.036442    
0.969909    0.004265    0.002650    0.023176    
0.869075    0.011516    0.028466    0.090943    
0.336102    0.198102    0.075230    0.390566    
0.203557    0.271818    0.098338    0.426287    
0.226605    0.448090    0.146026    0.179278    
0.252426    0.177812    0.357334    0.212429    
Consensus sequence: VRRGCMATAAAAHHHD

Reverse complement motif
0.252426    0.357334    0.177812    0.212429    
0.226605    0.146026    0.448090    0.179278    
0.426287    0.271818    0.098338    0.203557    
0.390566    0.198102    0.075230    0.336102    
0.090943    0.011516    0.028466    0.869075    
0.023176    0.004265    0.002650    0.969909    
0.036442    0.002642    0.002614    0.958302    
0.265589    0.003283    0.002505    0.728623    
0.982094    0.006158    0.004106    0.007642    
0.004658    0.003851    0.047375    0.944117    
0.420260    0.009350    0.543925    0.026464    
0.023188    0.005598    0.657132    0.314082    
0.103797    0.646641    0.127691    0.121871    
0.043045    0.069294    0.310696    0.576965    
0.357429    0.408701    0.160246    0.073624    
0.369205    0.373182    0.191401    0.066211    
Consensus sequence: HDHHTTTTATRGCKMV

Alignment:
VRRGCMATAAAAHHHD
AAAGWCATWAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00197        Hoxc9                              Reverse Complement                      Reverse Complement                      Forward        5              11             0.017626       

Species: Mus musculus

Original motif
0.279588    0.205946    0.337877    0.176588    
0.212819    0.121136    0.376165    0.289881    
0.371836    0.224291    0.240111    0.163762    
0.200999    0.056254    0.589311    0.153436    
0.141203    0.048864    0.796449    0.013484    
0.026376    0.197045    0.009146    0.767433    
0.286968    0.688278    0.011985    0.012769    
0.890619    0.006181    0.098071    0.005129    
0.019680    0.011114    0.002539    0.966668    
0.287238    0.007432    0.002166    0.703164    
0.975510    0.006204    0.005667    0.012620    
0.949137    0.017111    0.006224    0.027528    
0.241729    0.296577    0.052768    0.408926    
0.212400    0.269675    0.090007    0.427918    
0.333376    0.091783    0.259582    0.315259    
0.182024    0.203528    0.245531    0.368917    
Consensus sequence: VDVGGTCATTAAHHDB

Reverse complement motif
0.368917    0.203528    0.245531    0.182024    
0.315259    0.091783    0.259582    0.333376    
0.427918    0.269675    0.090007    0.212400    
0.408926    0.296577    0.052768    0.241729    
0.027528    0.017111    0.006224    0.949137    
0.012620    0.006204    0.005667    0.975510    
0.703164    0.007432    0.002166    0.287238    
0.966668    0.011114    0.002539    0.019680    
0.005129    0.006181    0.098071    0.890619    
0.286968    0.011985    0.688278    0.012769    
0.767433    0.197045    0.009146    0.026376    
0.141203    0.796449    0.048864    0.013484    
0.200999    0.589311    0.056254    0.153436    
0.163762    0.224291    0.240111    0.371836    
0.212819    0.376165    0.121136    0.289881    
0.279588    0.337877    0.205946    0.176588    
Consensus sequence: VDHHTTAATGACCBHV

Alignment:
VDHHTTAATGACCBHV
----TTWATGWCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00245        Hoxc10                             Original Motif                          Original Motif                          Forward        2              11             0.017810       

Species: Mus musculus

Original motif
0.239959    0.241480    0.127526    0.391035    
0.393451    0.123294    0.236504    0.246751    
0.425440    0.162608    0.183192    0.228759    
0.342619    0.136379    0.294758    0.226245    
0.081913    0.061733    0.855044    0.001310    
0.001643    0.036832    0.001170    0.960355    
0.018825    0.976078    0.000606    0.004492    
0.295691    0.001892    0.701303    0.001114    
0.002726    0.002441    0.002823    0.992011    
0.854003    0.002752    0.000601    0.142644    
0.986219    0.001475    0.002415    0.009891    
0.976476    0.009547    0.001650    0.012327    
0.495998    0.130830    0.145385    0.227787    
0.217852    0.326165    0.152819    0.303164    
0.206308    0.256598    0.289657    0.247436    
0.137871    0.148598    0.304153    0.409378    
Consensus sequence: HDDDGTCGTAAADHBB

Reverse complement motif
0.409378    0.148598    0.304153    0.137871    
0.206308    0.289657    0.256598    0.247436    
0.217852    0.152819    0.326165    0.303164    
0.227787    0.130830    0.145385    0.495998    
0.012327    0.009547    0.001650    0.976476    
0.009891    0.001475    0.002415    0.986219    
0.142644    0.002752    0.000601    0.854003    
0.992011    0.002441    0.002823    0.002726    
0.295691    0.701303    0.001892    0.001114    
0.018825    0.000606    0.976078    0.004492    
0.960355    0.036832    0.001170    0.001643    
0.081913    0.855044    0.061733    0.001310    
0.226245    0.136379    0.294758    0.342619    
0.228759    0.162608    0.183192    0.425440    
0.246751    0.123294    0.236504    0.393451    
0.391035    0.241480    0.127526    0.239959    
Consensus sequence: VBDDTTTACGACDDDH

Alignment:
HDDDGTCGTAAADHBB
-AAAGWCATWAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00117        Hoxd11                             Original Motif                          Original Motif                          Backward       6              11             0.020657       

Species: Mus musculus

Original motif
0.195240    0.299581    0.070392    0.434787    
0.383232    0.235789    0.118316    0.262663    
0.433734    0.150531    0.233498    0.182237    
0.318929    0.193275    0.329287    0.158509    
0.078189    0.058494    0.861977    0.001340    
0.001639    0.021863    0.001515    0.974983    
0.011232    0.978821    0.000755    0.009192    
0.171564    0.002240    0.824311    0.001885    
0.003418    0.002620    0.003016    0.990946    
0.839934    0.002566    0.000872    0.156628    
0.984574    0.001197    0.003120    0.011109    
0.979994    0.007524    0.001223    0.011259    
0.626288    0.164042    0.022338    0.187331    
0.276342    0.192595    0.122578    0.408484    
0.228871    0.351280    0.153929    0.265920    
0.249434    0.303271    0.170797    0.276498    
0.179262    0.157831    0.195784    0.467122    
Consensus sequence: HHDVGTCGTAAAAHHHD

Reverse complement motif
0.467122    0.157831    0.195784    0.179262    
0.249434    0.170797    0.303271    0.276498    
0.228871    0.153929    0.351280    0.265920    
0.408484    0.192595    0.122578    0.276342    
0.187331    0.164042    0.022338    0.626288    
0.011259    0.007524    0.001223    0.979994    
0.011109    0.001197    0.003120    0.984574    
0.156628    0.002566    0.000872    0.839934    
0.990946    0.002620    0.003016    0.003418    
0.171564    0.824311    0.002240    0.001885    
0.011232    0.000755    0.978821    0.009192    
0.974983    0.021863    0.001515    0.001639    
0.078189    0.861977    0.058494    0.001340    
0.318929    0.329287    0.193275    0.158509    
0.182237    0.150531    0.233498    0.433734    
0.262663    0.235789    0.118316    0.383232    
0.434787    0.299581    0.070392    0.195240    
Consensus sequence: DDDHTTTTACGACVDHH

Alignment:
HHDVGTCGTAAAAHHHD
-AAAGWCATWAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00240        Cdx1                               Original Motif                          Original Motif                          Backward       5              11             0.023127       

Species: Mus musculus

Original motif
0.291355    0.151940    0.179692    0.377013    
0.387797    0.102678    0.306996    0.202529    
0.400923    0.248207    0.238260    0.112610    
0.142484    0.055838    0.727508    0.074170    
0.126833    0.033479    0.828628    0.011060    
0.009027    0.282657    0.002261    0.706056    
0.492447    0.469548    0.001666    0.036340    
0.819860    0.003148    0.174822    0.002170    
0.006463    0.003298    0.003083    0.987157    
0.738256    0.008651    0.001939    0.251154    
0.918083    0.001651    0.003667    0.076598    
0.938710    0.007660    0.003592    0.050038    
0.643683    0.109772    0.051867    0.194678    
0.163809    0.229090    0.173213    0.433888    
0.137902    0.107611    0.261515    0.492971    
0.357358    0.214435    0.101054    0.327153    
Consensus sequence: DDVGGTMATAAAABKH

Reverse complement motif
0.327153    0.214435    0.101054    0.357358    
0.492971    0.107611    0.261515    0.137902    
0.433888    0.229090    0.173213    0.163809    
0.194678    0.109772    0.051867    0.643683    
0.050038    0.007660    0.003592    0.938710    
0.076598    0.001651    0.003667    0.918083    
0.251154    0.008651    0.001939    0.738256    
0.987157    0.003298    0.003083    0.006463    
0.002170    0.003148    0.174822    0.819860    
0.036340    0.469548    0.001666    0.492447    
0.706056    0.282657    0.002261    0.009027    
0.126833    0.828628    0.033479    0.011060    
0.142484    0.727508    0.055838    0.074170    
0.112610    0.248207    0.238260    0.400923    
0.202529    0.102678    0.306996    0.387797    
0.377013    0.151940    0.179692    0.291355    
Consensus sequence: HRVTTTTATYACCBDD

Alignment:
DDVGGTMATAAAABKH
-AAAGWCATWAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00213        Hoxa9                              Original Motif                          Original Motif                          Backward       7              11             0.024118       

Species: Mus musculus

Original motif
0.386110    0.122124    0.336396    0.155370    
0.214951    0.503652    0.200027    0.081370    
0.227199    0.070231    0.558705    0.143864    
0.087364    0.155173    0.659970    0.097493    
0.088468    0.597073    0.010847    0.303611    
0.237567    0.630916    0.020446    0.111071    
0.883692    0.003551    0.103622    0.009135    
0.022994    0.004161    0.003712    0.969134    
0.630635    0.007085    0.003697    0.358584    
0.954551    0.003419    0.003818    0.038212    
0.932582    0.012322    0.005304    0.049792    
0.758713    0.022612    0.031347    0.187327    
0.320450    0.163437    0.062031    0.454082    
0.174953    0.127720    0.167458    0.529870    
0.511837    0.131729    0.146649    0.209785    
0.382191    0.090904    0.276475    0.250430    
0.383323    0.080173    0.111038    0.425465    
Consensus sequence: DCGGYCATWAAAWTADW

Reverse complement motif
0.425465    0.080173    0.111038    0.383323    
0.250430    0.090904    0.276475    0.382191    
0.209785    0.131729    0.146649    0.511837    
0.529870    0.127720    0.167458    0.174953    
0.454082    0.163437    0.062031    0.320450    
0.187327    0.022612    0.031347    0.758713    
0.049792    0.012322    0.005304    0.932582    
0.038212    0.003419    0.003818    0.954551    
0.358584    0.007085    0.003697    0.630635    
0.969134    0.004161    0.003712    0.022994    
0.009135    0.003551    0.103622    0.883692    
0.237567    0.020446    0.630916    0.111071    
0.088468    0.010847    0.597073    0.303611    
0.087364    0.659970    0.155173    0.097493    
0.227199    0.558705    0.070231    0.143864    
0.214951    0.200027    0.503652    0.081370    
0.155370    0.122124    0.336396    0.386110    
Consensus sequence: WDTAWTTTWATGKCCGD

Alignment:
DCGGYCATWAAAWTADW
AAAGWCATWAA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00133        Cdx2                               Original Motif                          Original Motif                          Forward        2              11             0.026498       

Species: Mus musculus

Original motif
0.314704    0.147028    0.248638    0.289630    
0.358628    0.179740    0.325491    0.136141    
0.298646    0.303363    0.300590    0.097401    
0.188478    0.055557    0.664045    0.091921    
0.171259    0.033449    0.790542    0.004751    
0.002849    0.464940    0.000596    0.531615    
0.576948    0.399193    0.001565    0.022295    
0.968872    0.001511    0.028582    0.001035    
0.006970    0.003535    0.000486    0.989010    
0.878078    0.003399    0.000389    0.118134    
0.951183    0.000842    0.001555    0.046419    
0.939504    0.006021    0.000818    0.053657    
0.567732    0.151536    0.050535    0.230197    
0.172713    0.264434    0.122553    0.440299    
0.142175    0.107265    0.258247    0.492313    
0.215178    0.302818    0.133613    0.348391    
Consensus sequence: DVVGGYMATAAAAHKH

Reverse complement motif
0.348391    0.302818    0.133613    0.215178    
0.492313    0.107265    0.258247    0.142175    
0.440299    0.264434    0.122553    0.172713    
0.230197    0.151536    0.050535    0.567732    
0.053657    0.006021    0.000818    0.939504    
0.046419    0.000842    0.001555    0.951183    
0.118134    0.003399    0.000389    0.878078    
0.989010    0.003535    0.000486    0.006970    
0.001035    0.001511    0.028582    0.968872    
0.022295    0.399193    0.001565    0.576948    
0.531615    0.464940    0.000596    0.002849    
0.171259    0.790542    0.033449    0.004751    
0.188478    0.664045    0.055557    0.091921    
0.298646    0.300590    0.303363    0.097401    
0.136141    0.179740    0.325491    0.358628    
0.289630    0.147028    0.248638    0.314704    
Consensus sequence: HRHTTTTATYMCCVBD

Alignment:
DVVGGYMATAAAAHKH
-AAAGWCATWAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00177        Hoxd12                             Original Motif                          Original Motif                          Backward       6              11             0.027190       

Species: Mus musculus

Original motif
0.191103    0.352101    0.107327    0.349468    
0.402272    0.197071    0.150917    0.249740    
0.368769    0.193398    0.226932    0.210901    
0.257933    0.260778    0.380702    0.100587    
0.106950    0.067191    0.825021    0.000838    
0.001086    0.021564    0.000853    0.976497    
0.020082    0.968082    0.000327    0.011509    
0.118319    0.000920    0.879436    0.001326    
0.003172    0.002130    0.001866    0.992832    
0.922156    0.002796    0.000429    0.074620    
0.983503    0.000923    0.001373    0.014202    
0.982158    0.003892    0.000954    0.012996    
0.575374    0.149674    0.027141    0.247811    
0.191390    0.208793    0.100368    0.499449    
0.189094    0.369025    0.180904    0.260976    
0.265714    0.203403    0.179754    0.351130    
0.215918    0.141705    0.246047    0.396330    
Consensus sequence: HHDVGTCGTAAAAHHHD

Reverse complement motif
0.396330    0.141705    0.246047    0.215918    
0.351130    0.203403    0.179754    0.265714    
0.189094    0.180904    0.369025    0.260976    
0.499449    0.208793    0.100368    0.191390    
0.247811    0.149674    0.027141    0.575374    
0.012996    0.003892    0.000954    0.982158    
0.014202    0.000923    0.001373    0.983503    
0.074620    0.002796    0.000429    0.922156    
0.992832    0.002130    0.001866    0.003172    
0.118319    0.879436    0.000920    0.001326    
0.020082    0.000327    0.968082    0.011509    
0.976497    0.021564    0.000853    0.001086    
0.106950    0.825021    0.067191    0.000838    
0.257933    0.380702    0.260778    0.100587    
0.210901    0.193398    0.226932    0.368769    
0.249740    0.197071    0.150917    0.402272    
0.191103    0.107327    0.352101    0.349468    
Consensus sequence: DHDHTTTTACGACVDHD

Alignment:
HHDVGTCGTAAAAHHHD
-AAAGWCATWAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 25		Motif name: Motif 25

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AATAACAGATT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AATCTGTTATT


************************************************************************ Best Matches for Motif ID 25 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00186        Meis1                              Original Motif                          Reverse Complement                      Backward       4              11             0.033697       

Species: Mus musculus

Original motif
0.432115    0.114994    0.130835    0.322056    
0.508081    0.060822    0.214256    0.216841    
0.225875    0.276028    0.280982    0.217115    
0.092373    0.286687    0.360933    0.260007    
0.947172    0.005937    0.028595    0.018297    
0.027829    0.439935    0.505051    0.027185    
0.023801    0.963424    0.008205    0.004571    
0.001548    0.018215    0.000406    0.979831    
0.008422    0.001124    0.989007    0.001446    
0.025343    0.004094    0.000241    0.970323    
0.001451    0.992789    0.002037    0.003724    
0.991202    0.001638    0.003159    0.004002    
0.695910    0.022145    0.013657    0.268288    
0.357895    0.090931    0.093796    0.457378    
0.453163    0.204395    0.181067    0.161376    
0.200615    0.393437    0.171398    0.234551    
Consensus sequence: WAVBASCTGTCAAWVH

Reverse complement motif
0.200615    0.171398    0.393437    0.234551    
0.161376    0.204395    0.181067    0.453163    
0.457378    0.090931    0.093796    0.357895    
0.268288    0.022145    0.013657    0.695910    
0.004002    0.001638    0.003159    0.991202    
0.001451    0.002037    0.992789    0.003724    
0.970323    0.004094    0.000241    0.025343    
0.008422    0.989007    0.001124    0.001446    
0.979831    0.018215    0.000406    0.001548    
0.023801    0.008205    0.963424    0.004571    
0.027829    0.505051    0.439935    0.027185    
0.018297    0.005937    0.028595    0.947172    
0.092373    0.360933    0.286687    0.260007    
0.225875    0.280982    0.276028    0.217115    
0.216841    0.060822    0.214256    0.508081    
0.322056    0.114994    0.130835    0.432115    
Consensus sequence: DBWTTGACAGSTBVTW

Alignment:
DBWTTGACAGSTBVTW
--AATAACAGATT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00226        Mrg1                               Original Motif                          Reverse Complement                      Forward        3              11             0.036150       

Species: Mus musculus

Original motif
0.378836    0.145096    0.102046    0.374022    
0.507161    0.090730    0.177058    0.225051    
0.277496    0.234581    0.275775    0.212149    
0.065300    0.339403    0.360939    0.234358    
0.918963    0.010948    0.043262    0.026826    
0.017295    0.545133    0.416603    0.020969    
0.023391    0.962223    0.007311    0.007075    
0.001760    0.020258    0.000360    0.977622    
0.013946    0.000586    0.983699    0.001769    
0.035910    0.004825    0.000197    0.959068    
0.001465    0.991446    0.001338    0.005750    
0.986785    0.001158    0.005848    0.006209    
0.715894    0.043046    0.018966    0.222093    
0.332332    0.084841    0.098421    0.484405    
0.473739    0.198580    0.152072    0.175610    
0.211505    0.325971    0.212211    0.250313    
Consensus sequence: WAVBASCTGTCAAWHB

Reverse complement motif
0.211505    0.212211    0.325971    0.250313    
0.175610    0.198580    0.152072    0.473739    
0.484405    0.084841    0.098421    0.332332    
0.222093    0.043046    0.018966    0.715894    
0.006209    0.001158    0.005848    0.986785    
0.001465    0.001338    0.991446    0.005750    
0.959068    0.004825    0.000197    0.035910    
0.013946    0.983699    0.000586    0.001769    
0.977622    0.020258    0.000360    0.001760    
0.023391    0.007311    0.962223    0.007075    
0.017295    0.416603    0.545133    0.020969    
0.026826    0.010948    0.043262    0.918963    
0.065300    0.360939    0.339403    0.234358    
0.212149    0.234581    0.275775    0.277496    
0.225051    0.090730    0.177058    0.507161    
0.374022    0.145096    0.102046    0.378836    
Consensus sequence: BHWTTGACAGSTBBTW

Alignment:
BHWTTGACAGSTBBTW
--AATAACAGATT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Reverse Complement                      Reverse Complement                      Backward       4              11             0.036726       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DBVVAGCTGTCAWWVTH
---AATCTGTTATT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00203        Pknox1                             Original Motif                          Reverse Complement                      Backward       4              11             0.037364       

Species: Mus musculus

Original motif
0.436259    0.086706    0.169714    0.307321    
0.433826    0.063296    0.358082    0.144795    
0.324190    0.284651    0.208786    0.182372    
0.054648    0.285295    0.518967    0.141090    
0.922874    0.012239    0.042656    0.022231    
0.036668    0.581917    0.338993    0.042422    
0.021599    0.968542    0.006920    0.002939    
0.001846    0.026071    0.000271    0.971812    
0.007232    0.000773    0.989645    0.002350    
0.019103    0.005771    0.000209    0.974917    
0.001535    0.989111    0.000852    0.008502    
0.989698    0.000915    0.004907    0.004480    
0.679114    0.077050    0.037931    0.205904    
0.330007    0.110122    0.067993    0.491878    
0.286458    0.421726    0.186579    0.105236    
0.199258    0.473968    0.173008    0.153766    
Consensus sequence: DRVSASCTGTCAAWVV

Reverse complement motif
0.199258    0.173008    0.473968    0.153766    
0.286458    0.186579    0.421726    0.105236    
0.491878    0.110122    0.067993    0.330007    
0.205904    0.077050    0.037931    0.679114    
0.004480    0.000915    0.004907    0.989698    
0.001535    0.000852    0.989111    0.008502    
0.974917    0.005771    0.000209    0.019103    
0.007232    0.989645    0.000773    0.002350    
0.971812    0.026071    0.000271    0.001846    
0.021599    0.006920    0.968542    0.002939    
0.036668    0.338993    0.581917    0.042422    
0.022231    0.012239    0.042656    0.922874    
0.054648    0.518967    0.285295    0.141090    
0.182372    0.284651    0.208786    0.324190    
0.144795    0.063296    0.358082    0.433826    
0.307321    0.086706    0.169714    0.436259    
Consensus sequence: VVWTTGACAGSTSBKD

Alignment:
VVWTTGACAGSTSBKD
--AATAACAGATT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00258        Tgif2                              Reverse Complement                      Original Motif                          Forward        4              11             0.040039       

Species: Mus musculus

Original motif
0.519684    0.141807    0.112153    0.226356    
0.614097    0.079211    0.138045    0.168647    
0.186975    0.327654    0.245051    0.240320    
0.108289    0.303530    0.219106    0.369076    
0.914812    0.012014    0.046628    0.026546    
0.070482    0.163253    0.689315    0.076951    
0.016354    0.972639    0.003648    0.007359    
0.002043    0.018718    0.000384    0.978855    
0.006109    0.001408    0.990736    0.001747    
0.024783    0.002060    0.000402    0.972755    
0.001485    0.991963    0.001756    0.004796    
0.989335    0.001052    0.002320    0.007293    
0.778804    0.056366    0.037632    0.127198    
0.377980    0.094597    0.086888    0.440535    
0.458125    0.289431    0.152762    0.099682    
0.223103    0.435348    0.216962    0.124587    
Consensus sequence: AABBAGCTGTCAAWVV

Reverse complement motif
0.223103    0.216962    0.435348    0.124587    
0.099682    0.289431    0.152762    0.458125    
0.440535    0.094597    0.086888    0.377980    
0.127198    0.056366    0.037632    0.778804    
0.007293    0.001052    0.002320    0.989335    
0.001485    0.001756    0.991963    0.004796    
0.972755    0.002060    0.000402    0.024783    
0.006109    0.990736    0.001408    0.001747    
0.978855    0.018718    0.000384    0.002043    
0.016354    0.003648    0.972639    0.007359    
0.070482    0.689315    0.163253    0.076951    
0.026546    0.012014    0.046628    0.914812    
0.369076    0.303530    0.219106    0.108289    
0.186975    0.245051    0.327654    0.240320    
0.168647    0.079211    0.138045    0.614097    
0.226356    0.141807    0.112153    0.519684    
Consensus sequence: VBWTTGACAGCTVBTT

Alignment:
AABBAGCTGTCAAWVV
---AATCTGTTATT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00166        Barhl1                             Reverse Complement                      Reverse Complement                      Backward       1              11             0.040816       

Species: Mus musculus

Original motif
0.467514    0.210142    0.140580    0.181765    
0.607254    0.124874    0.137587    0.130285    
0.280889    0.423565    0.125411    0.170135    
0.748944    0.067655    0.136796    0.046605    
0.723747    0.023732    0.218759    0.033762    
0.075749    0.608701    0.182230    0.133321    
0.005053    0.764340    0.000825    0.229781    
0.951342    0.006010    0.029473    0.013175    
0.890431    0.010111    0.000910    0.098548    
0.004275    0.001291    0.002113    0.992321    
0.005850    0.006608    0.000432    0.987110    
0.979314    0.000732    0.001996    0.017957    
0.546971    0.034786    0.326876    0.091366    
0.120451    0.194359    0.328320    0.356870    
0.274765    0.177491    0.231888    0.315855    
0.223913    0.420032    0.139775    0.216280    
Consensus sequence: HAHAACCAATTARBDH

Reverse complement motif
0.223913    0.139775    0.420032    0.216280    
0.315855    0.177491    0.231888    0.274765    
0.356870    0.194359    0.328320    0.120451    
0.091366    0.034786    0.326876    0.546971    
0.017957    0.000732    0.001996    0.979314    
0.987110    0.006608    0.000432    0.005850    
0.992321    0.001291    0.002113    0.004275    
0.098548    0.010111    0.000910    0.890431    
0.013175    0.006010    0.029473    0.951342    
0.005053    0.000825    0.764340    0.229781    
0.075749    0.182230    0.608701    0.133321    
0.033762    0.023732    0.218759    0.723747    
0.046605    0.067655    0.136796    0.748944    
0.280889    0.125411    0.423565    0.170135    
0.130285    0.124874    0.137587    0.607254    
0.181765    0.210142    0.140580    0.467514    
Consensus sequence: DDVKTAATTGGTTDTH

Alignment:
DDVKTAATTGGTTDTH
-----AATCTGTTATT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00171        Msx3                               Reverse Complement                      Reverse Complement                      Backward       1              11             0.040907       

Species: Mus musculus

Original motif
0.317812    0.352438    0.231628    0.098123    
0.601471    0.133830    0.164947    0.099752    
0.399508    0.293187    0.098524    0.208781    
0.754569    0.054130    0.133622    0.057678    
0.770469    0.088090    0.086904    0.054537    
0.038689    0.673100    0.189096    0.099115    
0.004935    0.522968    0.000482    0.471615    
0.986316    0.001484    0.009222    0.002978    
0.991636    0.005079    0.001457    0.001828    
0.009156    0.001857    0.001081    0.987906    
0.013688    0.006588    0.000191    0.979532    
0.987635    0.000354    0.005166    0.006845    
0.701095    0.027828    0.154852    0.116224    
0.181731    0.184800    0.303458    0.330011    
0.224816    0.221032    0.182405    0.371747    
0.310539    0.208307    0.099081    0.382073    
Consensus sequence: VAHAACYAATTAABHH

Reverse complement motif
0.382073    0.208307    0.099081    0.310539    
0.371747    0.221032    0.182405    0.224816    
0.330011    0.184800    0.303458    0.181731    
0.116224    0.027828    0.154852    0.701095    
0.006845    0.000354    0.005166    0.987635    
0.979532    0.006588    0.000191    0.013688    
0.987906    0.001857    0.001081    0.009156    
0.001828    0.005079    0.001457    0.991636    
0.002978    0.001484    0.009222    0.986316    
0.004935    0.000482    0.522968    0.471615    
0.038689    0.189096    0.673100    0.099115    
0.054537    0.088090    0.086904    0.770469    
0.057678    0.054130    0.133622    0.754569    
0.208781    0.293187    0.098524    0.399508    
0.099752    0.133830    0.164947    0.601471    
0.317812    0.231628    0.352438    0.098123    
Consensus sequence: HHVTTAATTKGTTHTV

Alignment:
HHVTTAATTKGTTHTV
-----AATCTGTTATT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00109        Obox6                              Original Motif                          Original Motif                          Backward       5              11             0.041100       

Species: Mus musculus

Original motif
0.505449    0.243908    0.109355    0.141288    
0.297413    0.206507    0.201510    0.294571    
0.691300    0.037294    0.141216    0.130190    
0.680730    0.092257    0.036853    0.190160    
0.348071    0.118125    0.345388    0.188416    
0.140809    0.605582    0.189427    0.064182    
0.039008    0.001848    0.956724    0.002420    
0.003771    0.000570    0.983421    0.012238    
0.969153    0.028918    0.000574    0.001355    
0.003106    0.002396    0.001479    0.993019    
0.009026    0.012438    0.000393    0.978144    
0.969731    0.000460    0.002034    0.027774    
0.444629    0.020696    0.076200    0.458475    
0.254738    0.341763    0.053351    0.350148    
0.119131    0.226982    0.464626    0.189261    
Consensus sequence: AHAADCGGATTAWHB

Reverse complement motif
0.119131    0.464626    0.226982    0.189261    
0.350148    0.341763    0.053351    0.254738    
0.458475    0.020696    0.076200    0.444629    
0.027774    0.000460    0.002034    0.969731    
0.978144    0.012438    0.000393    0.009026    
0.993019    0.002396    0.001479    0.003106    
0.001355    0.028918    0.000574    0.969153    
0.003771    0.983421    0.000570    0.012238    
0.039008    0.956724    0.001848    0.002420    
0.140809    0.189427    0.605582    0.064182    
0.188416    0.118125    0.345388    0.348071    
0.190160    0.092257    0.036853    0.680730    
0.130190    0.037294    0.141216    0.691300    
0.294571    0.206507    0.201510    0.297413    
0.141288    0.243908    0.109355    0.505449    
Consensus sequence: BHWTAATCCGDTTHT

Alignment:
AHAADCGGATTAWHB
AATAACAGATT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00205        Pknox2                             Original Motif                          Reverse Complement                      Forward        3              11             0.043058       

Species: Mus musculus

Original motif
0.428425    0.195557    0.163102    0.212916    
0.596487    0.103248    0.171370    0.128895    
0.255216    0.203813    0.424426    0.116546    
0.034183    0.441823    0.347767    0.176227    
0.613880    0.025627    0.347719    0.012774    
0.028636    0.551817    0.409264    0.010283    
0.020873    0.969731    0.003025    0.006371    
0.001171    0.039795    0.000323    0.958710    
0.004303    0.001241    0.992873    0.001583    
0.014490    0.007334    0.000309    0.977866    
0.000873    0.991756    0.001920    0.005451    
0.979609    0.000960    0.015793    0.003638    
0.586289    0.199905    0.051181    0.162625    
0.207586    0.157832    0.051564    0.583018    
0.295651    0.262238    0.182998    0.259112    
0.158213    0.267067    0.215259    0.359461    
Consensus sequence: HAVSRSCTGTCAATHB

Reverse complement motif
0.359461    0.267067    0.215259    0.158213    
0.259112    0.262238    0.182998    0.295651    
0.583018    0.157832    0.051564    0.207586    
0.162625    0.199905    0.051181    0.586289    
0.003638    0.000960    0.015793    0.979609    
0.000873    0.001920    0.991756    0.005451    
0.977866    0.007334    0.000309    0.014490    
0.004303    0.992873    0.001241    0.001583    
0.958710    0.039795    0.000323    0.001171    
0.020873    0.003025    0.969731    0.006371    
0.028636    0.409264    0.551817    0.010283    
0.012774    0.025627    0.347719    0.613880    
0.034183    0.347767    0.441823    0.176227    
0.255216    0.424426    0.203813    0.116546    
0.128895    0.103248    0.171370    0.596487    
0.212916    0.195557    0.163102    0.428425    
Consensus sequence: VHATTGACAGSKSVTH

Alignment:
VHATTGACAGSKSVTH
--AATAACAGATT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00081        Mybl1_primary                      Reverse Complement                      Original Motif                          Forward        5              11             0.043115       

Species: Mus musculus

Original motif
0.219490    0.243488    0.196239    0.340783    
0.242096    0.094435    0.234242    0.429226    
0.242319    0.155536    0.366023    0.236122    
0.369837    0.185801    0.219486    0.224876    
0.390568    0.211210    0.098244    0.299978    
0.782192    0.011783    0.158354    0.047671    
0.837985    0.006254    0.084522    0.071239    
0.027255    0.965067    0.001360    0.006318    
0.006706    0.831051    0.151462    0.010782    
0.003491    0.002829    0.991758    0.001921    
0.004195    0.009136    0.009776    0.976893    
0.009860    0.166761    0.002159    0.821220    
0.709623    0.006957    0.204415    0.079005    
0.316262    0.239384    0.140024    0.304330    
0.254660    0.237146    0.090326    0.417868    
0.289939    0.309708    0.068038    0.332316    
0.262670    0.214791    0.217375    0.305164    
Consensus sequence: HDDDHAACCGTTAHHHD

Reverse complement motif
0.305164    0.214791    0.217375    0.262670    
0.332316    0.309708    0.068038    0.289939    
0.417868    0.237146    0.090326    0.254660    
0.304330    0.239384    0.140024    0.316262    
0.079005    0.006957    0.204415    0.709623    
0.821220    0.166761    0.002159    0.009860    
0.976893    0.009136    0.009776    0.004195    
0.003491    0.991758    0.002829    0.001921    
0.006706    0.151462    0.831051    0.010782    
0.027255    0.001360    0.965067    0.006318    
0.071239    0.006254    0.084522    0.837985    
0.047671    0.011783    0.158354    0.782192    
0.299978    0.211210    0.098244    0.390568    
0.224876    0.185801    0.219486    0.369837    
0.242319    0.366023    0.155536    0.236122    
0.429226    0.094435    0.234242    0.242096    
0.340783    0.243488    0.196239    0.219490    
Consensus sequence: DHHHTAACGGTTHDHDH

Alignment:
HDDDHAACCGTTAHHHD
----AATCTGTTATT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 26		Motif name: Motif 26

Original motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: CTGTTTTWAT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: ATWAAAACAG


************************************************************************ Best Matches for Motif ID 26 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00207        Hoxb9                              Reverse Complement                      Original Motif                          Backward       1              10             0.030167       

Species: Mus musculus

Original motif
0.369205    0.191401    0.373182    0.066211    
0.357429    0.160246    0.408701    0.073624    
0.576965    0.069294    0.310696    0.043045    
0.103797    0.127691    0.646641    0.121871    
0.023188    0.657132    0.005598    0.314082    
0.420260    0.543925    0.009350    0.026464    
0.944117    0.003851    0.047375    0.004658    
0.007642    0.006158    0.004106    0.982094    
0.728623    0.003283    0.002505    0.265589    
0.958302    0.002642    0.002614    0.036442    
0.969909    0.004265    0.002650    0.023176    
0.869075    0.011516    0.028466    0.090943    
0.336102    0.198102    0.075230    0.390566    
0.203557    0.271818    0.098338    0.426287    
0.226605    0.448090    0.146026    0.179278    
0.252426    0.177812    0.357334    0.212429    
Consensus sequence: VRRGCMATAAAAHHHD

Reverse complement motif
0.252426    0.357334    0.177812    0.212429    
0.226605    0.146026    0.448090    0.179278    
0.426287    0.271818    0.098338    0.203557    
0.390566    0.198102    0.075230    0.336102    
0.090943    0.011516    0.028466    0.869075    
0.023176    0.004265    0.002650    0.969909    
0.036442    0.002642    0.002614    0.958302    
0.265589    0.003283    0.002505    0.728623    
0.982094    0.006158    0.004106    0.007642    
0.004658    0.003851    0.047375    0.944117    
0.420260    0.009350    0.543925    0.026464    
0.023188    0.005598    0.657132    0.314082    
0.103797    0.646641    0.127691    0.121871    
0.043045    0.069294    0.310696    0.576965    
0.357429    0.408701    0.160246    0.073624    
0.369205    0.373182    0.191401    0.066211    
Consensus sequence: HDHHTTTTATRGCKMV

Alignment:
HDHHTTTTATRGCKMV
------ATWAAAACAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00213        Hoxa9                              Reverse Complement                      Original Motif                          Backward       2              10             0.032347       

Species: Mus musculus

Original motif
0.386110    0.122124    0.336396    0.155370    
0.214951    0.503652    0.200027    0.081370    
0.227199    0.070231    0.558705    0.143864    
0.087364    0.155173    0.659970    0.097493    
0.088468    0.597073    0.010847    0.303611    
0.237567    0.630916    0.020446    0.111071    
0.883692    0.003551    0.103622    0.009135    
0.022994    0.004161    0.003712    0.969134    
0.630635    0.007085    0.003697    0.358584    
0.954551    0.003419    0.003818    0.038212    
0.932582    0.012322    0.005304    0.049792    
0.758713    0.022612    0.031347    0.187327    
0.320450    0.163437    0.062031    0.454082    
0.174953    0.127720    0.167458    0.529870    
0.511837    0.131729    0.146649    0.209785    
0.382191    0.090904    0.276475    0.250430    
0.383323    0.080173    0.111038    0.425465    
Consensus sequence: DCGGYCATWAAAWTADW

Reverse complement motif
0.425465    0.080173    0.111038    0.383323    
0.250430    0.090904    0.276475    0.382191    
0.209785    0.131729    0.146649    0.511837    
0.529870    0.127720    0.167458    0.174953    
0.454082    0.163437    0.062031    0.320450    
0.187327    0.022612    0.031347    0.758713    
0.049792    0.012322    0.005304    0.932582    
0.038212    0.003419    0.003818    0.954551    
0.358584    0.007085    0.003697    0.630635    
0.969134    0.004161    0.003712    0.022994    
0.009135    0.003551    0.103622    0.883692    
0.237567    0.020446    0.630916    0.111071    
0.088468    0.010847    0.597073    0.303611    
0.087364    0.659970    0.155173    0.097493    
0.227199    0.558705    0.070231    0.143864    
0.214951    0.200027    0.503652    0.081370    
0.155370    0.122124    0.336396    0.386110    
Consensus sequence: WDTAWTTTWATGKCCGD

Alignment:
DCGGYCATWAAAWTADW
------ATWAAAACAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00134        Hoxb13                             Original Motif                          Reverse Complement                      Forward        1              10             0.036266       

Species: Mus musculus

Original motif
0.376100    0.272625    0.202253    0.149021    
0.479072    0.116315    0.274952    0.129661    
0.297412    0.328646    0.182054    0.191889    
0.052067    0.771717    0.088083    0.088133    
0.018222    0.666056    0.006952    0.308770    
0.755568    0.122362    0.001339    0.120731    
0.915413    0.001023    0.052340    0.031225    
0.002612    0.028396    0.000695    0.968297    
0.831092    0.001851    0.005615    0.161442    
0.927869    0.001839    0.001169    0.069123    
0.967747    0.009603    0.002871    0.019778    
0.843186    0.073812    0.055868    0.027134    
0.371084    0.143031    0.086222    0.399662    
0.264976    0.212885    0.118960    0.403179    
0.215633    0.345186    0.105518    0.333663    
0.221910    0.297212    0.329310    0.151568    
Consensus sequence: VRHCCAATAAAAWHHV

Reverse complement motif
0.221910    0.329310    0.297212    0.151568    
0.215633    0.105518    0.345186    0.333663    
0.403179    0.212885    0.118960    0.264976    
0.399662    0.143031    0.086222    0.371084    
0.027134    0.073812    0.055868    0.843186    
0.019778    0.009603    0.002871    0.967747    
0.069123    0.001839    0.001169    0.927869    
0.161442    0.001851    0.005615    0.831092    
0.968297    0.028396    0.000695    0.002612    
0.031225    0.001023    0.052340    0.915413    
0.120731    0.122362    0.001339    0.755568    
0.018222    0.006952    0.666056    0.308770    
0.052067    0.088083    0.771717    0.088133    
0.297412    0.182054    0.328646    0.191889    
0.129661    0.116315    0.274952    0.479072    
0.149021    0.272625    0.202253    0.376100    
Consensus sequence: VDHWTTTTATTGGDKB

Alignment:
VRHCCAATAAAAWHHV
CTGTTTTWAT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Reverse Complement                      Forward        5              10             0.037282       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
VVVWTTGTTTAMATTWD
----CTGTTTTWAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Original Motif                          Reverse Complement                      Forward        5              10             0.038678       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
BBVTTTGTTTACATTDD
----CTGTTTTWAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00180        Hoxd13                             Reverse Complement                      Original Motif                          Backward       1              10             0.039027       

Species: Mus musculus

Original motif
0.279189    0.316791    0.190404    0.213616    
0.297705    0.175638    0.191020    0.335637    
0.333485    0.203858    0.174034    0.288623    
0.046444    0.540349    0.083237    0.329969    
0.016780    0.648667    0.003870    0.330682    
0.679959    0.116873    0.002745    0.200422    
0.936496    0.002013    0.026876    0.034615    
0.004741    0.008734    0.003861    0.982665    
0.904624    0.000869    0.005345    0.089162    
0.967883    0.002295    0.001003    0.028819    
0.980087    0.004768    0.002887    0.012258    
0.898523    0.041633    0.022776    0.037069    
0.246903    0.292446    0.069240    0.391411    
0.192528    0.300908    0.105655    0.400908    
0.247610    0.343317    0.190760    0.218313    
0.246702    0.253595    0.176298    0.323404    
Consensus sequence: HDHYYAATAAAAHHHH

Reverse complement motif
0.323404    0.253595    0.176298    0.246702    
0.247610    0.190760    0.343317    0.218313    
0.400908    0.300908    0.105655    0.192528    
0.391411    0.292446    0.069240    0.246903    
0.037069    0.041633    0.022776    0.898523    
0.012258    0.004768    0.002887    0.980087    
0.028819    0.002295    0.001003    0.967883    
0.089162    0.000869    0.005345    0.904624    
0.982665    0.008734    0.003861    0.004741    
0.034615    0.002013    0.026876    0.936496    
0.200422    0.116873    0.002745    0.679959    
0.016780    0.003870    0.648667    0.330682    
0.046444    0.083237    0.540349    0.329969    
0.288623    0.203858    0.174034    0.333485    
0.335637    0.175638    0.191020    0.297705    
0.279189    0.190404    0.316791    0.213616    
Consensus sequence: HDHHTTTTATTKKHDD

Alignment:
HDHHTTTTATTKKHDD
------ATWAAAACAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_secondary                    Original Motif                          Reverse Complement                      Forward        3              10             0.039676       

Species: Mus musculus

Original motif
0.240753    0.425595    0.141281    0.192371    
0.367715    0.247224    0.117353    0.267708    
0.489169    0.220343    0.113844    0.176644    
0.742256    0.042809    0.146704    0.068231    
0.078936    0.546144    0.032328    0.342592    
0.588419    0.293580    0.082117    0.035885    
0.913924    0.026256    0.050778    0.009042    
0.009007    0.565680    0.010683    0.414630    
0.947562    0.020878    0.018821    0.012739    
0.901384    0.021519    0.030204    0.046893    
0.077157    0.797900    0.026432    0.098511    
0.824314    0.040128    0.051910    0.083648    
0.254436    0.342235    0.143789    0.259539    
0.319400    0.338163    0.129746    0.212691    
0.231014    0.260719    0.169042    0.339225    
Consensus sequence: HHHAYAAYAACAHHH

Reverse complement motif
0.339225    0.260719    0.169042    0.231014    
0.319400    0.129746    0.338163    0.212691    
0.254436    0.143789    0.342235    0.259539    
0.083648    0.040128    0.051910    0.824314    
0.077157    0.026432    0.797900    0.098511    
0.046893    0.021519    0.030204    0.901384    
0.012739    0.020878    0.018821    0.947562    
0.009007    0.010683    0.565680    0.414630    
0.009042    0.026256    0.050778    0.913924    
0.035885    0.293580    0.082117    0.588419    
0.078936    0.032328    0.546144    0.342592    
0.068231    0.042809    0.146704    0.742256    
0.176644    0.220343    0.113844    0.489169    
0.267708    0.247224    0.117353    0.367715    
0.240753    0.141281    0.425595    0.192371    
Consensus sequence: HDDTGTTKTTKTHHD

Alignment:
HDDTGTTKTTKTHHD
--CTGTTTTWAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00121        Hoxd10                             Original Motif                          Reverse Complement                      Backward       7              10             0.045026       

Species: Mus musculus

Original motif
0.405345    0.293266    0.220907    0.080482    
0.398063    0.099034    0.333525    0.169378    
0.049753    0.190411    0.336789    0.423048    
0.243698    0.226261    0.324346    0.205696    
0.030873    0.549741    0.008321    0.411065    
0.714225    0.228092    0.020960    0.036723    
0.833992    0.010944    0.021918    0.133146    
0.008898    0.026169    0.008341    0.956591    
0.811684    0.004889    0.004751    0.178676    
0.952107    0.004322    0.004587    0.038984    
0.925365    0.008360    0.006811    0.059464    
0.850659    0.058250    0.065237    0.025855    
0.193369    0.242985    0.049515    0.514131    
0.266774    0.080601    0.239781    0.412844    
0.335522    0.125500    0.188170    0.350809    
0.407171    0.120540    0.187300    0.284989    
0.281181    0.242348    0.160247    0.316224    
Consensus sequence: VDKVYAATAAAATDDDH

Reverse complement motif
0.316224    0.242348    0.160247    0.281181    
0.284989    0.120540    0.187300    0.407171    
0.350809    0.125500    0.188170    0.335522    
0.412844    0.080601    0.239781    0.266774    
0.514131    0.242985    0.049515    0.193369    
0.025855    0.058250    0.065237    0.850659    
0.059464    0.008360    0.006811    0.925365    
0.038984    0.004322    0.004587    0.952107    
0.178676    0.004889    0.004751    0.811684    
0.956591    0.026169    0.008341    0.008898    
0.133146    0.010944    0.021918    0.833992    
0.036723    0.228092    0.020960    0.714225    
0.030873    0.008321    0.549741    0.411065    
0.243698    0.324346    0.226261    0.205696    
0.423048    0.190411    0.336789    0.049753    
0.169378    0.099034    0.333525    0.398063    
0.080482    0.293266    0.220907    0.405345    
Consensus sequence: HDDDATTTTATTKVRDB

Alignment:
HDDDATTTTATTKVRDB
-CTGTTTTWAT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_secondary                    Reverse Complement                      Original Motif                          Forward        3              10             0.045144       

Species: Mus musculus

Original motif
0.560226    0.121586    0.083231    0.234957    
0.318077    0.149137    0.179955    0.352831    
0.482497    0.118420    0.173594    0.225488    
0.200166    0.160901    0.191493    0.447440    
0.033691    0.569719    0.018901    0.377690    
0.638020    0.166545    0.021254    0.174181    
0.573953    0.105729    0.009308    0.311010    
0.890518    0.053364    0.013424    0.042694    
0.910758    0.028166    0.032648    0.028428    
0.013358    0.738707    0.023981    0.223953    
0.911783    0.018754    0.031898    0.037564    
0.702891    0.068940    0.076823    0.151346    
0.445507    0.320769    0.057216    0.176507    
0.587798    0.129586    0.140592    0.142024    
0.258981    0.330939    0.167334    0.242747    
0.362022    0.333796    0.145861    0.158320    
Consensus sequence: ADDDYAWAACAAMAHH

Reverse complement motif
0.158320    0.333796    0.145861    0.362022    
0.258981    0.167334    0.330939    0.242747    
0.142024    0.129586    0.140592    0.587798    
0.176507    0.320769    0.057216    0.445507    
0.151346    0.068940    0.076823    0.702891    
0.037564    0.018754    0.031898    0.911783    
0.013358    0.023981    0.738707    0.223953    
0.028428    0.028166    0.032648    0.910758    
0.042694    0.053364    0.013424    0.890518    
0.311010    0.105729    0.009308    0.573953    
0.174181    0.166545    0.021254    0.638020    
0.033691    0.018901    0.569719    0.377690    
0.447440    0.160901    0.191493    0.200166    
0.225488    0.118420    0.173594    0.482497    
0.352831    0.149137    0.179955    0.318077    
0.234957    0.121586    0.083231    0.560226    
Consensus sequence: HDTYTTGTTWTKDDDT

Alignment:
ADDDYAWAACAAMAHH
--ATWAAAACAG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00101        Sox12_primary                      Reverse Complement                      Reverse Complement                      Backward       4              10             0.045236       

Species: Mus musculus

Original motif
0.124600    0.227558    0.113860    0.533982    
0.416814    0.237036    0.025428    0.320722    
0.844859    0.004610    0.009822    0.140710    
0.010799    0.012156    0.010273    0.966772    
0.021911    0.002662    0.007268    0.968159    
0.047515    0.012476    0.926393    0.013616    
0.024161    0.004368    0.005622    0.965849    
0.035551    0.063776    0.023058    0.877615    
0.227803    0.424131    0.175089    0.172976    
0.158486    0.110477    0.070431    0.660606    
0.290539    0.259108    0.202704    0.247648    
0.565848    0.109529    0.105361    0.219261    
0.421399    0.149322    0.091821    0.337459    
0.272834    0.280517    0.197403    0.249246    
Consensus sequence: THATTGTTVTHAWH

Reverse complement motif
0.272834    0.197403    0.280517    0.249246    
0.337459    0.149322    0.091821    0.421399    
0.219261    0.109529    0.105361    0.565848    
0.247648    0.259108    0.202704    0.290539    
0.660606    0.110477    0.070431    0.158486    
0.227803    0.175089    0.424131    0.172976    
0.877615    0.063776    0.023058    0.035551    
0.965849    0.004368    0.005622    0.024161    
0.047515    0.926393    0.012476    0.013616    
0.968159    0.002662    0.007268    0.021911    
0.966772    0.012156    0.010273    0.010799    
0.140710    0.004610    0.009822    0.844859    
0.320722    0.237036    0.025428    0.416814    
0.533982    0.227558    0.113860    0.124600    
Consensus sequence: DWTHAVAACAATHA

Alignment:
DWTHAVAACAATHA
-ATWAAAACAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 27		Motif name: Motif 27

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.500000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: ATTCTGTRAAG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: CTTKACAGAAT


************************************************************************ Best Matches for Motif ID 27 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_2205.1                      Original Motif                          Original Motif                          Backward       4              11             0.022933       

Species: Mus musculus

Original motif
0.504898    0.140204    0.135418    0.219480    
0.282348    0.244881    0.300572    0.172199    
0.183939    0.100670    0.384783    0.330608    
0.326709    0.269523    0.194043    0.209724    
0.142989    0.557393    0.066826    0.232792    
0.038356    0.014052    0.932450    0.015142    
0.092102    0.778844    0.125082    0.003972    
0.010254    0.001252    0.005231    0.983263    
0.033486    0.000891    0.947486    0.018137    
0.005360    0.007407    0.003729    0.983504    
0.603485    0.007179    0.003482    0.385853    
0.798026    0.029788    0.032370    0.139816    
0.529622    0.100632    0.016507    0.353238    
0.243581    0.126094    0.401402    0.228923    
0.207484    0.285456    0.353715    0.153346    
0.282413    0.188410    0.441463    0.087715    
0.422774    0.152965    0.094106    0.330155    
Consensus sequence: AVDHCGCTGTWAWDVVW

Reverse complement motif
0.330155    0.152965    0.094106    0.422774    
0.282413    0.441463    0.188410    0.087715    
0.207484    0.353715    0.285456    0.153346    
0.243581    0.401402    0.126094    0.228923    
0.353238    0.100632    0.016507    0.529622    
0.139816    0.029788    0.032370    0.798026    
0.385853    0.007179    0.003482    0.603485    
0.983504    0.007407    0.003729    0.005360    
0.033486    0.947486    0.000891    0.018137    
0.983263    0.001252    0.005231    0.010254    
0.092102    0.125082    0.778844    0.003972    
0.038356    0.932450    0.014052    0.015142    
0.142989    0.066826    0.557393    0.232792    
0.209724    0.269523    0.194043    0.326709    
0.183939    0.384783    0.100670    0.330608    
0.282348    0.300572    0.244881    0.172199    
0.219480    0.140204    0.135418    0.504898    
Consensus sequence: WVVHWTWACAGCGHHVT

Alignment:
AVDHCGCTGTWAWDVVW
---ATTCTGTRAAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00186        Meis1                              Reverse Complement                      Reverse Complement                      Backward       4              11             0.023155       

Species: Mus musculus

Original motif
0.432115    0.114994    0.130835    0.322056    
0.508081    0.060822    0.214256    0.216841    
0.225875    0.276028    0.280982    0.217115    
0.092373    0.286687    0.360933    0.260007    
0.947172    0.005937    0.028595    0.018297    
0.027829    0.439935    0.505051    0.027185    
0.023801    0.963424    0.008205    0.004571    
0.001548    0.018215    0.000406    0.979831    
0.008422    0.001124    0.989007    0.001446    
0.025343    0.004094    0.000241    0.970323    
0.001451    0.992789    0.002037    0.003724    
0.991202    0.001638    0.003159    0.004002    
0.695910    0.022145    0.013657    0.268288    
0.357895    0.090931    0.093796    0.457378    
0.453163    0.204395    0.181067    0.161376    
0.200615    0.393437    0.171398    0.234551    
Consensus sequence: WAVBASCTGTCAAWVH

Reverse complement motif
0.200615    0.171398    0.393437    0.234551    
0.161376    0.204395    0.181067    0.453163    
0.457378    0.090931    0.093796    0.357895    
0.268288    0.022145    0.013657    0.695910    
0.004002    0.001638    0.003159    0.991202    
0.001451    0.002037    0.992789    0.003724    
0.970323    0.004094    0.000241    0.025343    
0.008422    0.989007    0.001124    0.001446    
0.979831    0.018215    0.000406    0.001548    
0.023801    0.008205    0.963424    0.004571    
0.027829    0.505051    0.439935    0.027185    
0.018297    0.005937    0.028595    0.947172    
0.092373    0.360933    0.286687    0.260007    
0.225875    0.280982    0.276028    0.217115    
0.216841    0.060822    0.214256    0.508081    
0.322056    0.114994    0.130835    0.432115    
Consensus sequence: DBWTTGACAGSTBVTW

Alignment:
DBWTTGACAGSTBVTW
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00258        Tgif2                              Reverse Complement                      Reverse Complement                      Forward        3              11             0.023216       

Species: Mus musculus

Original motif
0.519684    0.141807    0.112153    0.226356    
0.614097    0.079211    0.138045    0.168647    
0.186975    0.327654    0.245051    0.240320    
0.108289    0.303530    0.219106    0.369076    
0.914812    0.012014    0.046628    0.026546    
0.070482    0.163253    0.689315    0.076951    
0.016354    0.972639    0.003648    0.007359    
0.002043    0.018718    0.000384    0.978855    
0.006109    0.001408    0.990736    0.001747    
0.024783    0.002060    0.000402    0.972755    
0.001485    0.991963    0.001756    0.004796    
0.989335    0.001052    0.002320    0.007293    
0.778804    0.056366    0.037632    0.127198    
0.377980    0.094597    0.086888    0.440535    
0.458125    0.289431    0.152762    0.099682    
0.223103    0.435348    0.216962    0.124587    
Consensus sequence: AABBAGCTGTCAAWVV

Reverse complement motif
0.223103    0.216962    0.435348    0.124587    
0.099682    0.289431    0.152762    0.458125    
0.440535    0.094597    0.086888    0.377980    
0.127198    0.056366    0.037632    0.778804    
0.007293    0.001052    0.002320    0.989335    
0.001485    0.001756    0.991963    0.004796    
0.972755    0.002060    0.000402    0.024783    
0.006109    0.990736    0.001408    0.001747    
0.978855    0.018718    0.000384    0.002043    
0.016354    0.003648    0.972639    0.007359    
0.070482    0.689315    0.163253    0.076951    
0.026546    0.012014    0.046628    0.914812    
0.369076    0.303530    0.219106    0.108289    
0.186975    0.245051    0.327654    0.240320    
0.168647    0.079211    0.138045    0.614097    
0.226356    0.141807    0.112153    0.519684    
Consensus sequence: VBWTTGACAGCTVBTT

Alignment:
VBWTTGACAGCTVBTT
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00012        Bbx_primary                        Original Motif                          Original Motif                          Forward        3              11             0.023325       

Species: Mus musculus

Original motif
0.243561    0.194936    0.123150    0.438353    
0.606538    0.159878    0.056476    0.177109    
0.460256    0.141315    0.215237    0.183192    
0.134434    0.033508    0.053304    0.778753    
0.091333    0.019966    0.020704    0.867997    
0.136284    0.753571    0.062560    0.047585    
0.917109    0.031475    0.015472    0.035944    
0.452244    0.084890    0.121698    0.341168    
0.035944    0.015472    0.031475    0.917109    
0.047585    0.062560    0.753571    0.136284    
0.867997    0.020704    0.019966    0.091333    
0.778753    0.053304    0.033508    0.134434    
0.123705    0.284125    0.353361    0.238808    
0.291282    0.126574    0.120737    0.461406    
0.330626    0.062565    0.348868    0.257941    
Consensus sequence: HADTTCAWTGAABWD

Reverse complement motif
0.330626    0.348868    0.062565    0.257941    
0.461406    0.126574    0.120737    0.291282    
0.123705    0.353361    0.284125    0.238808    
0.134434    0.053304    0.033508    0.778753    
0.091333    0.020704    0.019966    0.867997    
0.047585    0.753571    0.062560    0.136284    
0.917109    0.015472    0.031475    0.035944    
0.341168    0.084890    0.121698    0.452244    
0.035944    0.031475    0.015472    0.917109    
0.136284    0.062560    0.753571    0.047585    
0.867997    0.019966    0.020704    0.091333    
0.778753    0.033508    0.053304    0.134434    
0.183192    0.141315    0.215237    0.460256    
0.177109    0.159878    0.056476    0.606538    
0.438353    0.194936    0.123150    0.243561    
Consensus sequence: HWBTTCAWTGAADTH

Alignment:
HADTTCAWTGAABWD
--ATTCTGTRAAG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00226        Mrg1                               Reverse Complement                      Reverse Complement                      Backward       4              11             0.023976       

Species: Mus musculus

Original motif
0.378836    0.145096    0.102046    0.374022    
0.507161    0.090730    0.177058    0.225051    
0.277496    0.234581    0.275775    0.212149    
0.065300    0.339403    0.360939    0.234358    
0.918963    0.010948    0.043262    0.026826    
0.017295    0.545133    0.416603    0.020969    
0.023391    0.962223    0.007311    0.007075    
0.001760    0.020258    0.000360    0.977622    
0.013946    0.000586    0.983699    0.001769    
0.035910    0.004825    0.000197    0.959068    
0.001465    0.991446    0.001338    0.005750    
0.986785    0.001158    0.005848    0.006209    
0.715894    0.043046    0.018966    0.222093    
0.332332    0.084841    0.098421    0.484405    
0.473739    0.198580    0.152072    0.175610    
0.211505    0.325971    0.212211    0.250313    
Consensus sequence: WAVBASCTGTCAAWHB

Reverse complement motif
0.211505    0.212211    0.325971    0.250313    
0.175610    0.198580    0.152072    0.473739    
0.484405    0.084841    0.098421    0.332332    
0.222093    0.043046    0.018966    0.715894    
0.006209    0.001158    0.005848    0.986785    
0.001465    0.001338    0.991446    0.005750    
0.959068    0.004825    0.000197    0.035910    
0.013946    0.983699    0.000586    0.001769    
0.977622    0.020258    0.000360    0.001760    
0.023391    0.007311    0.962223    0.007075    
0.017295    0.416603    0.545133    0.020969    
0.026826    0.010948    0.043262    0.918963    
0.065300    0.360939    0.339403    0.234358    
0.212149    0.234581    0.275775    0.277496    
0.225051    0.090730    0.177058    0.507161    
0.374022    0.145096    0.102046    0.378836    
Consensus sequence: BHWTTGACAGSTBBTW

Alignment:
BHWTTGACAGSTBBTW
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00203        Pknox1                             Reverse Complement                      Reverse Complement                      Backward       4              11             0.025386       

Species: Mus musculus

Original motif
0.436259    0.086706    0.169714    0.307321    
0.433826    0.063296    0.358082    0.144795    
0.324190    0.284651    0.208786    0.182372    
0.054648    0.285295    0.518967    0.141090    
0.922874    0.012239    0.042656    0.022231    
0.036668    0.581917    0.338993    0.042422    
0.021599    0.968542    0.006920    0.002939    
0.001846    0.026071    0.000271    0.971812    
0.007232    0.000773    0.989645    0.002350    
0.019103    0.005771    0.000209    0.974917    
0.001535    0.989111    0.000852    0.008502    
0.989698    0.000915    0.004907    0.004480    
0.679114    0.077050    0.037931    0.205904    
0.330007    0.110122    0.067993    0.491878    
0.286458    0.421726    0.186579    0.105236    
0.199258    0.473968    0.173008    0.153766    
Consensus sequence: DRVSASCTGTCAAWVV

Reverse complement motif
0.199258    0.173008    0.473968    0.153766    
0.286458    0.186579    0.421726    0.105236    
0.491878    0.110122    0.067993    0.330007    
0.205904    0.077050    0.037931    0.679114    
0.004480    0.000915    0.004907    0.989698    
0.001535    0.000852    0.989111    0.008502    
0.974917    0.005771    0.000209    0.019103    
0.007232    0.989645    0.000773    0.002350    
0.971812    0.026071    0.000271    0.001846    
0.021599    0.006920    0.968542    0.002939    
0.036668    0.338993    0.581917    0.042422    
0.022231    0.012239    0.042656    0.922874    
0.054648    0.518967    0.285295    0.141090    
0.182372    0.284651    0.208786    0.324190    
0.144795    0.063296    0.358082    0.433826    
0.307321    0.086706    0.169714    0.436259    
Consensus sequence: VVWTTGACAGSTSBKD

Alignment:
VVWTTGACAGSTSBKD
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_1765.2                      Original Motif                          Original Motif                          Backward       4              11             0.025945       

Species: Mus musculus

Original motif
0.538735    0.129821    0.147336    0.184107    
0.331267    0.275123    0.227609    0.166001    
0.174654    0.113319    0.383610    0.328417    
0.296734    0.281670    0.230068    0.191527    
0.128222    0.561296    0.062928    0.247554    
0.027028    0.014676    0.949335    0.008962    
0.087209    0.761581    0.147964    0.003246    
0.006796    0.000741    0.006037    0.986427    
0.039496    0.000533    0.943453    0.016517    
0.005541    0.005164    0.002805    0.986489    
0.561957    0.002761    0.004207    0.431075    
0.780197    0.037155    0.031222    0.151425    
0.518642    0.104220    0.012670    0.364468    
0.314451    0.111366    0.333508    0.240676    
0.236936    0.357992    0.280813    0.124259    
0.314846    0.163774    0.426195    0.095185    
0.408340    0.134111    0.102987    0.354562    
Consensus sequence: AVDVCGCTGTWAWDVVW

Reverse complement motif
0.354562    0.134111    0.102987    0.408340    
0.314846    0.426195    0.163774    0.095185    
0.236936    0.280813    0.357992    0.124259    
0.314451    0.333508    0.111366    0.240676    
0.364468    0.104220    0.012670    0.518642    
0.151425    0.037155    0.031222    0.780197    
0.431075    0.002761    0.004207    0.561957    
0.986489    0.005164    0.002805    0.005541    
0.039496    0.943453    0.000533    0.016517    
0.986427    0.000741    0.006037    0.006796    
0.087209    0.147964    0.761581    0.003246    
0.027028    0.949335    0.014676    0.008962    
0.128222    0.062928    0.561296    0.247554    
0.191527    0.281670    0.230068    0.296734    
0.174654    0.383610    0.113319    0.328417    
0.166001    0.275123    0.227609    0.331267    
0.184107    0.129821    0.147336    0.538735    
Consensus sequence: WVVHWTWACAGCGBHBT

Alignment:
AVDVCGCTGTWAWDVVW
---ATTCTGTRAAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00205        Pknox2                             Reverse Complement                      Reverse Complement                      Forward        3              11             0.026439       

Species: Mus musculus

Original motif
0.428425    0.195557    0.163102    0.212916    
0.596487    0.103248    0.171370    0.128895    
0.255216    0.203813    0.424426    0.116546    
0.034183    0.441823    0.347767    0.176227    
0.613880    0.025627    0.347719    0.012774    
0.028636    0.551817    0.409264    0.010283    
0.020873    0.969731    0.003025    0.006371    
0.001171    0.039795    0.000323    0.958710    
0.004303    0.001241    0.992873    0.001583    
0.014490    0.007334    0.000309    0.977866    
0.000873    0.991756    0.001920    0.005451    
0.979609    0.000960    0.015793    0.003638    
0.586289    0.199905    0.051181    0.162625    
0.207586    0.157832    0.051564    0.583018    
0.295651    0.262238    0.182998    0.259112    
0.158213    0.267067    0.215259    0.359461    
Consensus sequence: HAVSRSCTGTCAATHB

Reverse complement motif
0.359461    0.267067    0.215259    0.158213    
0.259112    0.262238    0.182998    0.295651    
0.583018    0.157832    0.051564    0.207586    
0.162625    0.199905    0.051181    0.586289    
0.003638    0.000960    0.015793    0.979609    
0.000873    0.001920    0.991756    0.005451    
0.977866    0.007334    0.000309    0.014490    
0.004303    0.992873    0.001241    0.001583    
0.958710    0.039795    0.000323    0.001171    
0.020873    0.003025    0.969731    0.006371    
0.028636    0.409264    0.551817    0.010283    
0.012774    0.025627    0.347719    0.613880    
0.034183    0.347767    0.441823    0.176227    
0.255216    0.424426    0.203813    0.116546    
0.128895    0.103248    0.171370    0.596487    
0.212916    0.195557    0.163102    0.428425    
Consensus sequence: VHATTGACAGSKSVTH

Alignment:
VHATTGACAGSKSVTH
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_primary                       Reverse Complement                      Original Motif                          Backward       4              11             0.028797       

Species: Mus musculus

Original motif
0.348694    0.177225    0.158977    0.315104    
0.241477    0.301470    0.225252    0.231801    
0.299530    0.177310    0.188699    0.334462    
0.413829    0.141414    0.102784    0.341973    
0.032644    0.017968    0.004577    0.944811    
0.021091    0.330699    0.642563    0.005647    
0.969224    0.001914    0.005956    0.022906    
0.969063    0.003485    0.003398    0.024054    
0.013104    0.003523    0.002842    0.980532    
0.005485    0.020244    0.932599    0.041672    
0.757494    0.002617    0.231695    0.008193    
0.865658    0.039206    0.073039    0.022097    
0.110535    0.114879    0.043620    0.730965    
0.186322    0.154540    0.442471    0.216667    
0.366490    0.152622    0.256688    0.224200    
0.216146    0.261309    0.238703    0.283842    
Consensus sequence: HHDWTSAATGAATDDB

Reverse complement motif
0.283842    0.261309    0.238703    0.216146    
0.224200    0.152622    0.256688    0.366490    
0.186322    0.442471    0.154540    0.216667    
0.730965    0.114879    0.043620    0.110535    
0.022097    0.039206    0.073039    0.865658    
0.008193    0.002617    0.231695    0.757494    
0.005485    0.932599    0.020244    0.041672    
0.980532    0.003523    0.002842    0.013104    
0.024054    0.003485    0.003398    0.969063    
0.022906    0.001914    0.005956    0.969224    
0.021091    0.642563    0.330699    0.005647    
0.944811    0.017968    0.004577    0.032644    
0.341973    0.141414    0.102784    0.413829    
0.334462    0.177310    0.188699    0.299530    
0.241477    0.225252    0.301470    0.231801    
0.315104    0.177225    0.158977    0.348694    
Consensus sequence: VDHATTCATTSAWDDH

Alignment:
HHDWTSAATGAATDDB
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00210        Mrg2                               Reverse Complement                      Reverse Complement                      Forward        3              11             0.028903       

Species: Mus musculus

Original motif
0.451361    0.129344    0.139593    0.279702    
0.590642    0.061045    0.179638    0.168676    
0.264848    0.211505    0.252514    0.271134    
0.108876    0.280056    0.299987    0.311081    
0.771098    0.021050    0.148609    0.059244    
0.030292    0.505912    0.423702    0.040094    
0.053400    0.869563    0.021964    0.055073    
0.001749    0.029333    0.000487    0.968430    
0.007267    0.000536    0.989450    0.002747    
0.031237    0.006659    0.000558    0.961545    
0.001520    0.992342    0.001637    0.004501    
0.976582    0.004910    0.010811    0.007697    
0.640869    0.062002    0.032830    0.264299    
0.318843    0.128253    0.123096    0.429808    
0.432137    0.269895    0.155457    0.142512    
0.247124    0.427480    0.147164    0.178233    
Consensus sequence: DADBASCTGTCAAHVH

Reverse complement motif
0.247124    0.147164    0.427480    0.178233    
0.142512    0.269895    0.155457    0.432137    
0.429808    0.128253    0.123096    0.318843    
0.264299    0.062002    0.032830    0.640869    
0.007697    0.004910    0.010811    0.976582    
0.001520    0.001637    0.992342    0.004501    
0.961545    0.006659    0.000558    0.031237    
0.007267    0.989450    0.000536    0.002747    
0.968430    0.029333    0.000487    0.001749    
0.053400    0.021964    0.869563    0.055073    
0.030292    0.423702    0.505912    0.040094    
0.059244    0.021050    0.148609    0.771098    
0.311081    0.280056    0.299987    0.108876    
0.271134    0.211505    0.252514    0.264848    
0.168676    0.061045    0.179638    0.590642    
0.279702    0.129344    0.139593    0.451361    
Consensus sequence: DBHTTGACAGSTVDTD

Alignment:
DBHTTGACAGSTVDTD
--CTTKACAGAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 28		Motif name: Motif 28

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: ATTTAGTAAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTTACTAAAT


************************************************************************ Best Matches for Motif ID 28 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00130        Lhx3                               Reverse Complement                      Reverse Complement                      Backward       4              10             0.002713       

Species: Mus musculus

Original motif
0.226746    0.289244    0.371785    0.112225    
0.256971    0.229670    0.248726    0.264633    
0.556784    0.228344    0.038490    0.176382    
0.631659    0.088282    0.196624    0.083434    
0.021306    0.098213    0.006109    0.874373    
0.016974    0.029949    0.000343    0.952734    
0.971885    0.004194    0.023228    0.000693    
0.983076    0.001653    0.004793    0.010478    
0.010478    0.004793    0.001653    0.983076    
0.000693    0.023228    0.004194    0.971885    
0.952734    0.000343    0.029949    0.016974    
0.874373    0.006109    0.098213    0.021306    
0.425814    0.086548    0.127397    0.360241    
0.343977    0.034349    0.079320    0.542354    
0.412597    0.281154    0.077380    0.228869    
0.338396    0.315969    0.106509    0.239127    
0.112285    0.233324    0.310745    0.343646    
Consensus sequence: VDAATTAATTAAWWHHB

Reverse complement motif
0.343646    0.233324    0.310745    0.112285    
0.239127    0.315969    0.106509    0.338396    
0.228869    0.281154    0.077380    0.412597    
0.542354    0.034349    0.079320    0.343977    
0.360241    0.086548    0.127397    0.425814    
0.021306    0.006109    0.098213    0.874373    
0.016974    0.000343    0.029949    0.952734    
0.971885    0.023228    0.004194    0.000693    
0.983076    0.004793    0.001653    0.010478    
0.010478    0.001653    0.004793    0.983076    
0.000693    0.004194    0.023228    0.971885    
0.952734    0.029949    0.000343    0.016974    
0.874373    0.098213    0.006109    0.021306    
0.083434    0.088282    0.196624    0.631659    
0.176382    0.228344    0.038490    0.556784    
0.264633    0.229670    0.248726    0.256971    
0.226746    0.371785    0.289244    0.112225    
Consensus sequence: VHHWWTTAATTAATTDV

Alignment:
VHHWWTTAATTAATTDV
----TTTACTAAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_primary                     Original Motif                          Reverse Complement                      Backward       4              10             0.002754       

Species: Mus musculus

Original motif
0.190539    0.277187    0.240231    0.292043    
0.132707    0.187246    0.111293    0.568754    
0.936112    0.021141    0.033932    0.008815    
0.012721    0.023350    0.004164    0.959765    
0.007185    0.002386    0.987110    0.003318    
0.059134    0.009005    0.034016    0.897845    
0.900906    0.002575    0.086677    0.009842    
0.003163    0.941371    0.002196    0.053270    
0.034631    0.265318    0.037179    0.662873    
0.967171    0.007014    0.003028    0.022787    
0.980796    0.002228    0.010049    0.006927    
0.020630    0.005755    0.005408    0.968208    
0.427020    0.122682    0.118347    0.331951    
0.447075    0.284990    0.061633    0.206303    
Consensus sequence: BTATGTACTAATWH

Reverse complement motif
0.206303    0.284990    0.061633    0.447075    
0.331951    0.122682    0.118347    0.427020    
0.968208    0.005755    0.005408    0.020630    
0.006927    0.002228    0.010049    0.980796    
0.022787    0.007014    0.003028    0.967171    
0.662873    0.265318    0.037179    0.034631    
0.003163    0.002196    0.941371    0.053270    
0.009842    0.002575    0.086677    0.900906    
0.897845    0.009005    0.034016    0.059134    
0.007185    0.987110    0.002386    0.003318    
0.959765    0.023350    0.004164    0.012721    
0.008815    0.021141    0.033932    0.936112    
0.568754    0.187246    0.111293    0.132707    
0.292043    0.277187    0.240231    0.190539    
Consensus sequence: HWATTAGTACATAV

Alignment:
HWATTAGTACATAV
-ATTTAGTAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00212        Lhx5                               Reverse Complement                      Reverse Complement                      Backward       4              10             0.002851       

Species: Mus musculus

Original motif
0.192127    0.348816    0.300474    0.158583    
0.251871    0.201197    0.314740    0.232192    
0.469240    0.195840    0.137749    0.197171    
0.620351    0.063061    0.196615    0.119973    
0.026357    0.096838    0.024928    0.851877    
0.010301    0.066114    0.000301    0.923283    
0.980649    0.007663    0.010886    0.000802    
0.981397    0.001294    0.004654    0.012655    
0.012655    0.004654    0.001294    0.981397    
0.000802    0.010886    0.007663    0.980649    
0.923283    0.000301    0.066114    0.010301    
0.851877    0.024928    0.096838    0.026357    
0.528438    0.142302    0.071537    0.257724    
0.296647    0.115284    0.062688    0.525382    
0.401193    0.235971    0.157675    0.205160    
0.309966    0.315367    0.145959    0.228708    
0.089761    0.287439    0.205359    0.417441    
Consensus sequence: VDHATTAATTAAAWHHB

Reverse complement motif
0.417441    0.287439    0.205359    0.089761    
0.309966    0.145959    0.315367    0.228708    
0.205160    0.235971    0.157675    0.401193    
0.525382    0.115284    0.062688    0.296647    
0.257724    0.142302    0.071537    0.528438    
0.026357    0.024928    0.096838    0.851877    
0.010301    0.000301    0.066114    0.923283    
0.980649    0.010886    0.007663    0.000802    
0.981397    0.004654    0.001294    0.012655    
0.012655    0.001294    0.004654    0.981397    
0.000802    0.007663    0.010886    0.980649    
0.923283    0.066114    0.000301    0.010301    
0.851877    0.096838    0.024928    0.026357    
0.119973    0.063061    0.196615    0.620351    
0.197171    0.195840    0.137749    0.469240    
0.251871    0.314740    0.201197    0.232192    
0.192127    0.300474    0.348816    0.158583    
Consensus sequence: VDHWTTTAATTAATHHV

Alignment:
VDHWTTTAATTAATHHV
----TTTACTAAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00169        Lmx1b                              Original Motif                          Reverse Complement                      Forward        4              10             0.006769       

Species: Mus musculus

Original motif
0.336931    0.220707    0.306671    0.135692    
0.251068    0.126246    0.394767    0.227919    
0.318914    0.086872    0.150663    0.443551    
0.368649    0.051170    0.092361    0.487819    
0.359682    0.088506    0.064771    0.487041    
0.019535    0.162692    0.015925    0.801848    
0.015902    0.024224    0.000652    0.959222    
0.974698    0.006086    0.002334    0.016882    
0.978085    0.001281    0.005421    0.015214    
0.015214    0.005421    0.001281    0.978085    
0.016882    0.002334    0.006086    0.974698    
0.959222    0.000652    0.024224    0.015902    
0.801848    0.015925    0.162692    0.019535    
0.242323    0.115688    0.116364    0.525625    
0.283782    0.097563    0.188384    0.430271    
0.252386    0.255982    0.135946    0.355686    
0.141430    0.249462    0.350759    0.258349    
Consensus sequence: VDWWWTTAATTAATDHB

Reverse complement motif
0.141430    0.350759    0.249462    0.258349    
0.355686    0.255982    0.135946    0.252386    
0.430271    0.097563    0.188384    0.283782    
0.525625    0.115688    0.116364    0.242323    
0.019535    0.015925    0.162692    0.801848    
0.015902    0.000652    0.024224    0.959222    
0.974698    0.002334    0.006086    0.016882    
0.978085    0.005421    0.001281    0.015214    
0.015214    0.001281    0.005421    0.978085    
0.016882    0.006086    0.002334    0.974698    
0.959222    0.024224    0.000652    0.015902    
0.801848    0.162692    0.015925    0.019535    
0.487041    0.088506    0.064771    0.359682    
0.487819    0.051170    0.092361    0.368649    
0.443551    0.086872    0.150663    0.318914    
0.251068    0.394767    0.126246    0.227919    
0.135692    0.220707    0.306671    0.336931    
Consensus sequence: BHDATTAATTAAWWWHB

Alignment:
BHDATTAATTAAWWWHB
---ATTTAGTAAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00177        Hoxd12                             Reverse Complement                      Reverse Complement                      Forward        6              10             0.007472       

Species: Mus musculus

Original motif
0.191103    0.352101    0.107327    0.349468    
0.402272    0.197071    0.150917    0.249740    
0.368769    0.193398    0.226932    0.210901    
0.257933    0.260778    0.380702    0.100587    
0.106950    0.067191    0.825021    0.000838    
0.001086    0.021564    0.000853    0.976497    
0.020082    0.968082    0.000327    0.011509    
0.118319    0.000920    0.879436    0.001326    
0.003172    0.002130    0.001866    0.992832    
0.922156    0.002796    0.000429    0.074620    
0.983503    0.000923    0.001373    0.014202    
0.982158    0.003892    0.000954    0.012996    
0.575374    0.149674    0.027141    0.247811    
0.191390    0.208793    0.100368    0.499449    
0.189094    0.369025    0.180904    0.260976    
0.265714    0.203403    0.179754    0.351130    
0.215918    0.141705    0.246047    0.396330    
Consensus sequence: HHDVGTCGTAAAAHHHD

Reverse complement motif
0.396330    0.141705    0.246047    0.215918    
0.351130    0.203403    0.179754    0.265714    
0.189094    0.180904    0.369025    0.260976    
0.499449    0.208793    0.100368    0.191390    
0.247811    0.149674    0.027141    0.575374    
0.012996    0.003892    0.000954    0.982158    
0.014202    0.000923    0.001373    0.983503    
0.074620    0.002796    0.000429    0.922156    
0.992832    0.002130    0.001866    0.003172    
0.118319    0.879436    0.000920    0.001326    
0.020082    0.000327    0.968082    0.011509    
0.976497    0.021564    0.000853    0.001086    
0.106950    0.825021    0.067191    0.000838    
0.257933    0.380702    0.260778    0.100587    
0.210901    0.193398    0.226932    0.368769    
0.249740    0.197071    0.150917    0.402272    
0.191103    0.107327    0.352101    0.349468    
Consensus sequence: DHDHTTTTACGACVDHD

Alignment:
DHDHTTTTACGACVDHD
-----TTTACTAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00135        Hoxc12                             Reverse Complement                      Reverse Complement                      Forward        6              10             0.007640       

Species: Mus musculus

Original motif
0.183093    0.256705    0.106645    0.453557    
0.293699    0.196292    0.123477    0.386533    
0.412013    0.124988    0.381422    0.081576    
0.195091    0.186106    0.527371    0.091431    
0.152495    0.041951    0.802926    0.002628    
0.001867    0.030137    0.001608    0.966389    
0.042259    0.939178    0.001204    0.017359    
0.130196    0.001627    0.865068    0.003109    
0.003366    0.001436    0.003067    0.992131    
0.922191    0.005824    0.000528    0.071457    
0.973219    0.001857    0.001299    0.023624    
0.979071    0.008898    0.002615    0.009416    
0.503130    0.138484    0.031998    0.326389    
0.337928    0.242816    0.070564    0.348692    
0.182884    0.251308    0.190482    0.375326    
0.307728    0.135074    0.240871    0.316326    
0.189821    0.425134    0.167065    0.217980    
Consensus sequence: HHRGGTCGTAAAWHBDH

Reverse complement motif
0.189821    0.167065    0.425134    0.217980    
0.316326    0.135074    0.240871    0.307728    
0.375326    0.251308    0.190482    0.182884    
0.348692    0.242816    0.070564    0.337928    
0.326389    0.138484    0.031998    0.503130    
0.009416    0.008898    0.002615    0.979071    
0.023624    0.001857    0.001299    0.973219    
0.071457    0.005824    0.000528    0.922191    
0.992131    0.001436    0.003067    0.003366    
0.130196    0.865068    0.001627    0.003109    
0.042259    0.001204    0.939178    0.017359    
0.966389    0.030137    0.001608    0.001867    
0.152495    0.802926    0.041951    0.002628    
0.195091    0.527371    0.186106    0.091431    
0.081576    0.124988    0.381422    0.412013    
0.386533    0.196292    0.123477    0.293699    
0.453557    0.256705    0.106645    0.183093    
Consensus sequence: DDVHWTTTACGACCKHH

Alignment:
DDVHWTTTACGACCKHH
-----TTTACTAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00117        Hoxd11                             Reverse Complement                      Reverse Complement                      Backward       3              10             0.008646       

Species: Mus musculus

Original motif
0.195240    0.299581    0.070392    0.434787    
0.383232    0.235789    0.118316    0.262663    
0.433734    0.150531    0.233498    0.182237    
0.318929    0.193275    0.329287    0.158509    
0.078189    0.058494    0.861977    0.001340    
0.001639    0.021863    0.001515    0.974983    
0.011232    0.978821    0.000755    0.009192    
0.171564    0.002240    0.824311    0.001885    
0.003418    0.002620    0.003016    0.990946    
0.839934    0.002566    0.000872    0.156628    
0.984574    0.001197    0.003120    0.011109    
0.979994    0.007524    0.001223    0.011259    
0.626288    0.164042    0.022338    0.187331    
0.276342    0.192595    0.122578    0.408484    
0.228871    0.351280    0.153929    0.265920    
0.249434    0.303271    0.170797    0.276498    
0.179262    0.157831    0.195784    0.467122    
Consensus sequence: HHDVGTCGTAAAAHHHD

Reverse complement motif
0.467122    0.157831    0.195784    0.179262    
0.249434    0.170797    0.303271    0.276498    
0.228871    0.153929    0.351280    0.265920    
0.408484    0.192595    0.122578    0.276342    
0.187331    0.164042    0.022338    0.626288    
0.011259    0.007524    0.001223    0.979994    
0.011109    0.001197    0.003120    0.984574    
0.156628    0.002566    0.000872    0.839934    
0.990946    0.002620    0.003016    0.003418    
0.171564    0.824311    0.002240    0.001885    
0.011232    0.000755    0.978821    0.009192    
0.974983    0.021863    0.001515    0.001639    
0.078189    0.861977    0.058494    0.001340    
0.318929    0.329287    0.193275    0.158509    
0.182237    0.150531    0.233498    0.433734    
0.262663    0.235789    0.118316    0.383232    
0.434787    0.299581    0.070392    0.195240    
Consensus sequence: DDDHTTTTACGACVDHH

Alignment:
DDDHTTTTACGACVDHH
-----TTTACTAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00142        Uncx4.1                            Reverse Complement                      Reverse Complement                      Forward        4              10             0.010097       

Species: Mus musculus

Original motif
0.304380    0.311795    0.268876    0.114949    
0.351118    0.211470    0.225202    0.212210    
0.231585    0.174454    0.127484    0.466477    
0.479229    0.157540    0.203780    0.159451    
0.625673    0.170623    0.111368    0.092336    
0.010242    0.148179    0.010210    0.831370    
0.009608    0.062829    0.000911    0.926652    
0.980815    0.008055    0.009383    0.001746    
0.980244    0.001172    0.005903    0.012681    
0.012681    0.005903    0.001172    0.980244    
0.001746    0.009383    0.008055    0.980815    
0.926652    0.000911    0.062829    0.009608    
0.831370    0.010210    0.148179    0.010242    
0.148058    0.361669    0.223929    0.266344    
0.178551    0.183863    0.465801    0.171785    
0.170980    0.366501    0.305559    0.156960    
0.125744    0.153063    0.556137    0.165056    
Consensus sequence: VDHDATTAATTAABVVG

Reverse complement motif
0.125744    0.556137    0.153063    0.165056    
0.170980    0.305559    0.366501    0.156960    
0.178551    0.465801    0.183863    0.171785    
0.148058    0.223929    0.361669    0.266344    
0.010242    0.010210    0.148179    0.831370    
0.009608    0.000911    0.062829    0.926652    
0.980815    0.009383    0.008055    0.001746    
0.980244    0.005903    0.001172    0.012681    
0.012681    0.001172    0.005903    0.980244    
0.001746    0.008055    0.009383    0.980815    
0.926652    0.062829    0.000911    0.009608    
0.831370    0.148179    0.010210    0.010242    
0.092336    0.170623    0.111368    0.625673    
0.159451    0.157540    0.203780    0.479229    
0.466477    0.174454    0.127484    0.231585    
0.212210    0.211470    0.225202    0.351118    
0.304380    0.268876    0.311795    0.114949    
Consensus sequence: CVVBTTAATTAATDHDV

Alignment:
CVVBTTAATTAATDHDV
---TTTACTAAAT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00235        Hoxc11                             Reverse Complement                      Reverse Complement                      Forward        5              10             0.010176       

Species: Mus musculus

Original motif
0.233269    0.248491    0.135443    0.382797    
0.530699    0.117734    0.196458    0.155109    
0.520162    0.128349    0.129047    0.222442    
0.383288    0.142763    0.265367    0.208581    
0.082604    0.036330    0.879729    0.001337    
0.001490    0.025603    0.000959    0.971949    
0.011271    0.977559    0.000430    0.010739    
0.234170    0.001531    0.762912    0.001387    
0.002139    0.001352    0.004590    0.991918    
0.858371    0.001955    0.000717    0.138958    
0.981016    0.000748    0.001915    0.016321    
0.985345    0.003895    0.001793    0.008967    
0.542364    0.130700    0.106606    0.220330    
0.222953    0.268192    0.191329    0.317526    
0.353019    0.168556    0.262332    0.216093    
0.196584    0.119005    0.352701    0.331710    
Consensus sequence: HAADGTCGTAAAAHDD

Reverse complement motif
0.196584    0.352701    0.119005    0.331710    
0.216093    0.168556    0.262332    0.353019    
0.317526    0.268192    0.191329    0.222953    
0.220330    0.130700    0.106606    0.542364    
0.008967    0.003895    0.001793    0.985345    
0.016321    0.000748    0.001915    0.981016    
0.138958    0.001955    0.000717    0.858371    
0.991918    0.001352    0.004590    0.002139    
0.234170    0.762912    0.001531    0.001387    
0.011271    0.000430    0.977559    0.010739    
0.971949    0.025603    0.000959    0.001490    
0.082604    0.879729    0.036330    0.001337    
0.208581    0.142763    0.265367    0.383288    
0.222442    0.128349    0.129047    0.520162    
0.155109    0.117734    0.196458    0.530699    
0.382797    0.248491    0.135443    0.233269    
Consensus sequence: HDHTTTTACGACDTTH

Alignment:
HDHTTTTACGACDTTH
----TTTACTAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00246        Hoxa11                             Reverse Complement                      Reverse Complement                      Forward        5              10             0.010591       

Species: Mus musculus

Original motif
0.250495    0.214554    0.138272    0.396679    
0.492850    0.123424    0.196803    0.186923    
0.540281    0.151603    0.140529    0.167586    
0.428463    0.099563    0.270775    0.201200    
0.102254    0.050731    0.845038    0.001977    
0.001884    0.019008    0.001029    0.978079    
0.016931    0.973797    0.000596    0.008676    
0.258728    0.001705    0.738135    0.001431    
0.003545    0.001680    0.003370    0.991405    
0.832666    0.002250    0.000866    0.164218    
0.983610    0.001278    0.002546    0.012566    
0.980677    0.005645    0.001242    0.012435    
0.599219    0.090422    0.088183    0.222176    
0.212685    0.399896    0.114218    0.273202    
0.287588    0.220283    0.249419    0.242710    
0.152138    0.145873    0.312609    0.389380    
Consensus sequence: HDADGTCGTAAAAHDD

Reverse complement motif
0.389380    0.145873    0.312609    0.152138    
0.242710    0.220283    0.249419    0.287588    
0.212685    0.114218    0.399896    0.273202    
0.222176    0.090422    0.088183    0.599219    
0.012435    0.005645    0.001242    0.980677    
0.012566    0.001278    0.002546    0.983610    
0.164218    0.002250    0.000866    0.832666    
0.991405    0.001680    0.003370    0.003545    
0.258728    0.738135    0.001705    0.001431    
0.016931    0.000596    0.973797    0.008676    
0.978079    0.019008    0.001029    0.001884    
0.102254    0.845038    0.050731    0.001977    
0.201200    0.099563    0.270775    0.428463    
0.167586    0.151603    0.140529    0.540281    
0.186923    0.123424    0.196803    0.492850    
0.396679    0.214554    0.138272    0.250495    
Consensus sequence: DDDTTTTACGACDTDH

Alignment:
DDDTTTTACGACDTDH
----TTTACTAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 29		Motif name: Motif 29

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: ATTTATTGCTA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TAGCAATAAAT


************************************************************************ Best Matches for Motif ID 29 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00104        Hmx1                               Reverse Complement                      Original Motif                          Forward        3              11             0.001154       

Species: Mus musculus

Original motif
0.337664    0.289755    0.240849    0.131733    
0.174054    0.429800    0.269860    0.126285    
0.361513    0.293469    0.259412    0.085606    
0.688902    0.063629    0.159397    0.088071    
0.130715    0.078148    0.720459    0.070678    
0.007798    0.951453    0.001184    0.039564    
0.869502    0.001154    0.122137    0.007207    
0.882397    0.105995    0.002423    0.009185    
0.004826    0.003049    0.001449    0.990676    
0.017571    0.055020    0.000547    0.926863    
0.950722    0.002312    0.012883    0.034083    
0.883290    0.014130    0.042169    0.060412    
0.251540    0.149359    0.169226    0.429875    
0.140326    0.224608    0.501552    0.133514    
0.384995    0.294702    0.277751    0.042551    
0.327315    0.131428    0.235873    0.305384    
0.177654    0.200822    0.219372    0.402152    
Consensus sequence: VVVAGCAATTAADGVDB

Reverse complement motif
0.402152    0.200822    0.219372    0.177654    
0.305384    0.131428    0.235873    0.327315    
0.042551    0.294702    0.277751    0.384995    
0.140326    0.501552    0.224608    0.133514    
0.429875    0.149359    0.169226    0.251540    
0.060412    0.014130    0.042169    0.883290    
0.034083    0.002312    0.012883    0.950722    
0.926863    0.055020    0.000547    0.017571    
0.990676    0.003049    0.001449    0.004826    
0.009185    0.105995    0.002423    0.882397    
0.007207    0.001154    0.122137    0.869502    
0.007798    0.001184    0.951453    0.039564    
0.130715    0.720459    0.078148    0.070678    
0.088071    0.063629    0.159397    0.688902    
0.085606    0.293469    0.259412    0.361513    
0.174054    0.269860    0.429800    0.126285    
0.131733    0.289755    0.240849    0.337664    
Consensus sequence: VDBCDTTAATTGCTBVB

Alignment:
VVVAGCAATTAADGVDB
--TAGCAATAAAT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00155        Hmx2                               Reverse Complement                      Original Motif                          Forward        3              11             0.005441       

Species: Mus musculus

Original motif
0.496013    0.201439    0.234082    0.068466    
0.187731    0.442491    0.232786    0.136992    
0.546269    0.190140    0.171225    0.092365    
0.766900    0.055660    0.121480    0.055959    
0.166703    0.152146    0.573689    0.107463    
0.008586    0.974989    0.003194    0.013231    
0.847648    0.001099    0.146478    0.004775    
0.851907    0.131324    0.006893    0.009877    
0.005053    0.003719    0.001092    0.990135    
0.015092    0.055361    0.000333    0.929213    
0.934792    0.001369    0.011244    0.052595    
0.890982    0.010911    0.022703    0.075405    
0.360898    0.185917    0.109871    0.343315    
0.248362    0.207536    0.407845    0.136257    
0.413889    0.266826    0.266667    0.052618    
0.472173    0.104750    0.246154    0.176923    
0.094095    0.071488    0.092888    0.741528    
Consensus sequence: VVAAGCAATTAAHVVDT

Reverse complement motif
0.741528    0.071488    0.092888    0.094095    
0.176923    0.104750    0.246154    0.472173    
0.052618    0.266826    0.266667    0.413889    
0.248362    0.407845    0.207536    0.136257    
0.343315    0.185917    0.109871    0.360898    
0.075405    0.010911    0.022703    0.890982    
0.052595    0.001369    0.011244    0.934792    
0.929213    0.055361    0.000333    0.015092    
0.990135    0.003719    0.001092    0.005053    
0.009877    0.131324    0.006893    0.851907    
0.004775    0.001099    0.146478    0.847648    
0.008586    0.003194    0.974989    0.013231    
0.166703    0.573689    0.152146    0.107463    
0.055959    0.055660    0.121480    0.766900    
0.092365    0.190140    0.171225    0.546269    
0.187731    0.232786    0.442491    0.136992    
0.068466    0.201439    0.234082    0.496013    
Consensus sequence: ADBVHTTAATTGCTTVB

Alignment:
VVAAGCAATTAAHVVDT
--TAGCAATAAAT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00157        Hmx3                               Reverse Complement                      Original Motif                          Forward        3              11             0.006246       

Species: Mus musculus

Original motif
0.493883    0.207908    0.206555    0.091654    
0.124338    0.490519    0.252638    0.132506    
0.482613    0.229280    0.188509    0.099597    
0.758821    0.067165    0.111206    0.062809    
0.154132    0.098232    0.594074    0.153562    
0.015565    0.938529    0.001667    0.044239    
0.835485    0.001163    0.156926    0.006426    
0.869937    0.118961    0.001666    0.009435    
0.005815    0.004470    0.001031    0.988683    
0.014066    0.042296    0.000378    0.943259    
0.924765    0.001168    0.024126    0.049941    
0.873425    0.020468    0.034636    0.071470    
0.387156    0.148327    0.115500    0.349017    
0.256863    0.183824    0.381900    0.177413    
0.472131    0.208576    0.255773    0.063519    
0.524326    0.109150    0.180486    0.186038    
0.125721    0.103316    0.133298    0.637666    
Consensus sequence: VBVAGCAATTAAHVVAT

Reverse complement motif
0.637666    0.103316    0.133298    0.125721    
0.186038    0.109150    0.180486    0.524326    
0.063519    0.208576    0.255773    0.472131    
0.256863    0.381900    0.183824    0.177413    
0.349017    0.148327    0.115500    0.387156    
0.071470    0.020468    0.034636    0.873425    
0.049941    0.001168    0.024126    0.924765    
0.943259    0.042296    0.000378    0.014066    
0.988683    0.004470    0.001031    0.005815    
0.009435    0.118961    0.001666    0.869937    
0.006426    0.001163    0.156926    0.835485    
0.015565    0.001667    0.938529    0.044239    
0.154132    0.594074    0.098232    0.153562    
0.062809    0.067165    0.111206    0.758821    
0.099597    0.229280    0.188509    0.482613    
0.124338    0.252638    0.490519    0.132506    
0.091654    0.207908    0.206555    0.493883    
Consensus sequence: ATBVHTTAATTGCTBBB

Alignment:
VBVAGCAATTAAHVVAT
--TAGCAATAAAT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00263        Hoxb8                              Reverse Complement                      Original Motif                          Backward       4              11             0.007422       

Species: Mus musculus

Original motif
0.395439    0.233274    0.085406    0.285882    
0.169037    0.428782    0.301430    0.100751    
0.176714    0.358169    0.199215    0.265903    
0.227183    0.169543    0.343798    0.259476    
0.112609    0.030442    0.819979    0.036970    
0.014892    0.617477    0.003187    0.364444    
0.781596    0.159728    0.015153    0.043523    
0.969644    0.010155    0.012495    0.007707    
0.015401    0.004393    0.001778    0.978428    
0.190099    0.006299    0.002977    0.800624    
0.960962    0.004895    0.005559    0.028584    
0.788404    0.040876    0.023563    0.147158    
0.098061    0.235899    0.071056    0.594983    
0.596589    0.139706    0.131891    0.131815    
0.402309    0.134941    0.319039    0.143711    
0.452002    0.102421    0.123562    0.322014    
Consensus sequence: HVBDGYAATTAATADW

Reverse complement motif
0.322014    0.102421    0.123562    0.452002    
0.143711    0.134941    0.319039    0.402309    
0.131815    0.139706    0.131891    0.596589    
0.594983    0.235899    0.071056    0.098061    
0.147158    0.040876    0.023563    0.788404    
0.028584    0.004895    0.005559    0.960962    
0.800624    0.006299    0.002977    0.190099    
0.978428    0.004393    0.001778    0.015401    
0.007707    0.010155    0.012495    0.969644    
0.043523    0.159728    0.015153    0.781596    
0.014892    0.003187    0.617477    0.364444    
0.112609    0.819979    0.030442    0.036970    
0.227183    0.343798    0.169543    0.259476    
0.176714    0.199215    0.358169    0.265903    
0.169037    0.301430    0.428782    0.100751    
0.285882    0.233274    0.085406    0.395439    
Consensus sequence: WDTATTAATTKCHBVH

Alignment:
HVBDGYAATTAATADW
--TAGCAATAAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00133        Cdx2                               Reverse Complement                      Original Motif                          Backward       4              11             0.010138       

Species: Mus musculus

Original motif
0.314704    0.147028    0.248638    0.289630    
0.358628    0.179740    0.325491    0.136141    
0.298646    0.303363    0.300590    0.097401    
0.188478    0.055557    0.664045    0.091921    
0.171259    0.033449    0.790542    0.004751    
0.002849    0.464940    0.000596    0.531615    
0.576948    0.399193    0.001565    0.022295    
0.968872    0.001511    0.028582    0.001035    
0.006970    0.003535    0.000486    0.989010    
0.878078    0.003399    0.000389    0.118134    
0.951183    0.000842    0.001555    0.046419    
0.939504    0.006021    0.000818    0.053657    
0.567732    0.151536    0.050535    0.230197    
0.172713    0.264434    0.122553    0.440299    
0.142175    0.107265    0.258247    0.492313    
0.215178    0.302818    0.133613    0.348391    
Consensus sequence: DVVGGYMATAAAAHKH

Reverse complement motif
0.348391    0.302818    0.133613    0.215178    
0.492313    0.107265    0.258247    0.142175    
0.440299    0.264434    0.122553    0.172713    
0.230197    0.151536    0.050535    0.567732    
0.053657    0.006021    0.000818    0.939504    
0.046419    0.000842    0.001555    0.951183    
0.118134    0.003399    0.000389    0.878078    
0.989010    0.003535    0.000486    0.006970    
0.001035    0.001511    0.028582    0.968872    
0.022295    0.399193    0.001565    0.576948    
0.531615    0.464940    0.000596    0.002849    
0.171259    0.790542    0.033449    0.004751    
0.188478    0.664045    0.055557    0.091921    
0.298646    0.300590    0.303363    0.097401    
0.136141    0.179740    0.325491    0.358628    
0.289630    0.147028    0.248638    0.314704    
Consensus sequence: HRHTTTTATYMCCVBD

Alignment:
DVVGGYMATAAAAHKH
--TAGCAATAAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00207        Hoxb9                              Reverse Complement                      Original Motif                          Backward       5              11             0.010741       

Species: Mus musculus

Original motif
0.369205    0.191401    0.373182    0.066211    
0.357429    0.160246    0.408701    0.073624    
0.576965    0.069294    0.310696    0.043045    
0.103797    0.127691    0.646641    0.121871    
0.023188    0.657132    0.005598    0.314082    
0.420260    0.543925    0.009350    0.026464    
0.944117    0.003851    0.047375    0.004658    
0.007642    0.006158    0.004106    0.982094    
0.728623    0.003283    0.002505    0.265589    
0.958302    0.002642    0.002614    0.036442    
0.969909    0.004265    0.002650    0.023176    
0.869075    0.011516    0.028466    0.090943    
0.336102    0.198102    0.075230    0.390566    
0.203557    0.271818    0.098338    0.426287    
0.226605    0.448090    0.146026    0.179278    
0.252426    0.177812    0.357334    0.212429    
Consensus sequence: VRRGCMATAAAAHHHD

Reverse complement motif
0.252426    0.357334    0.177812    0.212429    
0.226605    0.146026    0.448090    0.179278    
0.426287    0.271818    0.098338    0.203557    
0.390566    0.198102    0.075230    0.336102    
0.090943    0.011516    0.028466    0.869075    
0.023176    0.004265    0.002650    0.969909    
0.036442    0.002642    0.002614    0.958302    
0.265589    0.003283    0.002505    0.728623    
0.982094    0.006158    0.004106    0.007642    
0.004658    0.003851    0.047375    0.944117    
0.420260    0.009350    0.543925    0.026464    
0.023188    0.005598    0.657132    0.314082    
0.103797    0.646641    0.127691    0.121871    
0.043045    0.069294    0.310696    0.576965    
0.357429    0.408701    0.160246    0.073624    
0.369205    0.373182    0.191401    0.066211    
Consensus sequence: HDHHTTTTATRGCKMV

Alignment:
VRRGCMATAAAAHHHD
-TAGCAATAAAT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Reverse Complement                      Original Motif                          Forward        4              11             0.013818       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
HAMAAHCAATTAABHH
---TAGCAATAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_primary                       Reverse Complement                      Original Motif                          Forward        10             11             0.014251       

Species: Mus musculus

Original motif
0.218345    0.231533    0.152528    0.397594    
0.264604    0.126115    0.320860    0.288421    
0.117304    0.186844    0.172946    0.522906    
0.111929    0.277908    0.409084    0.201079    
0.343319    0.311376    0.123612    0.221692    
0.193354    0.374280    0.157338    0.275028    
0.166348    0.578991    0.130872    0.123789    
0.006937    0.931183    0.046809    0.015072    
0.255581    0.289587    0.125513    0.329319    
0.002582    0.012615    0.002782    0.982021    
0.850584    0.007973    0.140639    0.000803    
0.037792    0.002285    0.957277    0.002646    
0.009414    0.921481    0.001636    0.067469    
0.943403    0.000980    0.042401    0.013216    
0.991166    0.002931    0.003540    0.002364    
0.003651    0.987110    0.001106    0.008133    
0.208873    0.369705    0.319129    0.102292    
0.322535    0.186617    0.374187    0.116660    
0.326738    0.179486    0.226374    0.267402    
0.299697    0.185329    0.133025    0.381949    
0.300824    0.266836    0.096437    0.335904    
0.418443    0.191068    0.127183    0.263306    
0.386727    0.204062    0.126050    0.283161    
Consensus sequence: HDTBHHCCHTAGCAACVVDHHHH

Reverse complement motif
0.283161    0.204062    0.126050    0.386727    
0.263306    0.191068    0.127183    0.418443    
0.335904    0.266836    0.096437    0.300824    
0.381949    0.185329    0.133025    0.299697    
0.267402    0.179486    0.226374    0.326738    
0.322535    0.374187    0.186617    0.116660    
0.208873    0.319129    0.369705    0.102292    
0.003651    0.001106    0.987110    0.008133    
0.002364    0.002931    0.003540    0.991166    
0.013216    0.000980    0.042401    0.943403    
0.009414    0.001636    0.921481    0.067469    
0.037792    0.957277    0.002285    0.002646    
0.000803    0.007973    0.140639    0.850584    
0.982021    0.012615    0.002782    0.002582    
0.329319    0.289587    0.125513    0.255581    
0.006937    0.046809    0.931183    0.015072    
0.166348    0.130872    0.578991    0.123789    
0.193354    0.157338    0.374280    0.275028    
0.221692    0.311376    0.123612    0.343319    
0.111929    0.409084    0.277908    0.201079    
0.522906    0.186844    0.172946    0.117304    
0.264604    0.320860    0.126115    0.288421    
0.397594    0.231533    0.152528    0.218345    
Consensus sequence: HHHHDVVGTTGCTAHGGDHBAHH

Alignment:
HDTBHHCCHTAGCAACVVDHHHH
---------TAGCAATAAAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00180        Hoxd13                             Original Motif                          Reverse Complement                      Backward       2              11             0.014350       

Species: Mus musculus

Original motif
0.279189    0.316791    0.190404    0.213616    
0.297705    0.175638    0.191020    0.335637    
0.333485    0.203858    0.174034    0.288623    
0.046444    0.540349    0.083237    0.329969    
0.016780    0.648667    0.003870    0.330682    
0.679959    0.116873    0.002745    0.200422    
0.936496    0.002013    0.026876    0.034615    
0.004741    0.008734    0.003861    0.982665    
0.904624    0.000869    0.005345    0.089162    
0.967883    0.002295    0.001003    0.028819    
0.980087    0.004768    0.002887    0.012258    
0.898523    0.041633    0.022776    0.037069    
0.246903    0.292446    0.069240    0.391411    
0.192528    0.300908    0.105655    0.400908    
0.247610    0.343317    0.190760    0.218313    
0.246702    0.253595    0.176298    0.323404    
Consensus sequence: HDHYYAATAAAAHHHH

Reverse complement motif
0.323404    0.253595    0.176298    0.246702    
0.247610    0.190760    0.343317    0.218313    
0.400908    0.300908    0.105655    0.192528    
0.391411    0.292446    0.069240    0.246903    
0.037069    0.041633    0.022776    0.898523    
0.012258    0.004768    0.002887    0.980087    
0.028819    0.002295    0.001003    0.967883    
0.089162    0.000869    0.005345    0.904624    
0.982665    0.008734    0.003861    0.004741    
0.034615    0.002013    0.026876    0.936496    
0.200422    0.116873    0.002745    0.679959    
0.016780    0.003870    0.648667    0.330682    
0.046444    0.083237    0.540349    0.329969    
0.288623    0.203858    0.174034    0.333485    
0.335637    0.175638    0.191020    0.297705    
0.279189    0.190404    0.316791    0.213616    
Consensus sequence: HDHHTTTTATTKKHDD

Alignment:
HDHHTTTTATTKKHDD
----ATTTATTGCTA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00168        Hoxd8                              Reverse Complement                      Reverse Complement                      Forward        1              11             0.016911       

Species: Mus musculus

Original motif
0.125413    0.120907    0.200343    0.553338    
0.604959    0.122401    0.108041    0.164599    
0.599593    0.081965    0.204643    0.113798    
0.330015    0.048408    0.286845    0.334731    
0.068575    0.230328    0.014323    0.686773    
0.723431    0.122426    0.030752    0.123391    
0.916525    0.021756    0.022396    0.039322    
0.035230    0.013256    0.012130    0.939384    
0.047433    0.010794    0.004827    0.936946    
0.952666    0.003486    0.012288    0.031560    
0.794645    0.051496    0.022269    0.131590    
0.070711    0.089139    0.049811    0.790338    
0.354541    0.041255    0.466791    0.137412    
0.243842    0.065460    0.563307    0.127391    
0.186363    0.499738    0.076726    0.237174    
0.187640    0.091571    0.135427    0.585362    
0.364787    0.207143    0.182549    0.245520    
Consensus sequence: TAADTAATTAATRGHTH

Reverse complement motif
0.245520    0.207143    0.182549    0.364787    
0.585362    0.091571    0.135427    0.187640    
0.186363    0.076726    0.499738    0.237174    
0.243842    0.563307    0.065460    0.127391    
0.354541    0.466791    0.041255    0.137412    
0.790338    0.089139    0.049811    0.070711    
0.131590    0.051496    0.022269    0.794645    
0.031560    0.003486    0.012288    0.952666    
0.936946    0.010794    0.004827    0.047433    
0.939384    0.013256    0.012130    0.035230    
0.039322    0.021756    0.022396    0.916525    
0.123391    0.122426    0.030752    0.723431    
0.686773    0.230328    0.014323    0.068575    
0.334731    0.048408    0.286845    0.330015    
0.113798    0.081965    0.204643    0.599593    
0.164599    0.122401    0.108041    0.604959    
0.553338    0.120907    0.200343    0.125413    
Consensus sequence: HADCMATTAATTADTTA

Alignment:
HADCMATTAATTADTTA
TAGCAATAAAT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 30		Motif name: Motif 30

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTGCTGCTTTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAAAGCAGCAA


************************************************************************ Best Matches for Motif ID 30 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00027        Osr1_primary                       Original Motif                          Reverse Complement                      Backward       4              11             0.007707       

Species: Mus musculus

Original motif
0.260366    0.252887    0.224273    0.262474    
0.239931    0.233883    0.190643    0.335543    
0.257637    0.188706    0.242480    0.311177    
0.323833    0.165978    0.161144    0.349046    
0.824983    0.119267    0.027014    0.028736    
0.009055    0.974108    0.000889    0.015947    
0.659219    0.001516    0.337361    0.001905    
0.002965    0.001643    0.993070    0.002321    
0.047380    0.001758    0.009593    0.941269    
0.974073    0.000741    0.023187    0.001999    
0.006256    0.001341    0.990114    0.002290    
0.001372    0.921382    0.010719    0.066527    
0.449788    0.160658    0.105504    0.284050    
0.392727    0.304490    0.187448    0.115335    
0.361758    0.209213    0.175805    0.253224    
0.420972    0.108912    0.289406    0.180710    
Consensus sequence: HHDHACRGTAGCHVHD

Reverse complement motif
0.180710    0.108912    0.289406    0.420972    
0.253224    0.209213    0.175805    0.361758    
0.115335    0.304490    0.187448    0.392727    
0.284050    0.160658    0.105504    0.449788    
0.001372    0.010719    0.921382    0.066527    
0.006256    0.990114    0.001341    0.002290    
0.001999    0.000741    0.023187    0.974073    
0.941269    0.001758    0.009593    0.047380    
0.002965    0.993070    0.001643    0.002321    
0.001905    0.001516    0.337361    0.659219    
0.009055    0.000889    0.974108    0.015947    
0.028736    0.119267    0.027014    0.824983    
0.349046    0.165978    0.161144    0.323833    
0.311177    0.188706    0.242480    0.257637    
0.335543    0.233883    0.190643    0.239931    
0.262474    0.252887    0.224273    0.260366    
Consensus sequence: DHBHGCTACKGTHDHH

Alignment:
DHBHGCTACKGTHDHH
--TTGCTGCTTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00044        Mafk_secondary                     Original Motif                          Reverse Complement                      Backward       3              11             0.011344       

Species: Mus musculus

Original motif
0.289934    0.244974    0.342021    0.123071    
0.317105    0.250774    0.206169    0.225952    
0.589909    0.146264    0.176464    0.087364    
0.805648    0.031025    0.116712    0.046614    
0.859239    0.012630    0.068740    0.059391    
0.877855    0.017270    0.013520    0.091354    
0.822443    0.051458    0.029433    0.096666    
0.175032    0.076822    0.256419    0.491726    
0.028231    0.131221    0.031440    0.809107    
0.050608    0.039418    0.847824    0.062150    
0.041983    0.868232    0.042708    0.047077    
0.757931    0.111841    0.090214    0.040013    
0.451956    0.283644    0.033652    0.230747    
0.058765    0.285975    0.414514    0.240747    
0.391919    0.133805    0.407813    0.066464    
Consensus sequence: VHAAAAADTGCAHBR

Reverse complement motif
0.391919    0.407813    0.133805    0.066464    
0.058765    0.414514    0.285975    0.240747    
0.230747    0.283644    0.033652    0.451956    
0.040013    0.111841    0.090214    0.757931    
0.041983    0.042708    0.868232    0.047077    
0.050608    0.847824    0.039418    0.062150    
0.809107    0.131221    0.031440    0.028231    
0.491726    0.076822    0.256419    0.175032    
0.096666    0.051458    0.029433    0.822443    
0.091354    0.017270    0.013520    0.877855    
0.059391    0.012630    0.068740    0.859239    
0.046614    0.031025    0.116712    0.805648    
0.087364    0.146264    0.176464    0.589909    
0.225952    0.250774    0.206169    0.317105    
0.289934    0.342021    0.244974    0.123071    
Consensus sequence: MBHTGCADTTTTTHV

Alignment:
MBHTGCADTTTTTHV
--TTGCTGCTTTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_primary                       Original Motif                          Reverse Complement                      Forward        3              11             0.011717       

Species: Mus musculus

Original motif
0.295210    0.230759    0.178832    0.295199    
0.286163    0.186772    0.186150    0.340915    
0.287577    0.235045    0.329453    0.147924    
0.263264    0.191325    0.081978    0.463433    
0.839420    0.118123    0.018788    0.023669    
0.005488    0.984397    0.000830    0.009284    
0.660134    0.001532    0.336574    0.001760    
0.003020    0.001773    0.993144    0.002063    
0.039664    0.001060    0.005054    0.954222    
0.980339    0.000636    0.016776    0.002249    
0.003849    0.001418    0.992166    0.002568    
0.000858    0.950172    0.007228    0.041743    
0.342840    0.230712    0.133570    0.292878    
0.342486    0.316980    0.167294    0.173240    
0.362426    0.178913    0.146709    0.311952    
0.266586    0.140406    0.435643    0.157365    
Consensus sequence: HHVHACRGTAGCHHHD

Reverse complement motif
0.266586    0.435643    0.140406    0.157365    
0.311952    0.178913    0.146709    0.362426    
0.173240    0.316980    0.167294    0.342486    
0.292878    0.230712    0.133570    0.342840    
0.000858    0.007228    0.950172    0.041743    
0.003849    0.992166    0.001418    0.002568    
0.002249    0.000636    0.016776    0.980339    
0.954222    0.001060    0.005054    0.039664    
0.003020    0.993144    0.001773    0.002063    
0.001760    0.001532    0.336574    0.660134    
0.005488    0.000830    0.984397    0.009284    
0.023669    0.118123    0.018788    0.839420    
0.463433    0.191325    0.081978    0.263264    
0.287577    0.329453    0.235045    0.147924    
0.340915    0.186772    0.186150    0.286163    
0.295199    0.230759    0.178832    0.295210    
Consensus sequence: HHHHGCTACKGTHVHH

Alignment:
HHHHGCTACKGTHVHH
--TTGCTGCTTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Original Motif                          Original Motif                          Forward        5              11             0.014992       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
HAAWDTGCTGACDWARH
----TTGCTGCTTTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00037        Zfp105_primary                     Original Motif                          Reverse Complement                      Backward       2              11             0.020418       

Species: Mus musculus

Original motif
0.363104    0.182807    0.145232    0.308856    
0.419707    0.133742    0.222546    0.224005    
0.164481    0.418263    0.052397    0.364858    
0.715575    0.117639    0.064914    0.101872    
0.883836    0.026985    0.032584    0.056596    
0.558797    0.151280    0.033120    0.256803    
0.267037    0.403488    0.026746    0.302729    
0.939762    0.013627    0.034579    0.012032    
0.897072    0.009878    0.035642    0.057408    
0.305904    0.516040    0.055311    0.122746    
0.880940    0.027958    0.048350    0.042752    
0.710082    0.052464    0.040250    0.197204    
0.246712    0.125155    0.318627    0.309506    
0.429749    0.181755    0.176892    0.211603    
0.339643    0.097216    0.355250    0.207891    
Consensus sequence: HDYAAAHAAMAADHD

Reverse complement motif
0.339643    0.355250    0.097216    0.207891    
0.211603    0.181755    0.176892    0.429749    
0.246712    0.318627    0.125155    0.309506    
0.197204    0.052464    0.040250    0.710082    
0.042752    0.027958    0.048350    0.880940    
0.305904    0.055311    0.516040    0.122746    
0.057408    0.009878    0.035642    0.897072    
0.012032    0.013627    0.034579    0.939762    
0.267037    0.026746    0.403488    0.302729    
0.256803    0.151280    0.033120    0.558797    
0.056596    0.026985    0.032584    0.883836    
0.101872    0.117639    0.064914    0.715575    
0.164481    0.052397    0.418263    0.364858    
0.224005    0.133742    0.222546    0.419707    
0.308856    0.182807    0.145232    0.363104    
Consensus sequence: HHHTTRTTDTTTKDH

Alignment:
HHHTTRTTDTTTKDH
---TTGCTGCTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00057        Zic2_secondary                     Original Motif                          Reverse Complement                      Forward        5              11             0.021182       

Species: Mus musculus

Original motif
0.201522    0.336845    0.183740    0.277892    
0.238705    0.354378    0.165332    0.241585    
0.350858    0.031427    0.308482    0.309233    
0.104423    0.870794    0.018676    0.006107    
0.313246    0.259944    0.277570    0.149241    
0.003590    0.973377    0.002520    0.020513    
0.899716    0.025489    0.015458    0.059336    
0.049224    0.006415    0.938214    0.006147    
0.002021    0.859631    0.007903    0.130445    
0.772818    0.002659    0.187334    0.037190    
0.008456    0.015170    0.594695    0.381679    
0.004118    0.009188    0.961506    0.025188    
0.367151    0.230955    0.204475    0.197419    
0.267508    0.193660    0.430070    0.108762    
0.444449    0.099127    0.212182    0.244241    
Consensus sequence: HHDCVCAGCAKGVVD

Reverse complement motif
0.244241    0.099127    0.212182    0.444449    
0.267508    0.430070    0.193660    0.108762    
0.197419    0.230955    0.204475    0.367151    
0.004118    0.961506    0.009188    0.025188    
0.008456    0.594695    0.015170    0.381679    
0.037190    0.002659    0.187334    0.772818    
0.002021    0.007903    0.859631    0.130445    
0.049224    0.938214    0.006415    0.006147    
0.059336    0.025489    0.015458    0.899716    
0.003590    0.002520    0.973377    0.020513    
0.149241    0.259944    0.277570    0.313246    
0.104423    0.018676    0.870794    0.006107    
0.309233    0.031427    0.308482    0.350858    
0.238705    0.165332    0.354378    0.241585    
0.201522    0.183740    0.336845    0.277892    
Consensus sequence: DVBCYTGCTGBGDDD

Alignment:
DVBCYTGCTGBGDDD
----TTGCTGCTTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Original Motif                          Reverse Complement                      Backward       2              11             0.024139       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
HHBTTAATTGDTTYTH
----TTGCTGCTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_primary                      Reverse Complement                      Reverse Complement                      Backward       9              11             0.024174       

Species: Mus musculus

Original motif
0.397468    0.109792    0.196359    0.296381    
0.102928    0.480888    0.250249    0.165936    
0.141925    0.173586    0.377365    0.307124    
0.337385    0.368225    0.188518    0.105872    
0.354789    0.067393    0.345343    0.232475    
0.299392    0.109745    0.215552    0.375311    
0.242937    0.170264    0.189245    0.397554    
0.461680    0.013180    0.358677    0.166463    
0.067089    0.063048    0.008045    0.861819    
0.431756    0.128671    0.436022    0.003551    
0.006559    0.001814    0.988272    0.003355    
0.012929    0.983600    0.001468    0.002003    
0.018768    0.000766    0.976433    0.004033    
0.003776    0.005554    0.002991    0.987679    
0.002737    0.981589    0.009028    0.006646    
0.126509    0.273800    0.413161    0.186530    
0.100613    0.337225    0.212034    0.350128    
0.123741    0.284683    0.060914    0.530661    
0.204454    0.143533    0.100462    0.551551    
0.202290    0.482197    0.148368    0.167145    
0.191625    0.101330    0.607860    0.099185    
0.507546    0.086532    0.219554    0.186368    
Consensus sequence: DBBVDDDRTRGCGTCBBYTHGA

Reverse complement motif
0.186368    0.086532    0.219554    0.507546    
0.191625    0.607860    0.101330    0.099185    
0.202290    0.148368    0.482197    0.167145    
0.551551    0.143533    0.100462    0.204454    
0.530661    0.284683    0.060914    0.123741    
0.350128    0.337225    0.212034    0.100613    
0.126509    0.413161    0.273800    0.186530    
0.002737    0.009028    0.981589    0.006646    
0.987679    0.005554    0.002991    0.003776    
0.018768    0.976433    0.000766    0.004033    
0.012929    0.001468    0.983600    0.002003    
0.006559    0.988272    0.001814    0.003355    
0.431756    0.436022    0.128671    0.003551    
0.861819    0.063048    0.008045    0.067089    
0.166463    0.013180    0.358677    0.461680    
0.397554    0.170264    0.189245    0.242937    
0.375311    0.109745    0.215552    0.299392    
0.232475    0.067393    0.345343    0.354789    
0.337385    0.188518    0.368225    0.105872    
0.141925    0.377365    0.173586    0.307124    
0.102928    0.250249    0.480888    0.165936    
0.296381    0.109792    0.196359    0.397468    
Consensus sequence: TCDAMVBGACGCMAKDDDVBBD

Alignment:
TCDAMVBGACGCMAKDDDVBBD
---AAAAGCAGCAA--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00102        Zic1_secondary                     Original Motif                          Reverse Complement                      Forward        5              11             0.024518       

Species: Mus musculus

Original motif
0.161683    0.405114    0.171743    0.261460    
0.259478    0.357988    0.146793    0.235741    
0.371334    0.026439    0.283598    0.318630    
0.092229    0.883389    0.018758    0.005623    
0.419591    0.169874    0.253266    0.157270    
0.002985    0.976375    0.002722    0.017918    
0.909381    0.021357    0.013299    0.055963    
0.039418    0.007014    0.948302    0.005266    
0.001711    0.845894    0.005756    0.146640    
0.803792    0.003049    0.148687    0.044472    
0.015314    0.017153    0.680239    0.287294    
0.003793    0.011414    0.937403    0.047390    
0.431916    0.266291    0.144154    0.157638    
0.269331    0.239338    0.366817    0.124513    
0.395873    0.103980    0.214796    0.285351    
Consensus sequence: BHDCVCAGCAGGHVD

Reverse complement motif
0.285351    0.103980    0.214796    0.395873    
0.269331    0.366817    0.239338    0.124513    
0.157638    0.266291    0.144154    0.431916    
0.003793    0.937403    0.011414    0.047390    
0.015314    0.680239    0.017153    0.287294    
0.044472    0.003049    0.148687    0.803792    
0.001711    0.005756    0.845894    0.146640    
0.039418    0.948302    0.007014    0.005266    
0.055963    0.021357    0.013299    0.909381    
0.002985    0.002722    0.976375    0.017918    
0.157270    0.169874    0.253266    0.419591    
0.092229    0.018758    0.883389    0.005623    
0.318630    0.026439    0.283598    0.371334    
0.259478    0.146793    0.357988    0.235741    
0.161683    0.171743    0.405114    0.261460    
Consensus sequence: DVHCCTGCTGBGDDB

Alignment:
DVHCCTGCTGBGDDB
----TTGCTGCTTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00185        Pbx1                               Original Motif                          Reverse Complement                      Forward        7              11             0.024546       

Species: Mus musculus

Original motif
0.212132    0.278490    0.152736    0.356642    
0.063933    0.492543    0.152064    0.291460    
0.587031    0.034623    0.144307    0.234038    
0.117053    0.398145    0.094881    0.389921    
0.373322    0.389731    0.108286    0.128661    
0.108687    0.734731    0.088065    0.068518    
0.859559    0.019872    0.072249    0.048320    
0.030137    0.010645    0.008436    0.950782    
0.031271    0.947906    0.008587    0.012236    
0.931443    0.030353    0.020847    0.017358    
0.740694    0.063345    0.026296    0.169665    
0.314246    0.050461    0.058593    0.576700    
0.324258    0.320852    0.146988    0.207902    
0.392891    0.139295    0.090383    0.377432    
0.356442    0.139564    0.146747    0.357247    
0.260742    0.286138    0.240467    0.212652    
0.366956    0.354615    0.205968    0.072461    
Consensus sequence: HYAYMCATCAAWHWDVV

Reverse complement motif
0.072461    0.354615    0.205968    0.366956    
0.260742    0.240467    0.286138    0.212652    
0.357247    0.139564    0.146747    0.356442    
0.377432    0.139295    0.090383    0.392891    
0.207902    0.320852    0.146988    0.324258    
0.576700    0.050461    0.058593    0.314246    
0.169665    0.063345    0.026296    0.740694    
0.017358    0.030353    0.020847    0.931443    
0.031271    0.008587    0.947906    0.012236    
0.950782    0.010645    0.008436    0.030137    
0.048320    0.019872    0.072249    0.859559    
0.108687    0.088065    0.734731    0.068518    
0.373322    0.108286    0.389731    0.128661    
0.117053    0.094881    0.398145    0.389921    
0.234038    0.034623    0.144307    0.587031    
0.063933    0.152064    0.492543    0.291460    
0.356642    0.278490    0.152736    0.212132    
Consensus sequence: BVDWHWTTGATGRKTKH

Alignment:
BVDWHWTTGATGRKTKH
------TTGCTGCTTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 31		Motif name: Motif 31

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTGTTGATTTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAAATCAACAA


************************************************************************ Best Matches for Motif ID 31 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Reverse Complement                      Original Motif                          Forward        3              11             0.000000       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
DWAATRTAAACAAWVVB
--AAAATCAACAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Reverse Complement                      Original Motif                          Backward       5              11             0.002565       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
DDAATGTAAACAAAVVB
--AAAATCAACAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_primary                      Reverse Complement                      Original Motif                          Backward       5              11             0.004972       

Species: Mus musculus

Original motif
0.273456    0.257473    0.208488    0.260583    
0.338566    0.133379    0.306363    0.221693    
0.475488    0.192852    0.156858    0.174803    
0.506619    0.132646    0.170373    0.190362    
0.349042    0.127275    0.325924    0.197759    
0.303850    0.013619    0.678034    0.004497    
0.014136    0.015691    0.003073    0.967100    
0.913373    0.082928    0.001910    0.001789    
0.956294    0.017745    0.000584    0.025378    
0.987796    0.001685    0.004159    0.006360    
0.002288    0.814764    0.001427    0.181521    
0.986707    0.002688    0.003346    0.007259    
0.787378    0.065481    0.057961    0.089180    
0.572982    0.089910    0.066184    0.270924    
0.224167    0.339979    0.258886    0.176968    
0.268414    0.272007    0.239541    0.220038    
0.241771    0.394748    0.174273    0.189208    
Consensus sequence: HDHADGTAAACAAAVVH

Reverse complement motif
0.241771    0.174273    0.394748    0.189208    
0.268414    0.239541    0.272007    0.220038    
0.224167    0.258886    0.339979    0.176968    
0.270924    0.089910    0.066184    0.572982    
0.089180    0.065481    0.057961    0.787378    
0.007259    0.002688    0.003346    0.986707    
0.002288    0.001427    0.814764    0.181521    
0.006360    0.001685    0.004159    0.987796    
0.025378    0.017745    0.000584    0.956294    
0.001789    0.082928    0.001910    0.913373    
0.967100    0.015691    0.003073    0.014136    
0.303850    0.678034    0.013619    0.004497    
0.197759    0.127275    0.325924    0.349042    
0.190362    0.132646    0.170373    0.506619    
0.174803    0.192852    0.156858    0.475488    
0.221693    0.133379    0.306363    0.338566    
0.260583    0.257473    0.208488    0.273456    
Consensus sequence: DVVTTTGTTTACDTHDH

Alignment:
HDHADGTAAACAAAVVH
--AAAATCAACAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00227        Duxl                               Original Motif                          Reverse Complement                      Forward        3              11             0.007217       

Species: Mus musculus

Original motif
0.059324    0.549998    0.101788    0.288890    
0.350238    0.047771    0.474127    0.127863    
0.770996    0.015441    0.164902    0.048661    
0.063151    0.673997    0.105494    0.157359    
0.021548    0.664224    0.091845    0.222383    
0.002154    0.741020    0.002050    0.254777    
0.987687    0.008317    0.000992    0.003004    
0.973679    0.023948    0.000878    0.001495    
0.002325    0.007546    0.001364    0.988764    
0.001171    0.979424    0.000772    0.018633    
0.968044    0.001410    0.000963    0.029583    
0.830222    0.031401    0.088899    0.049478    
0.053145    0.528291    0.175613    0.242950    
0.245422    0.250649    0.275044    0.228886    
0.314555    0.186237    0.342207    0.157002    
0.279193    0.196590    0.151908    0.372310    
0.199093    0.291226    0.335413    0.174267    
Consensus sequence: YRACCCAATCAACVVHV

Reverse complement motif
0.199093    0.335413    0.291226    0.174267    
0.372310    0.196590    0.151908    0.279193    
0.314555    0.342207    0.186237    0.157002    
0.245422    0.275044    0.250649    0.228886    
0.053145    0.175613    0.528291    0.242950    
0.049478    0.031401    0.088899    0.830222    
0.029583    0.001410    0.000963    0.968044    
0.001171    0.000772    0.979424    0.018633    
0.988764    0.007546    0.001364    0.002325    
0.001495    0.023948    0.000878    0.973679    
0.003004    0.008317    0.000992    0.987687    
0.002154    0.002050    0.741020    0.254777    
0.021548    0.091845    0.664224    0.222383    
0.063151    0.105494    0.673997    0.157359    
0.048661    0.015441    0.164902    0.770996    
0.350238    0.474127    0.047771    0.127863    
0.059324    0.101788    0.549998    0.288890    
Consensus sequence: VHVVGTTGATTGGGTMK

Alignment:
VHVVGTTGATTGGGTMK
--TTGTTGATTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00037        Zfp105_primary                     Original Motif                          Reverse Complement                      Backward       2              11             0.010195       

Species: Mus musculus

Original motif
0.363104    0.182807    0.145232    0.308856    
0.419707    0.133742    0.222546    0.224005    
0.164481    0.418263    0.052397    0.364858    
0.715575    0.117639    0.064914    0.101872    
0.883836    0.026985    0.032584    0.056596    
0.558797    0.151280    0.033120    0.256803    
0.267037    0.403488    0.026746    0.302729    
0.939762    0.013627    0.034579    0.012032    
0.897072    0.009878    0.035642    0.057408    
0.305904    0.516040    0.055311    0.122746    
0.880940    0.027958    0.048350    0.042752    
0.710082    0.052464    0.040250    0.197204    
0.246712    0.125155    0.318627    0.309506    
0.429749    0.181755    0.176892    0.211603    
0.339643    0.097216    0.355250    0.207891    
Consensus sequence: HDYAAAHAAMAADHD

Reverse complement motif
0.339643    0.355250    0.097216    0.207891    
0.211603    0.181755    0.176892    0.429749    
0.246712    0.318627    0.125155    0.309506    
0.197204    0.052464    0.040250    0.710082    
0.042752    0.027958    0.048350    0.880940    
0.305904    0.055311    0.516040    0.122746    
0.057408    0.009878    0.035642    0.897072    
0.012032    0.013627    0.034579    0.939762    
0.267037    0.026746    0.403488    0.302729    
0.256803    0.151280    0.033120    0.558797    
0.056596    0.026985    0.032584    0.883836    
0.101872    0.117639    0.064914    0.715575    
0.164481    0.052397    0.418263    0.364858    
0.224005    0.133742    0.222546    0.419707    
0.308856    0.182807    0.145232    0.363104    
Consensus sequence: HHHTTRTTDTTTKDH

Alignment:
HHHTTRTTDTTTKDH
---TTGTTGATTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Reverse Complement                      Original Motif                          Forward        3              11             0.013583       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
HHWAWGTAAAYAAAVDB
--AAAATCAACAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Reverse Complement                      Original Motif                          Forward        2              11             0.013942       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
HAMAAHCAATTAABHH
-AAAATCAACAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00041        Foxj1_primary                      Reverse Complement                      Original Motif                          Backward       6              11             0.016482       

Species: Mus musculus

Original motif
0.446042    0.209997    0.124191    0.219770    
0.271534    0.218131    0.245258    0.265077    
0.368646    0.184693    0.168482    0.278180    
0.348384    0.034204    0.583335    0.034077    
0.040365    0.085618    0.013162    0.860855    
0.824790    0.156631    0.004063    0.014515    
0.835134    0.069381    0.003505    0.091980    
0.967572    0.009280    0.006259    0.016890    
0.009507    0.909577    0.004492    0.076424    
0.947956    0.006994    0.008177    0.036873    
0.599204    0.170666    0.065622    0.164508    
0.708795    0.035865    0.070557    0.184782    
0.303191    0.287145    0.184748    0.224917    
0.285550    0.184167    0.248662    0.281621    
0.235315    0.210836    0.254428    0.299421    
0.220038    0.158539    0.286552    0.334871    
Consensus sequence: HDHRTAAACAAAHDDD

Reverse complement motif
0.334871    0.158539    0.286552    0.220038    
0.299421    0.210836    0.254428    0.235315    
0.281621    0.184167    0.248662    0.285550    
0.224917    0.287145    0.184748    0.303191    
0.184782    0.035865    0.070557    0.708795    
0.164508    0.170666    0.065622    0.599204    
0.036873    0.006994    0.008177    0.947956    
0.009507    0.004492    0.909577    0.076424    
0.016890    0.009280    0.006259    0.967572    
0.091980    0.069381    0.003505    0.835134    
0.014515    0.156631    0.004063    0.824790    
0.860855    0.085618    0.013162    0.040365    
0.348384    0.583335    0.034204    0.034077    
0.278180    0.184693    0.168482    0.368646    
0.265077    0.218131    0.245258    0.271534    
0.219770    0.209997    0.124191    0.446042    
Consensus sequence: DDDHTTTGTTTAMHDH

Alignment:
HDHRTAAACAAAHDDD
AAAATCAACAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_secondary                    Original Motif                          Reverse Complement                      Backward       3              11             0.022020       

Species: Mus musculus

Original motif
0.240753    0.425595    0.141281    0.192371    
0.367715    0.247224    0.117353    0.267708    
0.489169    0.220343    0.113844    0.176644    
0.742256    0.042809    0.146704    0.068231    
0.078936    0.546144    0.032328    0.342592    
0.588419    0.293580    0.082117    0.035885    
0.913924    0.026256    0.050778    0.009042    
0.009007    0.565680    0.010683    0.414630    
0.947562    0.020878    0.018821    0.012739    
0.901384    0.021519    0.030204    0.046893    
0.077157    0.797900    0.026432    0.098511    
0.824314    0.040128    0.051910    0.083648    
0.254436    0.342235    0.143789    0.259539    
0.319400    0.338163    0.129746    0.212691    
0.231014    0.260719    0.169042    0.339225    
Consensus sequence: HHHAYAAYAACAHHH

Reverse complement motif
0.339225    0.260719    0.169042    0.231014    
0.319400    0.129746    0.338163    0.212691    
0.254436    0.143789    0.342235    0.259539    
0.083648    0.040128    0.051910    0.824314    
0.077157    0.026432    0.797900    0.098511    
0.046893    0.021519    0.030204    0.901384    
0.012739    0.020878    0.018821    0.947562    
0.009007    0.010683    0.565680    0.414630    
0.009042    0.026256    0.050778    0.913924    
0.035885    0.293580    0.082117    0.588419    
0.078936    0.032328    0.546144    0.342592    
0.068231    0.042809    0.146704    0.742256    
0.176644    0.220343    0.113844    0.489169    
0.267708    0.247224    0.117353    0.367715    
0.240753    0.141281    0.425595    0.192371    
Consensus sequence: HDDTGTTKTTKTHHD

Alignment:
HDDTGTTKTTKTHHD
--TTGTTGATTTT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_secondary                     Original Motif                          Reverse Complement                      Forward        5              11             0.024284       

Species: Mus musculus

Original motif
0.225775    0.266368    0.393085    0.114772    
0.435548    0.077011    0.232595    0.254846    
0.416750    0.144725    0.322119    0.116406    
0.172866    0.341069    0.390257    0.095807    
0.809227    0.021474    0.010361    0.158938    
0.039268    0.014676    0.010455    0.935601    
0.015615    0.901755    0.039475    0.043155    
0.944804    0.006853    0.008451    0.039892    
0.934861    0.010096    0.037766    0.017277    
0.026944    0.020363    0.046918    0.905775    
0.108303    0.713885    0.010564    0.167248    
0.679723    0.017661    0.275577    0.027039    
0.239565    0.345553    0.186641    0.228241    
0.088115    0.243857    0.204018    0.464010    
0.331032    0.182800    0.110215    0.375953    
0.337037    0.160373    0.185584    0.317006    
Consensus sequence: VDVVATCAATCAHBHD

Reverse complement motif
0.317006    0.160373    0.185584    0.337037    
0.375953    0.182800    0.110215    0.331032    
0.464010    0.243857    0.204018    0.088115    
0.239565    0.186641    0.345553    0.228241    
0.027039    0.017661    0.275577    0.679723    
0.108303    0.010564    0.713885    0.167248    
0.905775    0.020363    0.046918    0.026944    
0.017277    0.010096    0.037766    0.934861    
0.039892    0.006853    0.008451    0.944804    
0.015615    0.039475    0.901755    0.043155    
0.935601    0.014676    0.010455    0.039268    
0.158938    0.021474    0.010361    0.809227    
0.172866    0.390257    0.341069    0.095807    
0.116406    0.144725    0.322119    0.416750    
0.254846    0.077011    0.232595    0.435548    
0.225775    0.393085    0.266368    0.114772    
Consensus sequence: DHVDTGATTGATVBDV

Alignment:
DHVDTGATTGATVBDV
----TTGTTGATTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 32		Motif name: Motif 32

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTACWGTTT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAACWGTAA


************************************************************************ Best Matches for Motif ID 32 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_primary                       Reverse Complement                      Original Motif                          Forward        3              9              0.020262       

Species: Mus musculus

Original motif
0.295210    0.230759    0.178832    0.295199    
0.286163    0.186772    0.186150    0.340915    
0.287577    0.235045    0.329453    0.147924    
0.263264    0.191325    0.081978    0.463433    
0.839420    0.118123    0.018788    0.023669    
0.005488    0.984397    0.000830    0.009284    
0.660134    0.001532    0.336574    0.001760    
0.003020    0.001773    0.993144    0.002063    
0.039664    0.001060    0.005054    0.954222    
0.980339    0.000636    0.016776    0.002249    
0.003849    0.001418    0.992166    0.002568    
0.000858    0.950172    0.007228    0.041743    
0.342840    0.230712    0.133570    0.292878    
0.342486    0.316980    0.167294    0.173240    
0.362426    0.178913    0.146709    0.311952    
0.266586    0.140406    0.435643    0.157365    
Consensus sequence: HHVHACRGTAGCHHHD

Reverse complement motif
0.266586    0.435643    0.140406    0.157365    
0.311952    0.178913    0.146709    0.362426    
0.173240    0.316980    0.167294    0.342486    
0.292878    0.230712    0.133570    0.342840    
0.000858    0.007228    0.950172    0.041743    
0.003849    0.992166    0.001418    0.002568    
0.002249    0.000636    0.016776    0.980339    
0.954222    0.001060    0.005054    0.039664    
0.003020    0.993144    0.001773    0.002063    
0.001760    0.001532    0.336574    0.660134    
0.005488    0.000830    0.984397    0.009284    
0.023669    0.118123    0.018788    0.839420    
0.463433    0.191325    0.081978    0.263264    
0.287577    0.329453    0.235045    0.147924    
0.340915    0.186772    0.186150    0.286163    
0.295199    0.230759    0.178832    0.295210    
Consensus sequence: HHHHGCTACKGTHVHH

Alignment:
HHVHACRGTAGCHHHD
--AAACWGTAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00027        Osr1_primary                       Reverse Complement                      Original Motif                          Backward       6              9              0.020563       

Species: Mus musculus

Original motif
0.260366    0.252887    0.224273    0.262474    
0.239931    0.233883    0.190643    0.335543    
0.257637    0.188706    0.242480    0.311177    
0.323833    0.165978    0.161144    0.349046    
0.824983    0.119267    0.027014    0.028736    
0.009055    0.974108    0.000889    0.015947    
0.659219    0.001516    0.337361    0.001905    
0.002965    0.001643    0.993070    0.002321    
0.047380    0.001758    0.009593    0.941269    
0.974073    0.000741    0.023187    0.001999    
0.006256    0.001341    0.990114    0.002290    
0.001372    0.921382    0.010719    0.066527    
0.449788    0.160658    0.105504    0.284050    
0.392727    0.304490    0.187448    0.115335    
0.361758    0.209213    0.175805    0.253224    
0.420972    0.108912    0.289406    0.180710    
Consensus sequence: HHDHACRGTAGCHVHD

Reverse complement motif
0.180710    0.108912    0.289406    0.420972    
0.253224    0.209213    0.175805    0.361758    
0.115335    0.304490    0.187448    0.392727    
0.284050    0.160658    0.105504    0.449788    
0.001372    0.010719    0.921382    0.066527    
0.006256    0.990114    0.001341    0.002290    
0.001999    0.000741    0.023187    0.974073    
0.941269    0.001758    0.009593    0.047380    
0.002965    0.993070    0.001643    0.002321    
0.001905    0.001516    0.337361    0.659219    
0.009055    0.000889    0.974108    0.015947    
0.028736    0.119267    0.027014    0.824983    
0.349046    0.165978    0.161144    0.323833    
0.311177    0.188706    0.242480    0.257637    
0.335543    0.233883    0.190643    0.239931    
0.262474    0.252887    0.224273    0.260366    
Consensus sequence: DHBHGCTACKGTHDHH

Alignment:
HHDHACRGTAGCHVHD
--AAACWGTAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Original Motif                          Reverse Complement                      Forward        9              9              0.021208       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
BDVTTTKTTTACWTWHH
--------TTACWGTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Reverse Complement                      Forward        9              9              0.021345       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
VVVWTTGTTTAMATTWD
--------TTACWGTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00081        Mybl1_primary                      Original Motif                          Reverse Complement                      Backward       5              9              0.023777       

Species: Mus musculus

Original motif
0.219490    0.243488    0.196239    0.340783    
0.242096    0.094435    0.234242    0.429226    
0.242319    0.155536    0.366023    0.236122    
0.369837    0.185801    0.219486    0.224876    
0.390568    0.211210    0.098244    0.299978    
0.782192    0.011783    0.158354    0.047671    
0.837985    0.006254    0.084522    0.071239    
0.027255    0.965067    0.001360    0.006318    
0.006706    0.831051    0.151462    0.010782    
0.003491    0.002829    0.991758    0.001921    
0.004195    0.009136    0.009776    0.976893    
0.009860    0.166761    0.002159    0.821220    
0.709623    0.006957    0.204415    0.079005    
0.316262    0.239384    0.140024    0.304330    
0.254660    0.237146    0.090326    0.417868    
0.289939    0.309708    0.068038    0.332316    
0.262670    0.214791    0.217375    0.305164    
Consensus sequence: HDDDHAACCGTTAHHHD

Reverse complement motif
0.305164    0.214791    0.217375    0.262670    
0.332316    0.309708    0.068038    0.289939    
0.417868    0.237146    0.090326    0.254660    
0.304330    0.239384    0.140024    0.316262    
0.079005    0.006957    0.204415    0.709623    
0.821220    0.166761    0.002159    0.009860    
0.976893    0.009136    0.009776    0.004195    
0.003491    0.991758    0.002829    0.001921    
0.006706    0.151462    0.831051    0.010782    
0.027255    0.001360    0.965067    0.006318    
0.071239    0.006254    0.084522    0.837985    
0.047671    0.011783    0.158354    0.782192    
0.299978    0.211210    0.098244    0.390568    
0.224876    0.185801    0.219486    0.369837    
0.242319    0.366023    0.155536    0.236122    
0.429226    0.094435    0.234242    0.242096    
0.340783    0.243488    0.196239    0.219490    
Consensus sequence: DHHHTAACGGTTHDHDH

Alignment:
DHHHTAACGGTTHDHDH
----TTACWGTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Original Motif                          Reverse Complement                      Forward        9              9              0.024019       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
BBVTTTGTTTACATTDD
--------TTACWGTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00186        Meis1                              Original Motif                          Reverse Complement                      Backward       4              9              0.024551       

Species: Mus musculus

Original motif
0.432115    0.114994    0.130835    0.322056    
0.508081    0.060822    0.214256    0.216841    
0.225875    0.276028    0.280982    0.217115    
0.092373    0.286687    0.360933    0.260007    
0.947172    0.005937    0.028595    0.018297    
0.027829    0.439935    0.505051    0.027185    
0.023801    0.963424    0.008205    0.004571    
0.001548    0.018215    0.000406    0.979831    
0.008422    0.001124    0.989007    0.001446    
0.025343    0.004094    0.000241    0.970323    
0.001451    0.992789    0.002037    0.003724    
0.991202    0.001638    0.003159    0.004002    
0.695910    0.022145    0.013657    0.268288    
0.357895    0.090931    0.093796    0.457378    
0.453163    0.204395    0.181067    0.161376    
0.200615    0.393437    0.171398    0.234551    
Consensus sequence: WAVBASCTGTCAAWVH

Reverse complement motif
0.200615    0.171398    0.393437    0.234551    
0.161376    0.204395    0.181067    0.453163    
0.457378    0.090931    0.093796    0.357895    
0.268288    0.022145    0.013657    0.695910    
0.004002    0.001638    0.003159    0.991202    
0.001451    0.002037    0.992789    0.003724    
0.970323    0.004094    0.000241    0.025343    
0.008422    0.989007    0.001124    0.001446    
0.979831    0.018215    0.000406    0.001548    
0.023801    0.008205    0.963424    0.004571    
0.027829    0.505051    0.439935    0.027185    
0.018297    0.005937    0.028595    0.947172    
0.092373    0.360933    0.286687    0.260007    
0.225875    0.280982    0.276028    0.217115    
0.216841    0.060822    0.214256    0.508081    
0.322056    0.114994    0.130835    0.432115    
Consensus sequence: DBWTTGACAGSTBVTW

Alignment:
DBWTTGACAGSTBVTW
----TTACWGTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00092        Myb_primary                        Reverse Complement                      Original Motif                          Forward        5              9              0.025841       

Species: Mus musculus

Original motif
0.328645    0.216829    0.175041    0.279486    
0.206917    0.095182    0.203533    0.494368    
0.222004    0.148675    0.347360    0.281962    
0.261099    0.154556    0.318840    0.265505    
0.377807    0.263226    0.136863    0.222105    
0.760794    0.008750    0.150250    0.080207    
0.825640    0.005474    0.090464    0.078422    
0.026327    0.960952    0.000707    0.012015    
0.006831    0.825142    0.158264    0.009762    
0.003618    0.003083    0.991947    0.001351    
0.005535    0.009490    0.008936    0.976039    
0.014230    0.225407    0.002645    0.757718    
0.683148    0.019522    0.184293    0.113036    
0.312491    0.189333    0.105503    0.392673    
0.330394    0.234925    0.083817    0.350864    
0.290215    0.302656    0.081892    0.325237    
0.235445    0.214519    0.215223    0.334814    
Consensus sequence: HDDDHAACCGTTAHHHD

Reverse complement motif
0.334814    0.214519    0.215223    0.235445    
0.325237    0.302656    0.081892    0.290215    
0.350864    0.234925    0.083817    0.330394    
0.392673    0.189333    0.105503    0.312491    
0.113036    0.019522    0.184293    0.683148    
0.757718    0.225407    0.002645    0.014230    
0.976039    0.009490    0.008936    0.005535    
0.003618    0.991947    0.003083    0.001351    
0.006831    0.158264    0.825142    0.009762    
0.026327    0.000707    0.960952    0.012015    
0.078422    0.005474    0.090464    0.825640    
0.080207    0.008750    0.150250    0.760794    
0.222105    0.263226    0.136863    0.377807    
0.261099    0.318840    0.154556    0.265505    
0.222004    0.347360    0.148675    0.281962    
0.494368    0.095182    0.203533    0.206917    
0.279486    0.216829    0.175041    0.328645    
Consensus sequence: DHHHTAACGGTTHHHDH

Alignment:
HDDDHAACCGTTAHHHD
----AAACWGTAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00226        Mrg1                               Original Motif                          Reverse Complement                      Forward        5              9              0.026773       

Species: Mus musculus

Original motif
0.378836    0.145096    0.102046    0.374022    
0.507161    0.090730    0.177058    0.225051    
0.277496    0.234581    0.275775    0.212149    
0.065300    0.339403    0.360939    0.234358    
0.918963    0.010948    0.043262    0.026826    
0.017295    0.545133    0.416603    0.020969    
0.023391    0.962223    0.007311    0.007075    
0.001760    0.020258    0.000360    0.977622    
0.013946    0.000586    0.983699    0.001769    
0.035910    0.004825    0.000197    0.959068    
0.001465    0.991446    0.001338    0.005750    
0.986785    0.001158    0.005848    0.006209    
0.715894    0.043046    0.018966    0.222093    
0.332332    0.084841    0.098421    0.484405    
0.473739    0.198580    0.152072    0.175610    
0.211505    0.325971    0.212211    0.250313    
Consensus sequence: WAVBASCTGTCAAWHB

Reverse complement motif
0.211505    0.212211    0.325971    0.250313    
0.175610    0.198580    0.152072    0.473739    
0.484405    0.084841    0.098421    0.332332    
0.222093    0.043046    0.018966    0.715894    
0.006209    0.001158    0.005848    0.986785    
0.001465    0.001338    0.991446    0.005750    
0.959068    0.004825    0.000197    0.035910    
0.013946    0.983699    0.000586    0.001769    
0.977622    0.020258    0.000360    0.001760    
0.023391    0.007311    0.962223    0.007075    
0.017295    0.416603    0.545133    0.020969    
0.026826    0.010948    0.043262    0.918963    
0.065300    0.360939    0.339403    0.234358    
0.212149    0.234581    0.275775    0.277496    
0.225051    0.090730    0.177058    0.507161    
0.374022    0.145096    0.102046    0.378836    
Consensus sequence: BHWTTGACAGSTBBTW

Alignment:
BHWTTGACAGSTBBTW
----TTACWGTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00203        Pknox1                             Original Motif                          Reverse Complement                      Forward        5              9              0.027719       

Species: Mus musculus

Original motif
0.436259    0.086706    0.169714    0.307321    
0.433826    0.063296    0.358082    0.144795    
0.324190    0.284651    0.208786    0.182372    
0.054648    0.285295    0.518967    0.141090    
0.922874    0.012239    0.042656    0.022231    
0.036668    0.581917    0.338993    0.042422    
0.021599    0.968542    0.006920    0.002939    
0.001846    0.026071    0.000271    0.971812    
0.007232    0.000773    0.989645    0.002350    
0.019103    0.005771    0.000209    0.974917    
0.001535    0.989111    0.000852    0.008502    
0.989698    0.000915    0.004907    0.004480    
0.679114    0.077050    0.037931    0.205904    
0.330007    0.110122    0.067993    0.491878    
0.286458    0.421726    0.186579    0.105236    
0.199258    0.473968    0.173008    0.153766    
Consensus sequence: DRVSASCTGTCAAWVV

Reverse complement motif
0.199258    0.173008    0.473968    0.153766    
0.286458    0.186579    0.421726    0.105236    
0.491878    0.110122    0.067993    0.330007    
0.205904    0.077050    0.037931    0.679114    
0.004480    0.000915    0.004907    0.989698    
0.001535    0.000852    0.989111    0.008502    
0.974917    0.005771    0.000209    0.019103    
0.007232    0.989645    0.000773    0.002350    
0.971812    0.026071    0.000271    0.001846    
0.021599    0.006920    0.968542    0.002939    
0.036668    0.338993    0.581917    0.042422    
0.022231    0.012239    0.042656    0.922874    
0.054648    0.518967    0.285295    0.141090    
0.182372    0.284651    0.208786    0.324190    
0.144795    0.063296    0.358082    0.433826    
0.307321    0.086706    0.169714    0.436259    
Consensus sequence: VVWTTGACAGSTSBKD

Alignment:
VVWTTGACAGSTSBKD
----TTACWGTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 33		Motif name: Motif 33

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TTTAATGTYTTTWA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TWAAAKACATTAAA


************************************************************************ Best Matches for Motif ID 33 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00171        Msx3                               Original Motif                          Reverse Complement                      Forward        3              14             0.014364       

Species: Mus musculus

Original motif
0.317812    0.352438    0.231628    0.098123    
0.601471    0.133830    0.164947    0.099752    
0.399508    0.293187    0.098524    0.208781    
0.754569    0.054130    0.133622    0.057678    
0.770469    0.088090    0.086904    0.054537    
0.038689    0.673100    0.189096    0.099115    
0.004935    0.522968    0.000482    0.471615    
0.986316    0.001484    0.009222    0.002978    
0.991636    0.005079    0.001457    0.001828    
0.009156    0.001857    0.001081    0.987906    
0.013688    0.006588    0.000191    0.979532    
0.987635    0.000354    0.005166    0.006845    
0.701095    0.027828    0.154852    0.116224    
0.181731    0.184800    0.303458    0.330011    
0.224816    0.221032    0.182405    0.371747    
0.310539    0.208307    0.099081    0.382073    
Consensus sequence: VAHAACYAATTAABHH

Reverse complement motif
0.382073    0.208307    0.099081    0.310539    
0.371747    0.221032    0.182405    0.224816    
0.330011    0.184800    0.303458    0.181731    
0.116224    0.027828    0.154852    0.701095    
0.006845    0.000354    0.005166    0.987635    
0.979532    0.006588    0.000191    0.013688    
0.987906    0.001857    0.001081    0.009156    
0.001828    0.005079    0.001457    0.991636    
0.002978    0.001484    0.009222    0.986316    
0.004935    0.000482    0.522968    0.471615    
0.038689    0.189096    0.673100    0.099115    
0.054537    0.088090    0.086904    0.770469    
0.057678    0.054130    0.133622    0.754569    
0.208781    0.293187    0.098524    0.399508    
0.099752    0.133830    0.164947    0.601471    
0.317812    0.231628    0.352438    0.098123    
Consensus sequence: HHVTTAATTKGTTHTV

Alignment:
HHVTTAATTKGTTHTV
--TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Original Motif                          Reverse Complement                      Forward        3              14             0.014960       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
HHBTTAATTGDTTYTH
--TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00170        Isl2                               Original Motif                          Reverse Complement                      Forward        3              14             0.022680       

Species: Mus musculus

Original motif
0.380653    0.464278    0.069710    0.085358    
0.372741    0.252485    0.094893    0.279881    
0.400406    0.346871    0.119279    0.133444    
0.582825    0.148558    0.126868    0.141748    
0.743019    0.117598    0.049691    0.089692    
0.055277    0.296642    0.093515    0.554566    
0.016892    0.507616    0.007671    0.467820    
0.599279    0.361703    0.019061    0.019957    
0.705284    0.282581    0.005323    0.006811    
0.013750    0.013079    0.004736    0.968435    
0.013264    0.013804    0.004612    0.968319    
0.933004    0.004447    0.005179    0.057370    
0.656051    0.041577    0.212432    0.089940    
0.145543    0.109863    0.307597    0.436997    
0.323514    0.098571    0.137254    0.440660    
0.204784    0.284909    0.075638    0.434669    
Consensus sequence: MHHAAYYMATTAADWH

Reverse complement motif
0.434669    0.284909    0.075638    0.204784    
0.440660    0.098571    0.137254    0.323514    
0.436997    0.109863    0.307597    0.145543    
0.089940    0.041577    0.212432    0.656051    
0.057370    0.004447    0.005179    0.933004    
0.968319    0.013804    0.004612    0.013264    
0.968435    0.013079    0.004736    0.013750    
0.006811    0.282581    0.005323    0.705284    
0.019957    0.361703    0.019061    0.599279    
0.016892    0.007671    0.507616    0.467820    
0.554566    0.296642    0.093515    0.055277    
0.089692    0.117598    0.049691    0.743019    
0.141748    0.148558    0.126868    0.582825    
0.133444    0.346871    0.119279    0.400406    
0.279881    0.252485    0.094893    0.372741    
0.380653    0.069710    0.464278    0.085358    
Consensus sequence: HWDTTAATYKMTTHHR

Alignment:
HWDTTAATYKMTTHHR
--TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00119        Nkx2-9                             Reverse Complement                      Reverse Complement                      Backward       1              14             0.022923       

Species: Mus musculus

Original motif
0.246057    0.081231    0.164694    0.508019    
0.148670    0.199380    0.121257    0.530694    
0.228864    0.152179    0.074714    0.544243    
0.315761    0.097229    0.242200    0.344810    
0.669183    0.002936    0.306075    0.021805    
0.870957    0.008933    0.091276    0.028835    
0.009834    0.028141    0.956928    0.005097    
0.001783    0.219475    0.004428    0.774314    
0.774314    0.004428    0.219475    0.001783    
0.005097    0.956928    0.028141    0.009834    
0.028835    0.091276    0.008933    0.870957    
0.021805    0.306075    0.002936    0.669183    
0.411282    0.172328    0.253633    0.162758    
0.794622    0.018789    0.052643    0.133945    
0.590680    0.124233    0.103686    0.181401    
0.241272    0.115001    0.214390    0.429337    
0.145724    0.359816    0.128911    0.365550    
Consensus sequence: TTTDAAGTACTTVAADH

Reverse complement motif
0.365550    0.359816    0.128911    0.145724    
0.429337    0.115001    0.214390    0.241272    
0.181401    0.124233    0.103686    0.590680    
0.133945    0.018789    0.052643    0.794622    
0.162758    0.172328    0.253633    0.411282    
0.669183    0.306075    0.002936    0.021805    
0.870957    0.091276    0.008933    0.028835    
0.005097    0.028141    0.956928    0.009834    
0.001783    0.004428    0.219475    0.774314    
0.774314    0.219475    0.004428    0.001783    
0.009834    0.956928    0.028141    0.005097    
0.028835    0.008933    0.091276    0.870957    
0.021805    0.002936    0.306075    0.669183    
0.344810    0.097229    0.242200    0.315761    
0.544243    0.152179    0.074714    0.228864    
0.530694    0.199380    0.121257    0.148670    
0.508019    0.081231    0.164694    0.246057    
Consensus sequence: HDTTBAAGTACTTDAAA

Alignment:
HDTTBAAGTACTTDAAA
---TWAAAKACATTAAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00216        Obox1                              Reverse Complement                      Original Motif                          Forward        1              14             0.025502       

Species: Mus musculus

Original motif
0.239477    0.131084    0.243507    0.385932    
0.217543    0.106254    0.206114    0.470089    
0.647326    0.113122    0.157767    0.081785    
0.447787    0.111541    0.372093    0.068580    
0.248541    0.017787    0.686924    0.046748    
0.088770    0.008796    0.883034    0.019400    
0.049663    0.003287    0.945325    0.001725    
0.003569    0.000420    0.960584    0.035426    
0.967192    0.029883    0.000248    0.002677    
0.001721    0.005927    0.001063    0.991288    
0.008389    0.011678    0.000280    0.979653    
0.946957    0.000663    0.002329    0.050052    
0.711018    0.017942    0.052601    0.218440    
0.234125    0.619719    0.073871    0.072285    
0.255026    0.148239    0.159856    0.436879    
0.448611    0.200869    0.092123    0.258397    
0.182337    0.333505    0.182092    0.302066    
Consensus sequence: DDARGGGGATTAACDHH

Reverse complement motif
0.182337    0.182092    0.333505    0.302066    
0.258397    0.200869    0.092123    0.448611    
0.436879    0.148239    0.159856    0.255026    
0.234125    0.073871    0.619719    0.072285    
0.218440    0.017942    0.052601    0.711018    
0.050052    0.000663    0.002329    0.946957    
0.979653    0.011678    0.000280    0.008389    
0.991288    0.005927    0.001063    0.001721    
0.002677    0.029883    0.000248    0.967192    
0.003569    0.960584    0.000420    0.035426    
0.049663    0.945325    0.003287    0.001725    
0.088770    0.883034    0.008796    0.019400    
0.248541    0.686924    0.017787    0.046748    
0.068580    0.111541    0.372093    0.447787    
0.081785    0.113122    0.157767    0.647326    
0.470089    0.106254    0.206114    0.217543    
0.385932    0.131084    0.243507    0.239477    
Consensus sequence: DHDGTTAATCCCCKTDD

Alignment:
DDARGGGGATTAACDHH
TWAAAKACATTAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00051        Sox8_primary                       Original Motif                          Original Motif                          Forward        4              14             0.026664       

Species: Mus musculus

Original motif
0.244952    0.197659    0.278014    0.279374    
0.244434    0.136006    0.278446    0.341114    
0.512025    0.129954    0.139069    0.218951    
0.190001    0.086232    0.125500    0.598267    
0.154692    0.325860    0.193904    0.325544    
0.384624    0.130540    0.035110    0.449726    
0.945021    0.006713    0.011975    0.036291    
0.008386    0.026630    0.004166    0.960817    
0.020908    0.005554    0.009294    0.964244    
0.149285    0.038995    0.806085    0.005635    
0.110990    0.007155    0.007797    0.874058    
0.087283    0.099671    0.059611    0.753435    
0.250662    0.432576    0.082152    0.234610    
0.251277    0.174578    0.147771    0.426374    
0.205121    0.137656    0.296366    0.360857    
0.316796    0.152457    0.164403    0.366344    
0.475864    0.128717    0.153551    0.241867    
Consensus sequence: DDATBWATTGTTHHDDD

Reverse complement motif
0.241867    0.128717    0.153551    0.475864    
0.366344    0.152457    0.164403    0.316796    
0.360857    0.137656    0.296366    0.205121    
0.426374    0.174578    0.147771    0.251277    
0.250662    0.082152    0.432576    0.234610    
0.753435    0.099671    0.059611    0.087283    
0.874058    0.007155    0.007797    0.110990    
0.149285    0.806085    0.038995    0.005635    
0.964244    0.005554    0.009294    0.020908    
0.960817    0.026630    0.004166    0.008386    
0.036291    0.006713    0.011975    0.945021    
0.449726    0.130540    0.035110    0.384624    
0.154692    0.193904    0.325860    0.325544    
0.598267    0.086232    0.125500    0.190001    
0.218951    0.129954    0.139069    0.512025    
0.341114    0.136006    0.278446    0.244434    
0.279374    0.197659    0.278014    0.244952    
Consensus sequence: DDDHDAACAATWBATDD

Alignment:
DDATBWATTGTTHHDDD
---TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00091        Sox5_primary                       Original Motif                          Reverse Complement                      Forward        3              14             0.028808       

Species: Mus musculus

Original motif
0.305368    0.133033    0.173233    0.388366    
0.257879    0.197076    0.146872    0.398174    
0.257635    0.122462    0.256979    0.362924    
0.446808    0.093619    0.289963    0.169610    
0.148292    0.091229    0.632311    0.128169    
0.827592    0.026174    0.130622    0.015612    
0.976345    0.003817    0.005452    0.014386    
0.005230    0.937364    0.008904    0.048502    
0.973417    0.003014    0.006136    0.017433    
0.974095    0.004350    0.011425    0.010130    
0.030624    0.011927    0.003795    0.953653    
0.491667    0.015453    0.085481    0.407399    
0.451773    0.100304    0.244084    0.203838    
0.434242    0.114442    0.217049    0.234267    
0.333464    0.254828    0.092729    0.318979    
0.333644    0.114919    0.184420    0.367017    
Consensus sequence: DHDDGAACAATWDDHD

Reverse complement motif
0.367017    0.114919    0.184420    0.333644    
0.318979    0.254828    0.092729    0.333464    
0.234267    0.114442    0.217049    0.434242    
0.203838    0.100304    0.244084    0.451773    
0.407399    0.015453    0.085481    0.491667    
0.953653    0.011927    0.003795    0.030624    
0.010130    0.004350    0.011425    0.974095    
0.017433    0.003014    0.006136    0.973417    
0.005230    0.008904    0.937364    0.048502    
0.014386    0.003817    0.005452    0.976345    
0.015612    0.026174    0.130622    0.827592    
0.148292    0.632311    0.091229    0.128169    
0.169610    0.093619    0.289963    0.446808    
0.362924    0.122462    0.256979    0.257635    
0.398174    0.197076    0.146872    0.257879    
0.388366    0.133033    0.173233    0.305368    
Consensus sequence: DHDDWATTGTTCDDHD

Alignment:
DHDDWATTGTTCDDHD
--TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00096        Sox13_primary                      Original Motif                          Reverse Complement                      Backward       1              14             0.030129       

Species: Mus musculus

Original motif
0.269275    0.121320    0.165706    0.443700    
0.188801    0.239798    0.175798    0.395603    
0.368195    0.140376    0.162749    0.328680    
0.497992    0.105708    0.282795    0.113505    
0.130964    0.090292    0.620010    0.158734    
0.825318    0.023531    0.125342    0.025809    
0.959293    0.007648    0.010682    0.022377    
0.019733    0.898543    0.014756    0.066968    
0.943830    0.005894    0.014484    0.035792    
0.949658    0.010125    0.029732    0.010485    
0.038214    0.025063    0.006015    0.930708    
0.465769    0.016866    0.079467    0.437898    
0.416082    0.086340    0.115778    0.381801    
0.356556    0.103268    0.179331    0.360845    
0.206830    0.204618    0.120034    0.468518    
0.302958    0.164260    0.071574    0.461209    
Consensus sequence: DHDRGAACAATWWDHW

Reverse complement motif
0.461209    0.164260    0.071574    0.302958    
0.468518    0.204618    0.120034    0.206830    
0.360845    0.103268    0.179331    0.356556    
0.381801    0.086340    0.115778    0.416082    
0.437898    0.016866    0.079467    0.465769    
0.930708    0.025063    0.006015    0.038214    
0.010485    0.010125    0.029732    0.949658    
0.035792    0.005894    0.014484    0.943830    
0.019733    0.014756    0.898543    0.066968    
0.022377    0.007648    0.010682    0.959293    
0.025809    0.023531    0.125342    0.825318    
0.130964    0.620010    0.090292    0.158734    
0.113505    0.105708    0.282795    0.497992    
0.328680    0.140376    0.162749    0.368195    
0.395603    0.239798    0.175798    0.188801    
0.443700    0.121320    0.165706    0.269275    
Consensus sequence: WHDWWATTGTTCKDHD

Alignment:
DHDRGAACAATWWDHW
--TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00166        Barhl1                             Original Motif                          Reverse Complement                      Forward        3              14             0.030335       

Species: Mus musculus

Original motif
0.467514    0.210142    0.140580    0.181765    
0.607254    0.124874    0.137587    0.130285    
0.280889    0.423565    0.125411    0.170135    
0.748944    0.067655    0.136796    0.046605    
0.723747    0.023732    0.218759    0.033762    
0.075749    0.608701    0.182230    0.133321    
0.005053    0.764340    0.000825    0.229781    
0.951342    0.006010    0.029473    0.013175    
0.890431    0.010111    0.000910    0.098548    
0.004275    0.001291    0.002113    0.992321    
0.005850    0.006608    0.000432    0.987110    
0.979314    0.000732    0.001996    0.017957    
0.546971    0.034786    0.326876    0.091366    
0.120451    0.194359    0.328320    0.356870    
0.274765    0.177491    0.231888    0.315855    
0.223913    0.420032    0.139775    0.216280    
Consensus sequence: HAHAACCAATTARBDH

Reverse complement motif
0.223913    0.139775    0.420032    0.216280    
0.315855    0.177491    0.231888    0.274765    
0.356870    0.194359    0.328320    0.120451    
0.091366    0.034786    0.326876    0.546971    
0.017957    0.000732    0.001996    0.979314    
0.987110    0.006608    0.000432    0.005850    
0.992321    0.001291    0.002113    0.004275    
0.098548    0.010111    0.000910    0.890431    
0.013175    0.006010    0.029473    0.951342    
0.005053    0.000825    0.764340    0.229781    
0.075749    0.182230    0.608701    0.133321    
0.033762    0.023732    0.218759    0.723747    
0.046605    0.067655    0.136796    0.748944    
0.280889    0.125411    0.423565    0.170135    
0.130285    0.124874    0.137587    0.607254    
0.181765    0.210142    0.140580    0.467514    
Consensus sequence: DDVKTAATTGGTTDTH

Alignment:
DDVKTAATTGGTTDTH
--TTTAATGTYTTTWA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Reverse Complement                      Original Motif                          Backward       8              14             0.030484       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
BDHDDADAGATAAGADHBDHVD
-TWAAAKACATTAAA-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 34		Motif name: Motif 34

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAAGATGA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TCATCTTT


************************************************************************ Best Matches for Motif ID 34 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Reverse Complement                      Reverse Complement                      Backward       6              8              0.023590       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
HBHDVHDTCTTATCTHTDDHDV
---------TCATCTTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Reverse Complement                      Reverse Complement                      Backward       5              8              0.024858       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
HHVGTGACCTTTDVDD
----TCATCTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Reverse Complement                      Reverse Complement                      Forward        5              8              0.032079       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
BHVDTGACCTTTDVDD
----TCATCTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00114        Homez                              Original Motif                          Reverse Complement                      Backward       4              8              0.035340       

Species: Mus musculus

Original motif
0.585235    0.056880    0.174898    0.182987    
0.344783    0.171238    0.144379    0.339600    
0.496888    0.112442    0.086669    0.304001    
0.457408    0.134777    0.032789    0.375026    
0.342717    0.420568    0.171418    0.065297    
0.872988    0.030946    0.004203    0.091862    
0.006581    0.013120    0.006495    0.973804    
0.036193    0.946961    0.004377    0.012469    
0.014767    0.005226    0.966106    0.013901    
0.208700    0.008264    0.021875    0.761161    
0.037957    0.018882    0.028895    0.914266    
0.157997    0.026546    0.021365    0.794092    
0.139814    0.136272    0.117987    0.605927    
0.125467    0.233302    0.183071    0.458161    
0.523941    0.191122    0.050126    0.234811    
0.374984    0.049392    0.291831    0.283793    
0.268235    0.165772    0.308515    0.257477    
Consensus sequence: AHWWMATCGTTTTBADD

Reverse complement motif
0.268235    0.308515    0.165772    0.257477    
0.283793    0.049392    0.291831    0.374984    
0.234811    0.191122    0.050126    0.523941    
0.458161    0.233302    0.183071    0.125467    
0.605927    0.136272    0.117987    0.139814    
0.794092    0.026546    0.021365    0.157997    
0.914266    0.018882    0.028895    0.037957    
0.761161    0.008264    0.021875    0.208700    
0.014767    0.966106    0.005226    0.013901    
0.036193    0.004377    0.946961    0.012469    
0.973804    0.013120    0.006495    0.006581    
0.091862    0.030946    0.004203    0.872988    
0.342717    0.171418    0.420568    0.065297    
0.375026    0.134777    0.032789    0.457408    
0.304001    0.112442    0.086669    0.496888    
0.339600    0.171238    0.144379    0.344783    
0.182987    0.056880    0.174898    0.585235    
Consensus sequence: HDTVAAAACGATRWWHT

Alignment:
HDTVAAAACGATRWWHT
------AAAGATGA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_secondary                   Reverse Complement                      Reverse Complement                      Backward       5              8              0.037515       

Species: Mus musculus

Original motif
0.296417    0.247522    0.206749    0.249312    
0.410113    0.201959    0.303149    0.084779    
0.267313    0.132645    0.452057    0.147985    
0.187929    0.136827    0.427628    0.247616    
0.198671    0.425254    0.234160    0.141915    
0.029244    0.953929    0.004092    0.012734    
0.954570    0.014314    0.018695    0.012421    
0.010025    0.055055    0.845504    0.089415    
0.874802    0.040849    0.069178    0.015172    
0.015084    0.010551    0.008736    0.965628    
0.012981    0.007192    0.965036    0.014791    
0.037724    0.016891    0.495632    0.449753    
0.021685    0.438927    0.056118    0.483270    
0.209872    0.365671    0.139706    0.284751    
0.151815    0.336912    0.289382    0.221891    
0.152995    0.262354    0.416434    0.168217    
0.227567    0.187603    0.447892    0.136938    
Consensus sequence: HVDDVCAGATGKYHBBV

Reverse complement motif
0.227567    0.447892    0.187603    0.136938    
0.152995    0.416434    0.262354    0.168217    
0.151815    0.289382    0.336912    0.221891    
0.209872    0.139706    0.365671    0.284751    
0.483270    0.438927    0.056118    0.021685    
0.037724    0.495632    0.016891    0.449753    
0.012981    0.965036    0.007192    0.014791    
0.965628    0.010551    0.008736    0.015084    
0.015172    0.040849    0.069178    0.874802    
0.010025    0.845504    0.055055    0.089415    
0.012421    0.014314    0.018695    0.954570    
0.029244    0.004092    0.953929    0.012734    
0.198671    0.234160    0.425254    0.141915    
0.187929    0.427628    0.136827    0.247616    
0.267313    0.452057    0.132645    0.147985    
0.084779    0.201959    0.303149    0.410113    
0.249312    0.247522    0.206749    0.296417    
Consensus sequence: VBBDMYCATCTGVHHBH

Alignment:
VBBDMYCATCTGVHHBH
-----TCATCTTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00100        Gata6_primary                      Reverse Complement                      Reverse Complement                      Backward       4              8              0.039168       

Species: Mus musculus

Original motif
0.349779    0.104807    0.163845    0.381569    
0.379507    0.241361    0.162996    0.216137    
0.301570    0.171595    0.216294    0.310541    
0.383341    0.282970    0.194814    0.138875    
0.222790    0.153121    0.314812    0.309278    
0.547714    0.112442    0.004050    0.335794    
0.003590    0.001126    0.990090    0.005194    
0.990511    0.001699    0.001957    0.005833    
0.002023    0.005588    0.002297    0.990092    
0.890935    0.001908    0.001081    0.106076    
0.944095    0.006031    0.009953    0.039921    
0.034723    0.215453    0.721767    0.028058    
0.515733    0.239041    0.204426    0.040800    
0.386668    0.116787    0.252701    0.243844    
0.210568    0.133136    0.175912    0.480385    
0.219610    0.214405    0.172518    0.393466    
0.267885    0.223946    0.338950    0.169218    
Consensus sequence: DHDVDWGATAAGADDHV

Reverse complement motif
0.267885    0.338950    0.223946    0.169218    
0.393466    0.214405    0.172518    0.219610    
0.480385    0.133136    0.175912    0.210568    
0.243844    0.116787    0.252701    0.386668    
0.040800    0.239041    0.204426    0.515733    
0.034723    0.721767    0.215453    0.028058    
0.039921    0.006031    0.009953    0.944095    
0.106076    0.001908    0.001081    0.890935    
0.990092    0.005588    0.002297    0.002023    
0.005833    0.001699    0.001957    0.990511    
0.003590    0.990090    0.001126    0.005194    
0.335794    0.112442    0.004050    0.547714    
0.222790    0.314812    0.153121    0.309278    
0.138875    0.282970    0.194814    0.383341    
0.310541    0.171595    0.216294    0.301570    
0.216137    0.241361    0.162996    0.379507    
0.381569    0.104807    0.163845    0.349779    
Consensus sequence: VHDDTCTTATCWHBDHD

Alignment:
VHDDTCTTATCWHBDHD
------TCATCTTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00419        Spic                               Original Motif                          Original Motif                          Backward       6              8              0.043741       

Species: Mus musculus

Original motif
0.372554    0.181557    0.296001    0.149888    
0.734552    0.057250    0.044752    0.163446    
0.707604    0.045049    0.110341    0.137006    
0.637848    0.057252    0.071934    0.232966    
0.125449    0.108933    0.689441    0.076176    
0.266215    0.517339    0.207018    0.009428    
0.015016    0.002582    0.979670    0.002732    
0.004303    0.002322    0.989973    0.003401    
0.982327    0.003552    0.003393    0.010727    
0.974155    0.001662    0.003294    0.020889    
0.040023    0.128522    0.821560    0.009894    
0.027635    0.045828    0.016297    0.910239    
0.317500    0.045635    0.172234    0.464631    
0.342838    0.107812    0.284775    0.264576    
Consensus sequence: VAAAGMGGAAGTWD

Reverse complement motif
0.264576    0.107812    0.284775    0.342838    
0.464631    0.045635    0.172234    0.317500    
0.910239    0.045828    0.016297    0.027635    
0.040023    0.821560    0.128522    0.009894    
0.020889    0.001662    0.003294    0.974155    
0.010727    0.003552    0.003393    0.982327    
0.004303    0.989973    0.002322    0.003401    
0.015016    0.979670    0.002582    0.002732    
0.266215    0.207018    0.517339    0.009428    
0.125449    0.689441    0.108933    0.076176    
0.232966    0.057252    0.071934    0.637848    
0.137006    0.045049    0.110341    0.707604    
0.163446    0.057250    0.044752    0.734552    
0.149888    0.181557    0.296001    0.372554    
Consensus sequence: DWACTTCCRCTTTB

Alignment:
VAAAGMGGAAGTWD
-AAAGATGA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00199        Six4                               Reverse Complement                      Reverse Complement                      Backward       1              8              0.046722       

Species: Mus musculus

Original motif
0.523054    0.168817    0.140331    0.167798    
0.187385    0.177009    0.246164    0.389442    
0.414492    0.118547    0.308876    0.158085    
0.345234    0.289795    0.130249    0.234723    
0.611522    0.116948    0.098944    0.172586    
0.016342    0.029436    0.015062    0.939161    
0.014351    0.004796    0.962435    0.018418    
0.987454    0.005228    0.002590    0.004727    
0.007431    0.812214    0.005849    0.174506    
0.969354    0.025386    0.002362    0.002898    
0.005123    0.989068    0.003362    0.002447    
0.001424    0.969981    0.012011    0.016585    
0.209729    0.227411    0.210523    0.352337    
0.341679    0.297940    0.104590    0.255792    
0.126190    0.288862    0.245018    0.339930    
0.173008    0.295896    0.252422    0.278674    
0.409639    0.210750    0.296197    0.083415    
Consensus sequence: ADDHATGACACCBHBBV

Reverse complement motif
0.083415    0.210750    0.296197    0.409639    
0.173008    0.252422    0.295896    0.278674    
0.339930    0.288862    0.245018    0.126190    
0.255792    0.297940    0.104590    0.341679    
0.352337    0.227411    0.210523    0.209729    
0.001424    0.012011    0.969981    0.016585    
0.005123    0.003362    0.989068    0.002447    
0.002898    0.025386    0.002362    0.969354    
0.007431    0.005849    0.812214    0.174506    
0.004727    0.005228    0.002590    0.987454    
0.014351    0.962435    0.004796    0.018418    
0.939161    0.029436    0.015062    0.016342    
0.172586    0.116948    0.098944    0.611522    
0.234723    0.289795    0.130249    0.345234    
0.158085    0.118547    0.308876    0.414492    
0.389442    0.177009    0.246164    0.187385    
0.167798    0.168817    0.140331    0.523054    
Consensus sequence: BBVHVGGTGTCATHDDT

Alignment:
BBVHVGGTGTCATHDDT
---------TCATCTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00219        Cutl1_3494.2                       Reverse Complement                      Reverse Complement                      Backward       2              8              0.048317       

Species: Mus musculus

Original motif
0.233720    0.082903    0.208991    0.474386    
0.507651    0.192839    0.165657    0.133852    
0.416857    0.143747    0.322292    0.117104    
0.029365    0.184697    0.093857    0.692081    
0.144573    0.053738    0.658701    0.142989    
0.867186    0.053221    0.032993    0.046600    
0.042812    0.012598    0.006269    0.938320    
0.338930    0.056180    0.507869    0.097021    
0.938320    0.006269    0.012598    0.042812    
0.046600    0.032993    0.053221    0.867186    
0.142989    0.658701    0.053738    0.144573    
0.692081    0.093857    0.184697    0.029365    
0.260491    0.409202    0.153408    0.176899    
0.151407    0.065515    0.123404    0.659674    
0.492484    0.127826    0.190198    0.189491    
Consensus sequence: DAVTGATRATCAHTD

Reverse complement motif
0.189491    0.127826    0.190198    0.492484    
0.659674    0.065515    0.123404    0.151407    
0.260491    0.153408    0.409202    0.176899    
0.029365    0.093857    0.184697    0.692081    
0.142989    0.053738    0.658701    0.144573    
0.867186    0.032993    0.053221    0.046600    
0.042812    0.006269    0.012598    0.938320    
0.338930    0.507869    0.056180    0.097021    
0.938320    0.012598    0.006269    0.042812    
0.046600    0.053221    0.032993    0.867186    
0.144573    0.658701    0.053738    0.142989    
0.692081    0.184697    0.093857    0.029365    
0.117104    0.143747    0.322292    0.416857    
0.133852    0.192839    0.165657    0.507651    
0.474386    0.082903    0.208991    0.233720    
Consensus sequence: DADTGATMATCABTD

Alignment:
DADTGATMATCABTD
------TCATCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00208        Obox5_3963.2                       Original Motif                          Original Motif                          Forward        4              8              0.048825       

Species: Mus musculus

Original motif
0.387261    0.198638    0.227497    0.186604    
0.433519    0.034731    0.333894    0.197856    
0.267661    0.212742    0.354328    0.165269    
0.592496    0.107283    0.224595    0.075627    
0.204749    0.093469    0.661179    0.040603    
0.117847    0.005218    0.874222    0.002713    
0.003947    0.001871    0.982671    0.011511    
0.983643    0.007799    0.001236    0.007322    
0.002525    0.002866    0.003899    0.990710    
0.006852    0.004502    0.001227    0.987419    
0.974671    0.000902    0.002297    0.022129    
0.768669    0.009517    0.017357    0.204456    
0.309857    0.185797    0.068291    0.436055    
0.083091    0.099239    0.032683    0.784987    
0.402339    0.181407    0.250088    0.166166    
0.273450    0.139411    0.090102    0.497037    
0.280230    0.335645    0.216046    0.168079    
Consensus sequence: VRVAGGGATTAAHTVWV

Reverse complement motif
0.280230    0.216046    0.335645    0.168079    
0.497037    0.139411    0.090102    0.273450    
0.166166    0.181407    0.250088    0.402339    
0.784987    0.099239    0.032683    0.083091    
0.436055    0.185797    0.068291    0.309857    
0.204456    0.009517    0.017357    0.768669    
0.022129    0.000902    0.002297    0.974671    
0.987419    0.004502    0.001227    0.006852    
0.990710    0.002866    0.003899    0.002525    
0.007322    0.007799    0.001236    0.983643    
0.003947    0.982671    0.001871    0.011511    
0.117847    0.874222    0.005218    0.002713    
0.204749    0.661179    0.093469    0.040603    
0.075627    0.107283    0.224595    0.592496    
0.267661    0.354328    0.212742    0.165269    
0.197856    0.034731    0.333894    0.433519    
0.186604    0.198638    0.227497    0.387261    
Consensus sequence: VWBAHTTAATCCCTVKB

Alignment:
VRVAGGGATTAAHTVWV
---AAAGATGA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 35		Motif name: Motif 35

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: AGATGYTCTTG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: CAAGAKCATCT


************************************************************************ Best Matches for Motif ID 35 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Reverse Complement                      Original Motif                          Backward       3              11             0.014076       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
----CAAGAKCATCT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_secondary                   Original Motif                          Original Motif                          Forward        7              11             0.017522       

Species: Mus musculus

Original motif
0.296417    0.247522    0.206749    0.249312    
0.410113    0.201959    0.303149    0.084779    
0.267313    0.132645    0.452057    0.147985    
0.187929    0.136827    0.427628    0.247616    
0.198671    0.425254    0.234160    0.141915    
0.029244    0.953929    0.004092    0.012734    
0.954570    0.014314    0.018695    0.012421    
0.010025    0.055055    0.845504    0.089415    
0.874802    0.040849    0.069178    0.015172    
0.015084    0.010551    0.008736    0.965628    
0.012981    0.007192    0.965036    0.014791    
0.037724    0.016891    0.495632    0.449753    
0.021685    0.438927    0.056118    0.483270    
0.209872    0.365671    0.139706    0.284751    
0.151815    0.336912    0.289382    0.221891    
0.152995    0.262354    0.416434    0.168217    
0.227567    0.187603    0.447892    0.136938    
Consensus sequence: HVDDVCAGATGKYHBBV

Reverse complement motif
0.227567    0.447892    0.187603    0.136938    
0.152995    0.416434    0.262354    0.168217    
0.151815    0.289382    0.336912    0.221891    
0.209872    0.139706    0.365671    0.284751    
0.483270    0.438927    0.056118    0.021685    
0.037724    0.495632    0.016891    0.449753    
0.012981    0.965036    0.007192    0.014791    
0.965628    0.010551    0.008736    0.015084    
0.015172    0.040849    0.069178    0.874802    
0.010025    0.845504    0.055055    0.089415    
0.012421    0.014314    0.018695    0.954570    
0.029244    0.004092    0.953929    0.012734    
0.198671    0.234160    0.425254    0.141915    
0.187929    0.427628    0.136827    0.247616    
0.267313    0.452057    0.132645    0.147985    
0.084779    0.201959    0.303149    0.410113    
0.249312    0.247522    0.206749    0.296417    
Consensus sequence: VBBDMYCATCTGVHHBH

Alignment:
HVDDVCAGATGKYHBBV
------AGATGYTCTTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00019        Zbtb12_primary                     Original Motif                          Original Motif                          Backward       6              11             0.020965       

Species: Mus musculus

Original motif
0.163348    0.349811    0.273573    0.213268    
0.212612    0.211975    0.220400    0.355012    
0.325879    0.220972    0.186720    0.266430    
0.510632    0.041115    0.419323    0.028930    
0.067550    0.203499    0.411224    0.317727    
0.023546    0.002038    0.972278    0.002138    
0.017818    0.006841    0.006478    0.968864    
0.019791    0.001443    0.009338    0.969428    
0.003084    0.992130    0.002654    0.002131    
0.001031    0.039768    0.003588    0.955613    
0.980811    0.006260    0.008964    0.003965    
0.013624    0.002796    0.979716    0.003863    
0.841198    0.016422    0.129217    0.013163    
0.169265    0.145424    0.085753    0.599558    
0.068235    0.584950    0.065758    0.281057    
0.378189    0.252218    0.209355    0.160238    
0.167389    0.305726    0.229730    0.297156    
Consensus sequence: BDHRBGTTCTAGATCVB

Reverse complement motif
0.167389    0.229730    0.305726    0.297156    
0.160238    0.252218    0.209355    0.378189    
0.068235    0.065758    0.584950    0.281057    
0.599558    0.145424    0.085753    0.169265    
0.013163    0.016422    0.129217    0.841198    
0.013624    0.979716    0.002796    0.003863    
0.003965    0.006260    0.008964    0.980811    
0.955613    0.039768    0.003588    0.001031    
0.003084    0.002654    0.992130    0.002131    
0.969428    0.001443    0.009338    0.019791    
0.968864    0.006841    0.006478    0.017818    
0.023546    0.972278    0.002038    0.002138    
0.067550    0.411224    0.203499    0.317727    
0.028930    0.041115    0.419323    0.510632    
0.266430    0.220972    0.186720    0.325879    
0.355012    0.211975    0.220400    0.212612    
0.163348    0.273573    0.349811    0.213268    
Consensus sequence: BBGATCTAGAACBKHDB

Alignment:
BDHRBGTTCTAGATCVB
-AGATGYTCTTG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00099        Ascl2_primary                      Original Motif                          Original Motif                          Forward        7              11             0.030270       

Species: Mus musculus

Original motif
0.168852    0.325948    0.188604    0.316596    
0.150343    0.193286    0.241301    0.415069    
0.091518    0.482905    0.122928    0.302648    
0.472493    0.198776    0.225796    0.102935    
0.294513    0.179919    0.447250    0.078318    
0.014660    0.972080    0.005591    0.007668    
0.954848    0.008107    0.008474    0.028571    
0.006076    0.178912    0.760021    0.054991    
0.052082    0.817415    0.124797    0.005707    
0.019342    0.010406    0.008905    0.961347    
0.005455    0.008073    0.977684    0.008788    
0.042946    0.715551    0.087020    0.154483    
0.116888    0.241739    0.170073    0.471300    
0.315931    0.324343    0.291451    0.068274    
0.199164    0.366921    0.163690    0.270226    
0.218561    0.211076    0.187732    0.382631    
0.145317    0.139808    0.389262    0.325614    
Consensus sequence: BBYVVCAGCTGCBVHHD

Reverse complement motif
0.145317    0.389262    0.139808    0.325614    
0.382631    0.211076    0.187732    0.218561    
0.199164    0.163690    0.366921    0.270226    
0.315931    0.291451    0.324343    0.068274    
0.471300    0.241739    0.170073    0.116888    
0.042946    0.087020    0.715551    0.154483    
0.005455    0.977684    0.008073    0.008788    
0.961347    0.010406    0.008905    0.019342    
0.052082    0.124797    0.817415    0.005707    
0.006076    0.760021    0.178912    0.054991    
0.028571    0.008107    0.008474    0.954848    
0.014660    0.005591    0.972080    0.007668    
0.294513    0.447250    0.179919    0.078318    
0.102935    0.198776    0.225796    0.472493    
0.091518    0.122928    0.482905    0.302648    
0.415069    0.193286    0.241301    0.150343    
0.168852    0.188604    0.325948    0.316596    
Consensus sequence: HHDVVGCAGCTGVBKVB

Alignment:
BBYVVCAGCTGCBVHHD
------AGATGYTCTTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Reverse Complement                      Original Motif                          Backward       2              11             0.031755       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
----CAAGAKCATCT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_secondary                    Original Motif                          Reverse Complement                      Backward       5              11             0.032905       

Species: Mus musculus

Original motif
0.240753    0.425595    0.141281    0.192371    
0.367715    0.247224    0.117353    0.267708    
0.489169    0.220343    0.113844    0.176644    
0.742256    0.042809    0.146704    0.068231    
0.078936    0.546144    0.032328    0.342592    
0.588419    0.293580    0.082117    0.035885    
0.913924    0.026256    0.050778    0.009042    
0.009007    0.565680    0.010683    0.414630    
0.947562    0.020878    0.018821    0.012739    
0.901384    0.021519    0.030204    0.046893    
0.077157    0.797900    0.026432    0.098511    
0.824314    0.040128    0.051910    0.083648    
0.254436    0.342235    0.143789    0.259539    
0.319400    0.338163    0.129746    0.212691    
0.231014    0.260719    0.169042    0.339225    
Consensus sequence: HHHAYAAYAACAHHH

Reverse complement motif
0.339225    0.260719    0.169042    0.231014    
0.319400    0.129746    0.338163    0.212691    
0.254436    0.143789    0.342235    0.259539    
0.083648    0.040128    0.051910    0.824314    
0.077157    0.026432    0.797900    0.098511    
0.046893    0.021519    0.030204    0.901384    
0.012739    0.020878    0.018821    0.947562    
0.009007    0.010683    0.565680    0.414630    
0.009042    0.026256    0.050778    0.913924    
0.035885    0.293580    0.082117    0.588419    
0.078936    0.032328    0.546144    0.342592    
0.068231    0.042809    0.146704    0.742256    
0.176644    0.220343    0.113844    0.489169    
0.267708    0.247224    0.117353    0.367715    
0.240753    0.141281    0.425595    0.192371    
Consensus sequence: HDDTGTTKTTKTHHD

Alignment:
HDDTGTTKTTKTHHD
AGATGYTCTTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Original Motif                          Original Motif                          Forward        9              11             0.035060       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
--------AGATGYTCTTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_secondary                    Original Motif                          Original Motif                          Backward       6              11             0.036670       

Species: Mus musculus

Original motif
0.177641    0.319872    0.115137    0.387350    
0.136644    0.182137    0.205873    0.475347    
0.254263    0.244280    0.165207    0.336250    
0.240415    0.207557    0.237497    0.314530    
0.271041    0.214702    0.364395    0.149863    
0.095475    0.320104    0.191738    0.392682    
0.500902    0.142722    0.026556    0.329820    
0.051221    0.023698    0.897245    0.027836    
0.922410    0.027509    0.024058    0.026023    
0.030735    0.070903    0.024248    0.874114    
0.242120    0.231992    0.225143    0.300745    
0.106956    0.220471    0.283490    0.389083    
0.152079    0.165830    0.135066    0.547025    
0.839205    0.051581    0.060119    0.049095    
0.041204    0.069147    0.070830    0.818819    
0.051861    0.848177    0.027599    0.072363    
0.383793    0.016807    0.397470    0.201931    
0.381899    0.215846    0.255908    0.146347    
0.094792    0.358651    0.280905    0.265652    
0.296132    0.181545    0.178433    0.343890    
0.301997    0.254722    0.108566    0.334714    
0.349481    0.270693    0.137507    0.242319    
Consensus sequence: HBHDVBWGATHBTATCRVBHHH

Reverse complement motif
0.242319    0.270693    0.137507    0.349481    
0.334714    0.254722    0.108566    0.301997    
0.343890    0.181545    0.178433    0.296132    
0.094792    0.280905    0.358651    0.265652    
0.146347    0.215846    0.255908    0.381899    
0.383793    0.397470    0.016807    0.201931    
0.051861    0.027599    0.848177    0.072363    
0.818819    0.069147    0.070830    0.041204    
0.049095    0.051581    0.060119    0.839205    
0.547025    0.165830    0.135066    0.152079    
0.389083    0.220471    0.283490    0.106956    
0.300745    0.231992    0.225143    0.242120    
0.874114    0.070903    0.024248    0.030735    
0.026023    0.027509    0.024058    0.922410    
0.051221    0.897245    0.023698    0.027836    
0.329820    0.142722    0.026556    0.500902    
0.392682    0.320104    0.191738    0.095475    
0.271041    0.364395    0.214702    0.149863    
0.314530    0.207557    0.237497    0.240415    
0.336250    0.244280    0.165207    0.254263    
0.475347    0.182137    0.205873    0.136644    
0.387350    0.319872    0.115137    0.177641    
Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Alignment:
HBHDVBWGATHBTATCRVBHHH
------AGATGYTCTTG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00047        Zbtb7b_secondary                   Original Motif                          Reverse Complement                      Forward        5              11             0.036798       

Species: Mus musculus

Original motif
0.203365    0.307129    0.203712    0.285795    
0.306328    0.182359    0.203143    0.308170    
0.220878    0.174035    0.265341    0.339746    
0.475421    0.085294    0.281054    0.158231    
0.395971    0.330114    0.260810    0.013104    
0.001970    0.006366    0.962058    0.029606    
0.907785    0.081900    0.001279    0.009036    
0.008745    0.981422    0.002970    0.006863    
0.006791    0.966163    0.017605    0.009441    
0.894233    0.081139    0.004949    0.019679    
0.007553    0.970771    0.004892    0.016783    
0.016719    0.797465    0.011842    0.173974    
0.415678    0.189952    0.165207    0.229163    
0.092707    0.182206    0.346121    0.378967    
0.175722    0.130498    0.215118    0.478662    
0.365762    0.163282    0.315788    0.155168    
0.214734    0.272805    0.243194    0.269267    
Consensus sequence: BDDRVGACCACCHBDVB

Reverse complement motif
0.214734    0.243194    0.272805    0.269267    
0.155168    0.163282    0.315788    0.365762    
0.478662    0.130498    0.215118    0.175722    
0.378967    0.182206    0.346121    0.092707    
0.229163    0.189952    0.165207    0.415678    
0.016719    0.011842    0.797465    0.173974    
0.007553    0.004892    0.970771    0.016783    
0.019679    0.081139    0.004949    0.894233    
0.006791    0.017605    0.966163    0.009441    
0.008745    0.002970    0.981422    0.006863    
0.009036    0.081900    0.001279    0.907785    
0.001970    0.962058    0.006366    0.029606    
0.013104    0.330114    0.260810    0.395971    
0.158231    0.085294    0.281054    0.475421    
0.339746    0.174035    0.265341    0.220878    
0.308170    0.182359    0.203143    0.306328    
0.203365    0.203712    0.307129    0.285795    
Consensus sequence: BBDVHGGTGGTCBKDDB

Alignment:
BBDVHGGTGGTCBKDDB
----AGATGYTCTTG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Reverse Complement                      Original Motif                          Backward       7              11             0.038145       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
HTBVVVDGGACCACCCRGRDBG
-----CAAGAKCATCT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 36		Motif name: Motif 36

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TGGTGTCA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TGACACCA


************************************************************************ Best Matches for Motif ID 36 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00199        Six4                               Reverse Complement                      Original Motif                          Forward        6              8              0.000000       

Species: Mus musculus

Original motif
0.523054    0.168817    0.140331    0.167798    
0.187385    0.177009    0.246164    0.389442    
0.414492    0.118547    0.308876    0.158085    
0.345234    0.289795    0.130249    0.234723    
0.611522    0.116948    0.098944    0.172586    
0.016342    0.029436    0.015062    0.939161    
0.014351    0.004796    0.962435    0.018418    
0.987454    0.005228    0.002590    0.004727    
0.007431    0.812214    0.005849    0.174506    
0.969354    0.025386    0.002362    0.002898    
0.005123    0.989068    0.003362    0.002447    
0.001424    0.969981    0.012011    0.016585    
0.209729    0.227411    0.210523    0.352337    
0.341679    0.297940    0.104590    0.255792    
0.126190    0.288862    0.245018    0.339930    
0.173008    0.295896    0.252422    0.278674    
0.409639    0.210750    0.296197    0.083415    
Consensus sequence: ADDHATGACACCBHBBV

Reverse complement motif
0.083415    0.210750    0.296197    0.409639    
0.173008    0.252422    0.295896    0.278674    
0.339930    0.288862    0.245018    0.126190    
0.255792    0.297940    0.104590    0.341679    
0.352337    0.227411    0.210523    0.209729    
0.001424    0.012011    0.969981    0.016585    
0.005123    0.003362    0.989068    0.002447    
0.002898    0.025386    0.002362    0.969354    
0.007431    0.005849    0.812214    0.174506    
0.004727    0.005228    0.002590    0.987454    
0.014351    0.962435    0.004796    0.018418    
0.939161    0.029436    0.015062    0.016342    
0.172586    0.116948    0.098944    0.611522    
0.234723    0.289795    0.130249    0.345234    
0.158085    0.118547    0.308876    0.414492    
0.389442    0.177009    0.246164    0.187385    
0.167798    0.168817    0.140331    0.523054    
Consensus sequence: BBVHVGGTGTCATHDDT

Alignment:
ADDHATGACACCBHBBV
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00388        Six6_2267.4                        Reverse Complement                      Reverse Complement                      Forward        6              8              0.033561       

Species: Mus musculus

Original motif
0.330559    0.118371    0.278738    0.272331    
0.605486    0.104492    0.066247    0.223775    
0.180170    0.051522    0.131669    0.636639    
0.431457    0.173748    0.323416    0.071378    
0.131729    0.037944    0.812991    0.017337    
0.022726    0.033975    0.914981    0.028317    
0.138556    0.012597    0.847660    0.001188    
0.001916    0.001156    0.046653    0.950276    
0.965626    0.001518    0.031319    0.001536    
0.003782    0.001412    0.002175    0.992631    
0.006601    0.979412    0.002328    0.011660    
0.947233    0.007670    0.017734    0.027363    
0.374066    0.305253    0.063914    0.256767    
0.267070    0.210201    0.216997    0.305732    
0.294988    0.127424    0.094154    0.483434    
0.354130    0.195592    0.176636    0.273642    
0.094874    0.110275    0.192261    0.602591    
Consensus sequence: DATRGGGTATCAHDWHT

Reverse complement motif
0.602591    0.110275    0.192261    0.094874    
0.273642    0.195592    0.176636    0.354130    
0.483434    0.127424    0.094154    0.294988    
0.305732    0.210201    0.216997    0.267070    
0.256767    0.305253    0.063914    0.374066    
0.027363    0.007670    0.017734    0.947233    
0.006601    0.002328    0.979412    0.011660    
0.992631    0.001412    0.002175    0.003782    
0.001536    0.001518    0.031319    0.965626    
0.950276    0.001156    0.046653    0.001916    
0.138556    0.847660    0.012597    0.001188    
0.022726    0.914981    0.033975    0.028317    
0.131729    0.812991    0.037944    0.017337    
0.071378    0.173748    0.323416    0.431457    
0.636639    0.051522    0.131669    0.180170    
0.223775    0.104492    0.066247    0.605486    
0.272331    0.118371    0.278738    0.330559    
Consensus sequence: AHWDHTGATACCCKATD

Alignment:
AHWDHTGATACCCKATD
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00159        Six2                               Reverse Complement                      Reverse Complement                      Backward       5              8              0.034289       

Species: Mus musculus

Original motif
0.452545    0.099192    0.290852    0.157411    
0.587199    0.117373    0.086707    0.208721    
0.191837    0.044362    0.256539    0.507262    
0.299111    0.107464    0.518651    0.074774    
0.118226    0.040974    0.797168    0.043631    
0.010113    0.030311    0.923661    0.035916    
0.126925    0.002828    0.869144    0.001103    
0.001338    0.000719    0.046297    0.951646    
0.958864    0.001525    0.038365    0.001246    
0.003353    0.001741    0.001927    0.992979    
0.007665    0.981087    0.001717    0.009531    
0.903866    0.022768    0.054074    0.019292    
0.165996    0.505327    0.077238    0.251439    
0.252666    0.168847    0.288545    0.289942    
0.336830    0.080857    0.058862    0.523451    
0.234102    0.268721    0.215252    0.281925    
0.172036    0.083695    0.223889    0.520379    
Consensus sequence: DAKRGGGTATCACDWHT

Reverse complement motif
0.520379    0.083695    0.223889    0.172036    
0.281925    0.268721    0.215252    0.234102    
0.523451    0.080857    0.058862    0.336830    
0.289942    0.168847    0.288545    0.252666    
0.165996    0.077238    0.505327    0.251439    
0.019292    0.022768    0.054074    0.903866    
0.007665    0.001717    0.981087    0.009531    
0.992979    0.001741    0.001927    0.003353    
0.001246    0.001525    0.038365    0.958864    
0.951646    0.000719    0.046297    0.001338    
0.126925    0.869144    0.002828    0.001103    
0.010113    0.923661    0.030311    0.035916    
0.118226    0.797168    0.040974    0.043631    
0.299111    0.518651    0.107464    0.074774    
0.507262    0.044362    0.256539    0.191837    
0.208721    0.117373    0.086707    0.587199    
0.157411    0.099192    0.290852    0.452545    
Consensus sequence: AHWDGTGATACCCMRTD

Alignment:
AHWDGTGATACCCMRTD
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Reverse Complement                      Original Motif                          Forward        6              8              0.034602       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
DBHBDTGACCCCDHVHB
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_secondary                    Original Motif                          Original Motif                          Backward       6              8              0.034918       

Species: Mus musculus

Original motif
0.252126    0.268706    0.351590    0.127578    
0.158171    0.083434    0.389646    0.368749    
0.180010    0.290882    0.279192    0.249916    
0.206905    0.249360    0.275438    0.268296    
0.756588    0.046202    0.023921    0.173289    
0.018262    0.022596    0.949143    0.010000    
0.206468    0.046491    0.745475    0.001566    
0.005511    0.001141    0.983152    0.010196    
0.004791    0.001893    0.985951    0.007365    
0.027643    0.001133    0.008565    0.962659    
0.002459    0.970934    0.007826    0.018780    
0.924387    0.003164    0.071225    0.001224    
0.419387    0.230189    0.111588    0.238836    
0.290954    0.163823    0.341233    0.203991    
0.196768    0.281307    0.313868    0.208056    
0.128428    0.260428    0.378607    0.232537    
0.269305    0.378895    0.123480    0.228320    
Consensus sequence: VKBBAGGGGTCAHDBBH

Reverse complement motif
0.269305    0.123480    0.378895    0.228320    
0.128428    0.378607    0.260428    0.232537    
0.196768    0.313868    0.281307    0.208056    
0.290954    0.341233    0.163823    0.203991    
0.238836    0.230189    0.111588    0.419387    
0.001224    0.003164    0.071225    0.924387    
0.002459    0.007826    0.970934    0.018780    
0.962659    0.001133    0.008565    0.027643    
0.004791    0.985951    0.001893    0.007365    
0.005511    0.983152    0.001141    0.010196    
0.206468    0.745475    0.046491    0.001566    
0.018262    0.949143    0.022596    0.010000    
0.173289    0.046202    0.023921    0.756588    
0.206905    0.275438    0.249360    0.268296    
0.180010    0.279192    0.290882    0.249916    
0.158171    0.389646    0.083434    0.368749    
0.252126    0.351590    0.268706    0.127578    
Consensus sequence: DBBHHTGACCCCTBBYV

Alignment:
VKBBAGGGGTCAHDBBH
----TGGTGTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Original Motif                          Reverse Complement                      Backward       6              8              0.035471       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DBVVAGCTGTCAWWVTH
----TGGTGTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00192        Six1                               Reverse Complement                      Reverse Complement                      Forward        6              8              0.035555       

Species: Mus musculus

Original motif
0.319306    0.130147    0.399309    0.151238    
0.482636    0.211172    0.085871    0.220321    
0.214292    0.085504    0.207353    0.492851    
0.392819    0.136859    0.403883    0.066438    
0.215886    0.049341    0.685932    0.048842    
0.039793    0.053756    0.870240    0.036211    
0.202525    0.005026    0.791396    0.001053    
0.001092    0.001021    0.052968    0.944919    
0.963185    0.001738    0.033596    0.001480    
0.002017    0.001886    0.002847    0.993250    
0.009914    0.974962    0.001987    0.013137    
0.909252    0.021586    0.037899    0.031263    
0.177851    0.274190    0.117998    0.429961    
0.228906    0.159459    0.303955    0.307681    
0.330938    0.158106    0.118706    0.392251    
0.160453    0.267920    0.280244    0.291383    
0.176707    0.068175    0.229538    0.525580    
Consensus sequence: DHDRGGGTATCAHDHBT

Reverse complement motif
0.525580    0.068175    0.229538    0.176707    
0.291383    0.267920    0.280244    0.160453    
0.392251    0.158106    0.118706    0.330938    
0.307681    0.159459    0.303955    0.228906    
0.429961    0.274190    0.117998    0.177851    
0.031263    0.021586    0.037899    0.909252    
0.009914    0.001987    0.974962    0.013137    
0.993250    0.001886    0.002847    0.002017    
0.001480    0.001738    0.033596    0.963185    
0.944919    0.001021    0.052968    0.001092    
0.202525    0.791396    0.005026    0.001053    
0.039793    0.870240    0.053756    0.036211    
0.215886    0.685932    0.049341    0.048842    
0.392819    0.403883    0.136859    0.066438    
0.492851    0.085504    0.207353    0.214292    
0.220321    0.211172    0.085871    0.482636    
0.319306    0.399309    0.130147    0.151238    
Consensus sequence: AVHDHTGATACCCMDHH

Alignment:
AVHDHTGATACCCMDHH
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00388        Six6_2267.5                        Reverse Complement                      Reverse Complement                      Backward       5              8              0.035579       

Species: Mus musculus

Original motif
0.357565    0.095438    0.345110    0.201887    
0.415206    0.108701    0.160030    0.316063    
0.276710    0.105226    0.183597    0.434468    
0.461481    0.135300    0.303126    0.100093    
0.190186    0.035578    0.728290    0.045946    
0.040893    0.024794    0.889495    0.044817    
0.197092    0.018297    0.781124    0.003487    
0.005212    0.002190    0.027421    0.965178    
0.970183    0.002451    0.021340    0.006025    
0.004645    0.002381    0.003788    0.989186    
0.017413    0.955357    0.007268    0.019962    
0.927889    0.018513    0.013421    0.040177    
0.411060    0.139133    0.096462    0.353345    
0.215585    0.237932    0.205422    0.341060    
0.409189    0.134754    0.084179    0.371879    
0.210772    0.273586    0.108006    0.407635    
0.091781    0.159161    0.216288    0.532770    
Consensus sequence: DDDRGGGTATCAWHWHT

Reverse complement motif
0.532770    0.159161    0.216288    0.091781    
0.407635    0.273586    0.108006    0.210772    
0.371879    0.134754    0.084179    0.409189    
0.341060    0.237932    0.205422    0.215585    
0.353345    0.139133    0.096462    0.411060    
0.040177    0.018513    0.013421    0.927889    
0.017413    0.007268    0.955357    0.019962    
0.989186    0.002381    0.003788    0.004645    
0.006025    0.002451    0.021340    0.970183    
0.965178    0.002190    0.027421    0.005212    
0.197092    0.781124    0.018297    0.003487    
0.040893    0.889495    0.024794    0.044817    
0.190186    0.728290    0.035578    0.045946    
0.100093    0.135300    0.303126    0.461481    
0.434468    0.105226    0.183597    0.276710    
0.316063    0.108701    0.160030    0.415206    
0.201887    0.095438    0.345110    0.357565    
Consensus sequence: AHWHWTGATACCCKDDD

Alignment:
AHWHWTGATACCCKDDD
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_primary                      Reverse Complement                      Reverse Complement                      Forward        6              8              0.036216       

Species: Mus musculus

Original motif
0.186316    0.215541    0.297644    0.300499    
0.300381    0.234276    0.266283    0.199061    
0.317841    0.211418    0.183235    0.287507    
0.482598    0.095323    0.245062    0.177017    
0.654197    0.008988    0.261951    0.074864    
0.095656    0.022883    0.843364    0.038097    
0.002655    0.008355    0.976390    0.012600    
0.003287    0.080755    0.001057    0.914900    
0.006753    0.001517    0.989917    0.001813    
0.039940    0.098800    0.003305    0.857955    
0.009015    0.039036    0.844029    0.107921    
0.984070    0.002369    0.008852    0.004709    
0.789505    0.101528    0.029294    0.079672    
0.649685    0.139882    0.090466    0.119966    
0.421759    0.205595    0.073074    0.299573    
0.214779    0.290522    0.134050    0.360649    
0.202141    0.270323    0.176798    0.350738    
Consensus sequence: BVHDAGGTGTGAAAHHH

Reverse complement motif
0.350738    0.270323    0.176798    0.202141    
0.360649    0.290522    0.134050    0.214779    
0.299573    0.205595    0.073074    0.421759    
0.119966    0.139882    0.090466    0.649685    
0.079672    0.101528    0.029294    0.789505    
0.004709    0.002369    0.008852    0.984070    
0.009015    0.844029    0.039036    0.107921    
0.857955    0.098800    0.003305    0.039940    
0.006753    0.989917    0.001517    0.001813    
0.914900    0.080755    0.001057    0.003287    
0.002655    0.976390    0.008355    0.012600    
0.095656    0.843364    0.022883    0.038097    
0.074864    0.008988    0.261951    0.654197    
0.177017    0.095323    0.245062    0.482598    
0.287507    0.211418    0.183235    0.317841    
0.199061    0.234276    0.266283    0.300381    
0.300499    0.215541    0.297644    0.186316    
Consensus sequence: HHHTTTCACACCTDHBV

Alignment:
HHHTTTCACACCTDHBV
-----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00258        Tgif2                              Reverse Complement                      Reverse Complement                      Forward        5              8              0.037383       

Species: Mus musculus

Original motif
0.519684    0.141807    0.112153    0.226356    
0.614097    0.079211    0.138045    0.168647    
0.186975    0.327654    0.245051    0.240320    
0.108289    0.303530    0.219106    0.369076    
0.914812    0.012014    0.046628    0.026546    
0.070482    0.163253    0.689315    0.076951    
0.016354    0.972639    0.003648    0.007359    
0.002043    0.018718    0.000384    0.978855    
0.006109    0.001408    0.990736    0.001747    
0.024783    0.002060    0.000402    0.972755    
0.001485    0.991963    0.001756    0.004796    
0.989335    0.001052    0.002320    0.007293    
0.778804    0.056366    0.037632    0.127198    
0.377980    0.094597    0.086888    0.440535    
0.458125    0.289431    0.152762    0.099682    
0.223103    0.435348    0.216962    0.124587    
Consensus sequence: AABBAGCTGTCAAWVV

Reverse complement motif
0.223103    0.216962    0.435348    0.124587    
0.099682    0.289431    0.152762    0.458125    
0.440535    0.094597    0.086888    0.377980    
0.127198    0.056366    0.037632    0.778804    
0.007293    0.001052    0.002320    0.989335    
0.001485    0.001756    0.991963    0.004796    
0.972755    0.002060    0.000402    0.024783    
0.006109    0.990736    0.001408    0.001747    
0.978855    0.018718    0.000384    0.002043    
0.016354    0.003648    0.972639    0.007359    
0.070482    0.689315    0.163253    0.076951    
0.026546    0.012014    0.046628    0.914812    
0.369076    0.303530    0.219106    0.108289    
0.186975    0.245051    0.327654    0.240320    
0.168647    0.079211    0.138045    0.614097    
0.226356    0.141807    0.112153    0.519684    
Consensus sequence: VBWTTGACAGCTVBTT

Alignment:
VBWTTGACAGCTVBTT
----TGACACCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 37		Motif name: Motif 37

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: ACTTTGG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: CCAAAGT


************************************************************************ Best Matches for Motif ID 37 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Reverse Complement                      Original Motif                          Backward       8              7              0.000000       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
BBHHAAAGTCCAMTHH
--CCAAAGT-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Reverse Complement                      Reverse Complement                      Forward        7              7              0.012838       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
------CCAAAGT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Reverse Complement                      Original Motif                          Backward       8              7              0.014085       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
---CCAAAGT-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Reverse Complement                      Reverse Complement                      Backward       5              7              0.014116       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
BDDASATCAAAGGMDDD
------CCAAAGT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Reverse Complement                      Forward        5              7              0.015980       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HHBBMCTTTGTTHDDBH
----ACTTTGG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Reverse Complement                      Forward        5              7              0.018161       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HHBTMCTTTGTTMDDVH
----ACTTTGG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Reverse Complement                      Forward        5              7              0.020076       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHKVCTTTGATSTHHH
----ACTTTGG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Reverse Complement                      Forward        5              7              0.023024       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
HHHTCCTTTGATSTHHV
----ACTTTGG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00413        Elf4                               Reverse Complement                      Reverse Complement                      Backward       5              7              0.028333       

Species: Mus musculus

Original motif
0.349744    0.139466    0.209326    0.301464    
0.080478    0.359482    0.307083    0.252956    
0.145756    0.213763    0.350557    0.289924    
0.317307    0.199359    0.096089    0.387245    
0.868576    0.009724    0.088821    0.032878    
0.001975    0.827004    0.014159    0.156862    
0.045494    0.000985    0.001907    0.951615    
0.011012    0.001203    0.002186    0.985599    
0.002743    0.992908    0.002226    0.002123    
0.001498    0.990840    0.001556    0.006106    
0.000951    0.005138    0.880591    0.113319    
0.003127    0.107962    0.867980    0.020930    
0.156602    0.055355    0.396563    0.391480    
0.421246    0.049379    0.084495    0.444880    
0.223879    0.068063    0.203809    0.504249    
0.144100    0.323579    0.131544    0.400777    
Consensus sequence: DBBHACTTCCGGKWTH

Reverse complement motif
0.400777    0.323579    0.131544    0.144100    
0.504249    0.068063    0.203809    0.223879    
0.444880    0.049379    0.084495    0.421246    
0.156602    0.396563    0.055355    0.391480    
0.003127    0.867980    0.107962    0.020930    
0.000951    0.880591    0.005138    0.113319    
0.001498    0.001556    0.990840    0.006106    
0.002743    0.002226    0.992908    0.002123    
0.985599    0.001203    0.002186    0.011012    
0.951615    0.000985    0.001907    0.045494    
0.001975    0.014159    0.827004    0.156862    
0.032878    0.009724    0.088821    0.868576    
0.387245    0.199359    0.096089    0.317307    
0.145756    0.350557    0.213763    0.289924    
0.080478    0.307083    0.359482    0.252956    
0.301464    0.139466    0.209326    0.349744    
Consensus sequence: HAWYCCGGAAGTHBBD

Alignment:
HAWYCCGGAAGTHBBD
-----CCAAAGT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00418        Etv6                               Reverse Complement                      Reverse Complement                      Forward        6              7              0.028729       

Species: Mus musculus

Original motif
0.354972    0.069107    0.299350    0.276571    
0.209701    0.408003    0.227382    0.154914    
0.284336    0.375266    0.162604    0.177794    
0.176569    0.181438    0.342172    0.299820    
0.106551    0.204378    0.060299    0.628772    
0.884088    0.003252    0.103113    0.009546    
0.001110    0.704391    0.006294    0.288205    
0.014992    0.000892    0.001401    0.982714    
0.004842    0.001887    0.002470    0.990801    
0.002724    0.992864    0.002206    0.002206    
0.001792    0.991200    0.001615    0.005393    
0.005151    0.010157    0.940259    0.044433    
0.017780    0.199839    0.761921    0.020459    
0.230834    0.269936    0.119652    0.379577    
0.233019    0.093692    0.034743    0.638546    
0.194739    0.181763    0.175340    0.448159    
0.145452    0.293709    0.335917    0.224922    
Consensus sequence: DVHBTACTTCCGGHTHB

Reverse complement motif
0.145452    0.335917    0.293709    0.224922    
0.448159    0.181763    0.175340    0.194739    
0.638546    0.093692    0.034743    0.233019    
0.379577    0.269936    0.119652    0.230834    
0.017780    0.761921    0.199839    0.020459    
0.005151    0.940259    0.010157    0.044433    
0.001792    0.001615    0.991200    0.005393    
0.002724    0.002206    0.992864    0.002206    
0.990801    0.001887    0.002470    0.004842    
0.982714    0.000892    0.001401    0.014992    
0.001110    0.006294    0.704391    0.288205    
0.009546    0.003252    0.103113    0.884088    
0.628772    0.204378    0.060299    0.106551    
0.176569    0.342172    0.181438    0.299820    
0.284336    0.162604    0.375266    0.177794    
0.209701    0.227382    0.408003    0.154914    
0.276571    0.069107    0.299350    0.354972    
Consensus sequence: BHAHCCGGAAGTABDVD

Alignment:
BHAHCCGGAAGTABDVD
-----CCAAAGT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 38		Motif name: Motif 38

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: ATKAYTTTG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: CAAAKTYAT


************************************************************************ Best Matches for Motif ID 38 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Reverse Complement                      Forward        5              9              0.015920       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
HHBVHTGACCTTGVDHD
----ATKAYTTTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Reverse Complement                      Backward       8              9              0.018277       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
HHHTCCTTTGATSTHHV
-ATKAYTTTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Reverse Complement                      Forward        2              9              0.018650       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHKVCTTTGATSTHHH
-ATKAYTTTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Reverse Complement                      Backward       8              9              0.019272       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HHBBMCTTTGTTHDDBH
-ATKAYTTTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Reverse Complement                      Forward        2              9              0.022524       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HHBTMCTTTGTTMDDVH
-ATKAYTTTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00200        Nkx6-1_2825.1                      Original Motif                          Original Motif                          Backward       1              9              0.023974       

Species: Mus musculus

Original motif
0.227745    0.143729    0.473157    0.155369    
0.339118    0.308916    0.205493    0.146474    
0.345779    0.158724    0.153018    0.342479    
0.557584    0.079553    0.110321    0.252542    
0.771651    0.018170    0.024962    0.185218    
0.184990    0.007357    0.023611    0.784042    
0.004607    0.044635    0.000601    0.950157    
0.986717    0.002383    0.004487    0.006413    
0.983766    0.001866    0.002672    0.011697    
0.017243    0.002934    0.001772    0.978051    
0.012392    0.014879    0.166863    0.805867    
0.883539    0.002678    0.087438    0.026345    
0.315534    0.452703    0.102959    0.128804    
0.115226    0.301679    0.112527    0.470568    
0.136048    0.255000    0.214893    0.394059    
0.142643    0.308403    0.250214    0.298740    
0.061431    0.237193    0.507859    0.193517    
Consensus sequence: DVHAATTAATTAMYBBG

Reverse complement motif
0.061431    0.507859    0.237193    0.193517    
0.142643    0.250214    0.308403    0.298740    
0.394059    0.255000    0.214893    0.136048    
0.470568    0.301679    0.112527    0.115226    
0.315534    0.102959    0.452703    0.128804    
0.026345    0.002678    0.087438    0.883539    
0.805867    0.014879    0.166863    0.012392    
0.978051    0.002934    0.001772    0.017243    
0.011697    0.001866    0.002672    0.983766    
0.006413    0.002383    0.004487    0.986717    
0.950157    0.044635    0.000601    0.004607    
0.784042    0.007357    0.023611    0.184990    
0.185218    0.018170    0.024962    0.771651    
0.252542    0.079553    0.110321    0.557584    
0.342479    0.158724    0.153018    0.345779    
0.146474    0.308916    0.205493    0.339118    
0.227745    0.473157    0.143729    0.155369    
Consensus sequence: CBVMRTAATTAATTHBH

Alignment:
DVHAATTAATTAMYBBG
--------ATKAYTTTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Reverse Complement                      Reverse Complement                      Forward        8              9              0.024047       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
-------CAAAKTYAT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Original Motif                          Original Motif                          Forward        2              9              0.025343       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
DDDYCCTTTGATSTDDV
-ATKAYTTTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00167        En1                                Original Motif                          Reverse Complement                      Backward       2              9              0.025990       

Species: Mus musculus

Original motif
0.225324    0.200755    0.409800    0.164122    
0.229000    0.311958    0.294484    0.164558    
0.279127    0.279600    0.289348    0.151924    
0.731839    0.146527    0.080429    0.041204    
0.815756    0.078552    0.067059    0.038633    
0.113802    0.539919    0.107461    0.238817    
0.004782    0.154753    0.001038    0.839427    
0.972174    0.003850    0.019756    0.004220    
0.988578    0.002699    0.005007    0.003715    
0.007014    0.002380    0.003761    0.986845    
0.007181    0.008818    0.009221    0.974780    
0.966805    0.003637    0.016918    0.012641    
0.482834    0.077180    0.332986    0.107001    
0.055785    0.135179    0.371295    0.437741    
0.232569    0.181896    0.369752    0.215783    
0.203976    0.486402    0.200623    0.108999    
Consensus sequence: VVVAACTAATTARKDV

Reverse complement motif
0.203976    0.200623    0.486402    0.108999    
0.232569    0.369752    0.181896    0.215783    
0.437741    0.135179    0.371295    0.055785    
0.107001    0.077180    0.332986    0.482834    
0.012641    0.003637    0.016918    0.966805    
0.974780    0.008818    0.009221    0.007181    
0.986845    0.002380    0.003761    0.007014    
0.003715    0.002699    0.005007    0.988578    
0.004220    0.003850    0.019756    0.972174    
0.839427    0.154753    0.001038    0.004782    
0.113802    0.107461    0.539919    0.238817    
0.038633    0.078552    0.067059    0.815756    
0.041204    0.146527    0.080429    0.731839    
0.279127    0.289348    0.279600    0.151924    
0.229000    0.294484    0.311958    0.164558    
0.225324    0.409800    0.200755    0.164122    
Consensus sequence: VHRKTAATTAGTTVVV

Alignment:
VHRKTAATTAGTTVVV
------ATKAYTTTG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00238        Nkx6-3                             Original Motif                          Original Motif                          Backward       1              9              0.026204       

Species: Mus musculus

Original motif
0.211080    0.172311    0.431247    0.185362    
0.384982    0.234092    0.223039    0.157886    
0.310057    0.205880    0.172143    0.311920    
0.457713    0.100792    0.100760    0.340735    
0.675530    0.025764    0.022872    0.275835    
0.177571    0.016003    0.029571    0.776854    
0.005091    0.070291    0.000805    0.923813    
0.985078    0.003252    0.005333    0.006337    
0.983499    0.002121    0.005028    0.009353    
0.019439    0.004503    0.002273    0.973785    
0.008771    0.016780    0.249674    0.724776    
0.843445    0.003550    0.123087    0.029918    
0.296529    0.352616    0.228921    0.121934    
0.089109    0.193310    0.157449    0.560132    
0.136822    0.217266    0.312594    0.333318    
0.192396    0.261720    0.233534    0.312350    
0.080253    0.215905    0.453925    0.249917    
Consensus sequence: DVHWATTAATTAVTBBB

Reverse complement motif
0.080253    0.453925    0.215905    0.249917    
0.312350    0.261720    0.233534    0.192396    
0.333318    0.217266    0.312594    0.136822    
0.560132    0.193310    0.157449    0.089109    
0.296529    0.228921    0.352616    0.121934    
0.029918    0.003550    0.123087    0.843445    
0.724776    0.016780    0.249674    0.008771    
0.973785    0.004503    0.002273    0.019439    
0.009353    0.002121    0.005028    0.983499    
0.006337    0.003252    0.005333    0.985078    
0.923813    0.070291    0.000805    0.005091    
0.776854    0.016003    0.029571    0.177571    
0.275835    0.025764    0.022872    0.675530    
0.340735    0.100792    0.100760    0.457713    
0.311920    0.205880    0.172143    0.310057    
0.157886    0.234092    0.223039    0.384982    
0.211080    0.431247    0.172311    0.185362    
Consensus sequence: BVVAVTAATTAATWHBH

Alignment:
DVHWATTAATTAVTBBB
--------ATKAYTTTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 39		Motif name: Motif 39

Original motif
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: GCTGTGAC

Reserve complement motif
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: GTCACAGC


************************************************************************ Best Matches for Motif ID 39 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Reverse Complement                      Original Motif                          Forward        5              8              0.000000       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DABWWTGACAGCTVVBD
----GTCACAGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00258        Tgif2                              Original Motif                          Original Motif                          Backward       4              8              0.002418       

Species: Mus musculus

Original motif
0.519684    0.141807    0.112153    0.226356    
0.614097    0.079211    0.138045    0.168647    
0.186975    0.327654    0.245051    0.240320    
0.108289    0.303530    0.219106    0.369076    
0.914812    0.012014    0.046628    0.026546    
0.070482    0.163253    0.689315    0.076951    
0.016354    0.972639    0.003648    0.007359    
0.002043    0.018718    0.000384    0.978855    
0.006109    0.001408    0.990736    0.001747    
0.024783    0.002060    0.000402    0.972755    
0.001485    0.991963    0.001756    0.004796    
0.989335    0.001052    0.002320    0.007293    
0.778804    0.056366    0.037632    0.127198    
0.377980    0.094597    0.086888    0.440535    
0.458125    0.289431    0.152762    0.099682    
0.223103    0.435348    0.216962    0.124587    
Consensus sequence: AABBAGCTGTCAAWVV

Reverse complement motif
0.223103    0.216962    0.435348    0.124587    
0.099682    0.289431    0.152762    0.458125    
0.440535    0.094597    0.086888    0.377980    
0.127198    0.056366    0.037632    0.778804    
0.007293    0.001052    0.002320    0.989335    
0.001485    0.001756    0.991963    0.004796    
0.972755    0.002060    0.000402    0.024783    
0.006109    0.990736    0.001408    0.001747    
0.978855    0.018718    0.000384    0.002043    
0.016354    0.003648    0.972639    0.007359    
0.070482    0.689315    0.163253    0.076951    
0.026546    0.012014    0.046628    0.914812    
0.369076    0.303530    0.219106    0.108289    
0.186975    0.245051    0.327654    0.240320    
0.168647    0.079211    0.138045    0.614097    
0.226356    0.141807    0.112153    0.519684    
Consensus sequence: VBWTTGACAGCTVBTT

Alignment:
AABBAGCTGTCAAWVV
-----GCTGTGAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00006        Zic3_secondary                     Reverse Complement                      Original Motif                          Backward       7              8              0.005539       

Species: Mus musculus

Original motif
0.225537    0.223459    0.280507    0.270498    
0.332396    0.181810    0.207290    0.278505    
0.309873    0.017922    0.386135    0.286070    
0.101947    0.871607    0.020267    0.006179    
0.541366    0.089100    0.242170    0.127364    
0.003307    0.969997    0.002414    0.024283    
0.903286    0.021590    0.015872    0.059253    
0.039887    0.009732    0.945083    0.005298    
0.001704    0.827209    0.006276    0.164810    
0.723052    0.003102    0.221051    0.052795    
0.011758    0.024398    0.560633    0.403211    
0.003656    0.012952    0.939586    0.043807    
0.477846    0.270399    0.113113    0.138642    
0.225706    0.298505    0.258523    0.217266    
0.365251    0.191780    0.197411    0.245557    
Consensus sequence: DDDCACAGCAKGHVD

Reverse complement motif
0.245557    0.191780    0.197411    0.365251    
0.225706    0.258523    0.298505    0.217266    
0.138642    0.270399    0.113113    0.477846    
0.003656    0.939586    0.012952    0.043807    
0.011758    0.560633    0.024398    0.403211    
0.052795    0.003102    0.221051    0.723052    
0.001704    0.006276    0.827209    0.164810    
0.039887    0.945083    0.009732    0.005298    
0.059253    0.021590    0.015872    0.903286    
0.003307    0.002414    0.969997    0.024283    
0.127364    0.089100    0.242170    0.541366    
0.101947    0.020267    0.871607    0.006179    
0.309873    0.386135    0.017922    0.286070    
0.278505    0.181810    0.207290    0.332396    
0.225537    0.280507    0.223459    0.270498    
Consensus sequence: DVHCYTGCTGTGHDH

Alignment:
DDDCACAGCAKGHVD
-GTCACAGC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_primary                      Original Motif                          Original Motif                          Backward       5              8              0.005782       

Species: Mus musculus

Original motif
0.186316    0.215541    0.297644    0.300499    
0.300381    0.234276    0.266283    0.199061    
0.317841    0.211418    0.183235    0.287507    
0.482598    0.095323    0.245062    0.177017    
0.654197    0.008988    0.261951    0.074864    
0.095656    0.022883    0.843364    0.038097    
0.002655    0.008355    0.976390    0.012600    
0.003287    0.080755    0.001057    0.914900    
0.006753    0.001517    0.989917    0.001813    
0.039940    0.098800    0.003305    0.857955    
0.009015    0.039036    0.844029    0.107921    
0.984070    0.002369    0.008852    0.004709    
0.789505    0.101528    0.029294    0.079672    
0.649685    0.139882    0.090466    0.119966    
0.421759    0.205595    0.073074    0.299573    
0.214779    0.290522    0.134050    0.360649    
0.202141    0.270323    0.176798    0.350738    
Consensus sequence: BVHDAGGTGTGAAAHHH

Reverse complement motif
0.350738    0.270323    0.176798    0.202141    
0.360649    0.290522    0.134050    0.214779    
0.299573    0.205595    0.073074    0.421759    
0.119966    0.139882    0.090466    0.649685    
0.079672    0.101528    0.029294    0.789505    
0.004709    0.002369    0.008852    0.984070    
0.009015    0.844029    0.039036    0.107921    
0.857955    0.098800    0.003305    0.039940    
0.006753    0.989917    0.001517    0.001813    
0.914900    0.080755    0.001057    0.003287    
0.002655    0.976390    0.008355    0.012600    
0.095656    0.843364    0.022883    0.038097    
0.074864    0.008988    0.261951    0.654197    
0.177017    0.095323    0.245062    0.482598    
0.287507    0.211418    0.183235    0.317841    
0.199061    0.234276    0.266283    0.300381    
0.300499    0.215541    0.297644    0.186316    
Consensus sequence: HHHTTTCACACCTDHBV

Alignment:
BVHDAGGTGTGAAAHHH
-----GCTGTGAC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_2205.1                      Original Motif                          Original Motif                          Backward       5              8              0.006295       

Species: Mus musculus

Original motif
0.504898    0.140204    0.135418    0.219480    
0.282348    0.244881    0.300572    0.172199    
0.183939    0.100670    0.384783    0.330608    
0.326709    0.269523    0.194043    0.209724    
0.142989    0.557393    0.066826    0.232792    
0.038356    0.014052    0.932450    0.015142    
0.092102    0.778844    0.125082    0.003972    
0.010254    0.001252    0.005231    0.983263    
0.033486    0.000891    0.947486    0.018137    
0.005360    0.007407    0.003729    0.983504    
0.603485    0.007179    0.003482    0.385853    
0.798026    0.029788    0.032370    0.139816    
0.529622    0.100632    0.016507    0.353238    
0.243581    0.126094    0.401402    0.228923    
0.207484    0.285456    0.353715    0.153346    
0.282413    0.188410    0.441463    0.087715    
0.422774    0.152965    0.094106    0.330155    
Consensus sequence: AVDHCGCTGTWAWDVVW

Reverse complement motif
0.330155    0.152965    0.094106    0.422774    
0.282413    0.441463    0.188410    0.087715    
0.207484    0.353715    0.285456    0.153346    
0.243581    0.401402    0.126094    0.228923    
0.353238    0.100632    0.016507    0.529622    
0.139816    0.029788    0.032370    0.798026    
0.385853    0.007179    0.003482    0.603485    
0.983504    0.007407    0.003729    0.005360    
0.033486    0.947486    0.000891    0.018137    
0.983263    0.001252    0.005231    0.010254    
0.092102    0.125082    0.778844    0.003972    
0.038356    0.932450    0.014052    0.015142    
0.142989    0.066826    0.557393    0.232792    
0.209724    0.269523    0.194043    0.326709    
0.183939    0.384783    0.100670    0.330608    
0.282348    0.300572    0.244881    0.172199    
0.219480    0.140204    0.135418    0.504898    
Consensus sequence: WVVHWTWACAGCGHHVT

Alignment:
AVDHCGCTGTWAWDVVW
-----GCTGTGAC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_1765.2                      Original Motif                          Original Motif                          Forward        6              8              0.006663       

Species: Mus musculus

Original motif
0.538735    0.129821    0.147336    0.184107    
0.331267    0.275123    0.227609    0.166001    
0.174654    0.113319    0.383610    0.328417    
0.296734    0.281670    0.230068    0.191527    
0.128222    0.561296    0.062928    0.247554    
0.027028    0.014676    0.949335    0.008962    
0.087209    0.761581    0.147964    0.003246    
0.006796    0.000741    0.006037    0.986427    
0.039496    0.000533    0.943453    0.016517    
0.005541    0.005164    0.002805    0.986489    
0.561957    0.002761    0.004207    0.431075    
0.780197    0.037155    0.031222    0.151425    
0.518642    0.104220    0.012670    0.364468    
0.314451    0.111366    0.333508    0.240676    
0.236936    0.357992    0.280813    0.124259    
0.314846    0.163774    0.426195    0.095185    
0.408340    0.134111    0.102987    0.354562    
Consensus sequence: AVDVCGCTGTWAWDVVW

Reverse complement motif
0.354562    0.134111    0.102987    0.408340    
0.314846    0.426195    0.163774    0.095185    
0.236936    0.280813    0.357992    0.124259    
0.314451    0.333508    0.111366    0.240676    
0.364468    0.104220    0.012670    0.518642    
0.151425    0.037155    0.031222    0.780197    
0.431075    0.002761    0.004207    0.561957    
0.986489    0.005164    0.002805    0.005541    
0.039496    0.943453    0.000533    0.016517    
0.986427    0.000741    0.006037    0.006796    
0.087209    0.147964    0.761581    0.003246    
0.027028    0.949335    0.014676    0.008962    
0.128222    0.062928    0.561296    0.247554    
0.191527    0.281670    0.230068    0.296734    
0.174654    0.383610    0.113319    0.328417    
0.166001    0.275123    0.227609    0.331267    
0.184107    0.129821    0.147336    0.538735    
Consensus sequence: WVVHWTWACAGCGBHBT

Alignment:
AVDVCGCTGTWAWDVVW
-----GCTGTGAC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00205        Pknox2                             Original Motif                          Original Motif                          Forward        6              8              0.007477       

Species: Mus musculus

Original motif
0.428425    0.195557    0.163102    0.212916    
0.596487    0.103248    0.171370    0.128895    
0.255216    0.203813    0.424426    0.116546    
0.034183    0.441823    0.347767    0.176227    
0.613880    0.025627    0.347719    0.012774    
0.028636    0.551817    0.409264    0.010283    
0.020873    0.969731    0.003025    0.006371    
0.001171    0.039795    0.000323    0.958710    
0.004303    0.001241    0.992873    0.001583    
0.014490    0.007334    0.000309    0.977866    
0.000873    0.991756    0.001920    0.005451    
0.979609    0.000960    0.015793    0.003638    
0.586289    0.199905    0.051181    0.162625    
0.207586    0.157832    0.051564    0.583018    
0.295651    0.262238    0.182998    0.259112    
0.158213    0.267067    0.215259    0.359461    
Consensus sequence: HAVSRSCTGTCAATHB

Reverse complement motif
0.359461    0.267067    0.215259    0.158213    
0.259112    0.262238    0.182998    0.295651    
0.583018    0.157832    0.051564    0.207586    
0.162625    0.199905    0.051181    0.586289    
0.003638    0.000960    0.015793    0.979609    
0.000873    0.001920    0.991756    0.005451    
0.977866    0.007334    0.000309    0.014490    
0.004303    0.992873    0.001241    0.001583    
0.958710    0.039795    0.000323    0.001171    
0.020873    0.003025    0.969731    0.006371    
0.028636    0.409264    0.551817    0.010283    
0.012774    0.025627    0.347719    0.613880    
0.034183    0.347767    0.441823    0.176227    
0.255216    0.424426    0.203813    0.116546    
0.128895    0.103248    0.171370    0.596487    
0.212916    0.195557    0.163102    0.428425    
Consensus sequence: VHATTGACAGSKSVTH

Alignment:
HAVSRSCTGTCAATHB
-----GCTGTGAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00102        Zic1_secondary                     Reverse Complement                      Original Motif                          Forward        2              8              0.008775       

Species: Mus musculus

Original motif
0.161683    0.405114    0.171743    0.261460    
0.259478    0.357988    0.146793    0.235741    
0.371334    0.026439    0.283598    0.318630    
0.092229    0.883389    0.018758    0.005623    
0.419591    0.169874    0.253266    0.157270    
0.002985    0.976375    0.002722    0.017918    
0.909381    0.021357    0.013299    0.055963    
0.039418    0.007014    0.948302    0.005266    
0.001711    0.845894    0.005756    0.146640    
0.803792    0.003049    0.148687    0.044472    
0.015314    0.017153    0.680239    0.287294    
0.003793    0.011414    0.937403    0.047390    
0.431916    0.266291    0.144154    0.157638    
0.269331    0.239338    0.366817    0.124513    
0.395873    0.103980    0.214796    0.285351    
Consensus sequence: BHDCVCAGCAGGHVD

Reverse complement motif
0.285351    0.103980    0.214796    0.395873    
0.269331    0.366817    0.239338    0.124513    
0.157638    0.266291    0.144154    0.431916    
0.003793    0.937403    0.011414    0.047390    
0.015314    0.680239    0.017153    0.287294    
0.044472    0.003049    0.148687    0.803792    
0.001711    0.005756    0.845894    0.146640    
0.039418    0.948302    0.007014    0.005266    
0.055963    0.021357    0.013299    0.909381    
0.002985    0.002722    0.976375    0.017918    
0.157270    0.169874    0.253266    0.419591    
0.092229    0.018758    0.883389    0.005623    
0.318630    0.026439    0.283598    0.371334    
0.259478    0.146793    0.357988    0.235741    
0.161683    0.171743    0.405114    0.261460    
Consensus sequence: DVHCCTGCTGBGDDB

Alignment:
BHDCVCAGCAGGHVD
-GTCACAGC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00186        Meis1                              Original Motif                          Original Motif                          Backward       4              8              0.009566       

Species: Mus musculus

Original motif
0.432115    0.114994    0.130835    0.322056    
0.508081    0.060822    0.214256    0.216841    
0.225875    0.276028    0.280982    0.217115    
0.092373    0.286687    0.360933    0.260007    
0.947172    0.005937    0.028595    0.018297    
0.027829    0.439935    0.505051    0.027185    
0.023801    0.963424    0.008205    0.004571    
0.001548    0.018215    0.000406    0.979831    
0.008422    0.001124    0.989007    0.001446    
0.025343    0.004094    0.000241    0.970323    
0.001451    0.992789    0.002037    0.003724    
0.991202    0.001638    0.003159    0.004002    
0.695910    0.022145    0.013657    0.268288    
0.357895    0.090931    0.093796    0.457378    
0.453163    0.204395    0.181067    0.161376    
0.200615    0.393437    0.171398    0.234551    
Consensus sequence: WAVBASCTGTCAAWVH

Reverse complement motif
0.200615    0.171398    0.393437    0.234551    
0.161376    0.204395    0.181067    0.453163    
0.457378    0.090931    0.093796    0.357895    
0.268288    0.022145    0.013657    0.695910    
0.004002    0.001638    0.003159    0.991202    
0.001451    0.002037    0.992789    0.003724    
0.970323    0.004094    0.000241    0.025343    
0.008422    0.989007    0.001124    0.001446    
0.979831    0.018215    0.000406    0.001548    
0.023801    0.008205    0.963424    0.004571    
0.027829    0.505051    0.439935    0.027185    
0.018297    0.005937    0.028595    0.947172    
0.092373    0.360933    0.286687    0.260007    
0.225875    0.280982    0.276028    0.217115    
0.216841    0.060822    0.214256    0.508081    
0.322056    0.114994    0.130835    0.432115    
Consensus sequence: DBWTTGACAGSTBVTW

Alignment:
WAVBASCTGTCAAWVH
-----GCTGTGAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00226        Mrg1                               Original Motif                          Original Motif                          Forward        6              8              0.012461       

Species: Mus musculus

Original motif
0.378836    0.145096    0.102046    0.374022    
0.507161    0.090730    0.177058    0.225051    
0.277496    0.234581    0.275775    0.212149    
0.065300    0.339403    0.360939    0.234358    
0.918963    0.010948    0.043262    0.026826    
0.017295    0.545133    0.416603    0.020969    
0.023391    0.962223    0.007311    0.007075    
0.001760    0.020258    0.000360    0.977622    
0.013946    0.000586    0.983699    0.001769    
0.035910    0.004825    0.000197    0.959068    
0.001465    0.991446    0.001338    0.005750    
0.986785    0.001158    0.005848    0.006209    
0.715894    0.043046    0.018966    0.222093    
0.332332    0.084841    0.098421    0.484405    
0.473739    0.198580    0.152072    0.175610    
0.211505    0.325971    0.212211    0.250313    
Consensus sequence: WAVBASCTGTCAAWHB

Reverse complement motif
0.211505    0.212211    0.325971    0.250313    
0.175610    0.198580    0.152072    0.473739    
0.484405    0.084841    0.098421    0.332332    
0.222093    0.043046    0.018966    0.715894    
0.006209    0.001158    0.005848    0.986785    
0.001465    0.001338    0.991446    0.005750    
0.959068    0.004825    0.000197    0.035910    
0.013946    0.983699    0.000586    0.001769    
0.977622    0.020258    0.000360    0.001760    
0.023391    0.007311    0.962223    0.007075    
0.017295    0.416603    0.545133    0.020969    
0.026826    0.010948    0.043262    0.918963    
0.065300    0.360939    0.339403    0.234358    
0.212149    0.234581    0.275775    0.277496    
0.225051    0.090730    0.177058    0.507161    
0.374022    0.145096    0.102046    0.378836    
Consensus sequence: BHWTTGACAGSTBBTW

Alignment:
WAVBASCTGTCAAWHB
-----GCTGTGAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 40		Motif name: Motif 40

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAGTTCA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TGAACTT


************************************************************************ Best Matches for Motif ID 40 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Original Motif                          Original Motif                          Backward       5              7              0.000000       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
-----AAGTTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Reverse Complement                      Reverse Complement                      Backward       6              7              0.005165       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
HHAYTGGACTTTHDBV
----TGAACTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Original Motif                          Backward       6              7              0.007732       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
-----AAGTTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Original Motif                          Original Motif                          Backward       5              7              0.009092       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
DHBHAAAGGTCAHVHB
-----AAGTTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00019        Zbtb12_primary                     Reverse Complement                      Reverse Complement                      Forward        8              7              0.035752       

Species: Mus musculus

Original motif
0.163348    0.349811    0.273573    0.213268    
0.212612    0.211975    0.220400    0.355012    
0.325879    0.220972    0.186720    0.266430    
0.510632    0.041115    0.419323    0.028930    
0.067550    0.203499    0.411224    0.317727    
0.023546    0.002038    0.972278    0.002138    
0.017818    0.006841    0.006478    0.968864    
0.019791    0.001443    0.009338    0.969428    
0.003084    0.992130    0.002654    0.002131    
0.001031    0.039768    0.003588    0.955613    
0.980811    0.006260    0.008964    0.003965    
0.013624    0.002796    0.979716    0.003863    
0.841198    0.016422    0.129217    0.013163    
0.169265    0.145424    0.085753    0.599558    
0.068235    0.584950    0.065758    0.281057    
0.378189    0.252218    0.209355    0.160238    
0.167389    0.305726    0.229730    0.297156    
Consensus sequence: BDHRBGTTCTAGATCVB

Reverse complement motif
0.167389    0.229730    0.305726    0.297156    
0.160238    0.252218    0.209355    0.378189    
0.068235    0.065758    0.584950    0.281057    
0.599558    0.145424    0.085753    0.169265    
0.013163    0.016422    0.129217    0.841198    
0.013624    0.979716    0.002796    0.003863    
0.003965    0.006260    0.008964    0.980811    
0.955613    0.039768    0.003588    0.001031    
0.003084    0.002654    0.992130    0.002131    
0.969428    0.001443    0.009338    0.019791    
0.968864    0.006841    0.006478    0.017818    
0.023546    0.972278    0.002038    0.002138    
0.067550    0.411224    0.203499    0.317727    
0.028930    0.041115    0.419323    0.510632    
0.266430    0.220972    0.186720    0.325879    
0.355012    0.211975    0.220400    0.212612    
0.163348    0.273573    0.349811    0.213268    
Consensus sequence: BBGATCTAGAACBKHDB

Alignment:
BBGATCTAGAACBKHDB
-------TGAACTT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00222        Tcf2                               Original Motif                          Reverse Complement                      Forward        6              7              0.037980       

Species: Mus musculus

Original motif
0.314412    0.143512    0.264912    0.277164    
0.157997    0.184389    0.369205    0.288409    
0.135761    0.400456    0.144198    0.319585    
0.174918    0.189077    0.293539    0.342466    
0.059548    0.050376    0.839169    0.050907    
0.062155    0.032353    0.015343    0.890149    
0.011322    0.005522    0.003327    0.979830    
0.960176    0.002513    0.002465    0.034847    
0.981010    0.008328    0.004727    0.005935    
0.006622    0.951830    0.013146    0.028402    
0.010202    0.154748    0.016885    0.818164    
0.895112    0.013182    0.028839    0.062866    
0.278112    0.134938    0.556639    0.030311    
0.164392    0.362982    0.210651    0.261976    
0.224410    0.335183    0.122095    0.318312    
0.045608    0.320960    0.380649    0.252783    
0.151847    0.162111    0.151885    0.534157    
Consensus sequence: DBBBGTTAACTAGBHBT

Reverse complement motif
0.534157    0.162111    0.151885    0.151847    
0.045608    0.380649    0.320960    0.252783    
0.224410    0.122095    0.335183    0.318312    
0.164392    0.210651    0.362982    0.261976    
0.278112    0.556639    0.134938    0.030311    
0.062866    0.013182    0.028839    0.895112    
0.818164    0.154748    0.016885    0.010202    
0.006622    0.013146    0.951830    0.028402    
0.005935    0.008328    0.004727    0.981010    
0.034847    0.002513    0.002465    0.960176    
0.979830    0.005522    0.003327    0.011322    
0.890149    0.032353    0.015343    0.062155    
0.059548    0.839169    0.050376    0.050907    
0.342466    0.189077    0.293539    0.174918    
0.135761    0.144198    0.400456    0.319585    
0.157997    0.369205    0.184389    0.288409    
0.277164    0.143512    0.264912    0.314412    
Consensus sequence: ABDBCTAGTTAACVBBD

Alignment:
ABDBCTAGTTAACVBBD
-----AAGTTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00042        Gm397_primary                      Original Motif                          Reverse Complement                      Backward       7              7              0.038862       

Species: Mus musculus

Original motif
0.248614    0.321010    0.201723    0.228654    
0.332381    0.190810    0.184854    0.291955    
0.253802    0.119338    0.331394    0.295466    
0.577827    0.100884    0.130066    0.191223    
0.180374    0.011174    0.042942    0.765510    
0.009131    0.024996    0.962422    0.003450    
0.003308    0.034731    0.002930    0.959032    
0.063907    0.001099    0.933714    0.001280    
0.001280    0.933714    0.001099    0.063907    
0.959032    0.002930    0.034731    0.003308    
0.003450    0.962422    0.024996    0.009131    
0.765510    0.042942    0.011174    0.180374    
0.026456    0.256356    0.130672    0.586516    
0.589555    0.285548    0.036864    0.088034    
0.265828    0.529813    0.031915    0.172445    
0.209015    0.104817    0.374275    0.311892    
0.224283    0.292805    0.144270    0.338642    
Consensus sequence: HHDATGTGCACATAMDH

Reverse complement motif
0.338642    0.292805    0.144270    0.224283    
0.209015    0.374275    0.104817    0.311892    
0.265828    0.031915    0.529813    0.172445    
0.088034    0.285548    0.036864    0.589555    
0.586516    0.256356    0.130672    0.026456    
0.180374    0.042942    0.011174    0.765510    
0.003450    0.024996    0.962422    0.009131    
0.003308    0.002930    0.034731    0.959032    
0.001280    0.001099    0.933714    0.063907    
0.063907    0.933714    0.001099    0.001280    
0.959032    0.034731    0.002930    0.003308    
0.009131    0.962422    0.024996    0.003450    
0.765510    0.011174    0.042942    0.180374    
0.191223    0.100884    0.130066    0.577827    
0.253802    0.331394    0.119338    0.295466    
0.291955    0.190810    0.184854    0.332381    
0.248614    0.201723    0.321010    0.228654    
Consensus sequence: HHRTATGTGCACATHHD

Alignment:
HHRTATGTGCACATHHD
----AAGTTCA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00413        Elf4                               Reverse Complement                      Original Motif                          Forward        2              7              0.042126       

Species: Mus musculus

Original motif
0.349744    0.139466    0.209326    0.301464    
0.080478    0.359482    0.307083    0.252956    
0.145756    0.213763    0.350557    0.289924    
0.317307    0.199359    0.096089    0.387245    
0.868576    0.009724    0.088821    0.032878    
0.001975    0.827004    0.014159    0.156862    
0.045494    0.000985    0.001907    0.951615    
0.011012    0.001203    0.002186    0.985599    
0.002743    0.992908    0.002226    0.002123    
0.001498    0.990840    0.001556    0.006106    
0.000951    0.005138    0.880591    0.113319    
0.003127    0.107962    0.867980    0.020930    
0.156602    0.055355    0.396563    0.391480    
0.421246    0.049379    0.084495    0.444880    
0.223879    0.068063    0.203809    0.504249    
0.144100    0.323579    0.131544    0.400777    
Consensus sequence: DBBHACTTCCGGKWTH

Reverse complement motif
0.400777    0.323579    0.131544    0.144100    
0.504249    0.068063    0.203809    0.223879    
0.444880    0.049379    0.084495    0.421246    
0.156602    0.396563    0.055355    0.391480    
0.003127    0.867980    0.107962    0.020930    
0.000951    0.880591    0.005138    0.113319    
0.001498    0.001556    0.990840    0.006106    
0.002743    0.002226    0.992908    0.002123    
0.985599    0.001203    0.002186    0.011012    
0.951615    0.000985    0.001907    0.045494    
0.001975    0.014159    0.827004    0.156862    
0.032878    0.009724    0.088821    0.868576    
0.387245    0.199359    0.096089    0.317307    
0.145756    0.350557    0.213763    0.289924    
0.080478    0.307083    0.359482    0.252956    
0.301464    0.139466    0.209326    0.349744    
Consensus sequence: HAWYCCGGAAGTHBBD

Alignment:
DBBHACTTCCGGKWTH
-TGAACTT--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Backward       9              7              0.042466       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
--AAGTTCA--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00026        Zscan4_primary                     Original Motif                          Reverse Complement                      Forward        5              7              0.042767       

Species: Mus musculus

Original motif
0.203927    0.157260    0.307071    0.331743    
0.360341    0.265216    0.147327    0.227115    
0.251195    0.298806    0.241051    0.208949    
0.487186    0.122472    0.214362    0.175980    
0.122838    0.051062    0.055773    0.770327    
0.020467    0.009992    0.965816    0.003725    
0.005887    0.026663    0.006808    0.960643    
0.030656    0.002167    0.965099    0.002078    
0.002078    0.965099    0.002167    0.030656    
0.960643    0.006808    0.026663    0.005887    
0.003725    0.965816    0.009992    0.020467    
0.770327    0.055773    0.051062    0.122838    
0.044808    0.382307    0.042920    0.529965    
0.751320    0.047417    0.044482    0.156781    
0.362742    0.228898    0.085373    0.322987    
0.436635    0.111479    0.217284    0.234601    
0.303930    0.285374    0.195872    0.214824    
Consensus sequence: DHVDTGTGCACAYAHDH

Reverse complement motif
0.214824    0.285374    0.195872    0.303930    
0.234601    0.111479    0.217284    0.436635    
0.322987    0.228898    0.085373    0.362742    
0.156781    0.047417    0.044482    0.751320    
0.529965    0.382307    0.042920    0.044808    
0.122838    0.055773    0.051062    0.770327    
0.003725    0.009992    0.965816    0.020467    
0.005887    0.006808    0.026663    0.960643    
0.002078    0.002167    0.965099    0.030656    
0.030656    0.965099    0.002167    0.002078    
0.960643    0.026663    0.006808    0.005887    
0.020467    0.965816    0.009992    0.003725    
0.770327    0.051062    0.055773    0.122838    
0.175980    0.122472    0.214362    0.487186    
0.251195    0.241051    0.298806    0.208949    
0.227115    0.265216    0.147327    0.360341    
0.331743    0.157260    0.307071    0.203927    
Consensus sequence: HDHTMTGTGCACADVHD

Alignment:
HDHTMTGTGCACADVHD
----AAGTTCA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 41		Motif name: Motif 41

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TGGAGGAAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TTTCCTCCA


************************************************************************ Best Matches for Motif ID 41 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00043        Bcl6b_primary                      Reverse Complement                      Reverse Complement                      Backward       5              9              0.000000       

Species: Mus musculus

Original motif
0.346550    0.082299    0.202982    0.368169    
0.169328    0.599178    0.046508    0.184986    
0.085619    0.105820    0.059390    0.749172    
0.128756    0.084682    0.076780    0.709782    
0.032381    0.009923    0.016477    0.941220    
0.013184    0.868651    0.009399    0.108766    
0.018397    0.104497    0.450474    0.426632    
0.800902    0.010911    0.015982    0.172205    
0.141166    0.055397    0.762379    0.041059    
0.073467    0.021239    0.811630    0.093665    
0.878497    0.015031    0.044964    0.061509    
0.875924    0.027013    0.013780    0.083283    
0.205684    0.213313    0.040936    0.540067    
0.244336    0.228277    0.168227    0.359160    
0.208971    0.304437    0.148473    0.338119    
0.201607    0.294079    0.334889    0.169425    
Consensus sequence: DCTTTCKAGGAATHHV

Reverse complement motif
0.201607    0.334889    0.294079    0.169425    
0.338119    0.304437    0.148473    0.208971    
0.359160    0.228277    0.168227    0.244336    
0.540067    0.213313    0.040936    0.205684    
0.083283    0.027013    0.013780    0.875924    
0.061509    0.015031    0.044964    0.878497    
0.073467    0.811630    0.021239    0.093665    
0.141166    0.762379    0.055397    0.041059    
0.172205    0.010911    0.015982    0.800902    
0.018397    0.450474    0.104497    0.426632    
0.013184    0.009399    0.868651    0.108766    
0.941220    0.009923    0.016477    0.032381    
0.709782    0.084682    0.076780    0.128756    
0.749172    0.105820    0.059390    0.085619    
0.169328    0.046508    0.599178    0.184986    
0.368169    0.082299    0.202982    0.346550    
Consensus sequence: VHHATTCCTYGAAAGD

Alignment:
VHHATTCCTYGAAAGD
---TTTCCTCCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00409        Elf5                               Original Motif                          Original Motif                          Backward       4              9              0.010360       

Species: Mus musculus

Original motif
0.179167    0.229135    0.279326    0.312372    
0.421239    0.102900    0.145609    0.330252    
0.791978    0.009721    0.028951    0.169350    
0.237609    0.375543    0.161526    0.225321    
0.145845    0.325411    0.516045    0.012699    
0.431007    0.516333    0.051679    0.000982    
0.005750    0.001408    0.990928    0.001915    
0.002025    0.001886    0.992021    0.004068    
0.986405    0.001705    0.001039    0.010851    
0.950652    0.003619    0.000482    0.045248    
0.165221    0.013897    0.819076    0.001805    
0.032042    0.049374    0.014632    0.903953    
0.285325    0.108010    0.127373    0.479292    
0.366131    0.141246    0.290661    0.201963    
Consensus sequence: BWAHSMGGAAGTWD

Reverse complement motif
0.201963    0.141246    0.290661    0.366131    
0.479292    0.108010    0.127373    0.285325    
0.903953    0.049374    0.014632    0.032042    
0.165221    0.819076    0.013897    0.001805    
0.045248    0.003619    0.000482    0.950652    
0.010851    0.001705    0.001039    0.986405    
0.002025    0.992021    0.001886    0.004068    
0.005750    0.990928    0.001408    0.001915    
0.431007    0.051679    0.516333    0.000982    
0.145845    0.516045    0.325411    0.012699    
0.237609    0.161526    0.375543    0.225321    
0.169350    0.009721    0.028951    0.791978    
0.330252    0.102900    0.145609    0.421239    
0.312372    0.229135    0.279326    0.179167    
Consensus sequence: DWACTTCCRSDTWV

Alignment:
BWAHSMGGAAGTWD
--TGGAGGAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00090        Elf3_primary                       Original Motif                          Original Motif                          Backward       4              9              0.012663       

Species: Mus musculus

Original motif
0.338918    0.138284    0.180304    0.342493    
0.614328    0.046536    0.066645    0.272492    
0.248636    0.405469    0.125813    0.220081    
0.389942    0.368832    0.198252    0.042975    
0.473107    0.443315    0.064884    0.018693    
0.032285    0.005365    0.952727    0.009624    
0.021365    0.006895    0.955827    0.015913    
0.976258    0.006536    0.010998    0.006209    
0.892027    0.007456    0.003678    0.096839    
0.433755    0.037682    0.520487    0.008076    
0.098931    0.159997    0.023691    0.717381    
0.423164    0.077419    0.201004    0.298413    
0.572262    0.158763    0.164963    0.104012    
Consensus sequence: DAHMMGGAARTDA

Reverse complement motif
0.104012    0.158763    0.164963    0.572262    
0.298413    0.077419    0.201004    0.423164    
0.717381    0.159997    0.023691    0.098931    
0.433755    0.520487    0.037682    0.008076    
0.096839    0.007456    0.003678    0.892027    
0.006209    0.006536    0.010998    0.976258    
0.021365    0.955827    0.006895    0.015913    
0.032285    0.952727    0.005365    0.009624    
0.018693    0.443315    0.064884    0.473107    
0.042975    0.368832    0.198252    0.389942    
0.248636    0.125813    0.405469    0.220081    
0.272492    0.046536    0.066645    0.614328    
0.342493    0.138284    0.180304    0.338918    
Consensus sequence: TDAMTTCCYYDTD

Alignment:
DAHMMGGAARTDA
-TGGAGGAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00085        Sfpi1_primary                      Original Motif                          Original Motif                          Forward        3              9              0.013109       

Species: Mus musculus

Original motif
0.211586    0.273653    0.234763    0.279998    
0.298032    0.104818    0.290385    0.306764    
0.593467    0.048056    0.154602    0.203875    
0.459746    0.052697    0.169949    0.317608    
0.188623    0.155357    0.591543    0.064477    
0.402746    0.286227    0.290285    0.020742    
0.048569    0.001240    0.946397    0.003793    
0.004354    0.001387    0.990819    0.003441    
0.974272    0.001416    0.001466    0.022847    
0.938748    0.003090    0.000833    0.057329    
0.045831    0.270321    0.674644    0.009204    
0.055664    0.092552    0.026061    0.825722    
0.301235    0.122653    0.267039    0.309073    
0.278680    0.276099    0.219159    0.226061    
Consensus sequence: BDAWGVGGAAGTDH

Reverse complement motif
0.226061    0.276099    0.219159    0.278680    
0.309073    0.122653    0.267039    0.301235    
0.825722    0.092552    0.026061    0.055664    
0.045831    0.674644    0.270321    0.009204    
0.057329    0.003090    0.000833    0.938748    
0.022847    0.001416    0.001466    0.974272    
0.004354    0.990819    0.001387    0.003441    
0.048569    0.946397    0.001240    0.003793    
0.020742    0.286227    0.290285    0.402746    
0.188623    0.591543    0.155357    0.064477    
0.317608    0.052697    0.169949    0.459746    
0.203875    0.048056    0.154602    0.593467    
0.306764    0.104818    0.290385    0.298032    
0.279998    0.273653    0.234763    0.211586    
Consensus sequence: HDACTTCCBCWTDV

Alignment:
BDAWGVGGAAGTDH
--TGGAGGAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_primary                       Original Motif                          Original Motif                          Backward       4              9              0.014016       

Species: Mus musculus

Original motif
0.348694    0.177225    0.158977    0.315104    
0.241477    0.301470    0.225252    0.231801    
0.299530    0.177310    0.188699    0.334462    
0.413829    0.141414    0.102784    0.341973    
0.032644    0.017968    0.004577    0.944811    
0.021091    0.330699    0.642563    0.005647    
0.969224    0.001914    0.005956    0.022906    
0.969063    0.003485    0.003398    0.024054    
0.013104    0.003523    0.002842    0.980532    
0.005485    0.020244    0.932599    0.041672    
0.757494    0.002617    0.231695    0.008193    
0.865658    0.039206    0.073039    0.022097    
0.110535    0.114879    0.043620    0.730965    
0.186322    0.154540    0.442471    0.216667    
0.366490    0.152622    0.256688    0.224200    
0.216146    0.261309    0.238703    0.283842    
Consensus sequence: HHDWTSAATGAATDDB

Reverse complement motif
0.283842    0.261309    0.238703    0.216146    
0.224200    0.152622    0.256688    0.366490    
0.186322    0.442471    0.154540    0.216667    
0.730965    0.114879    0.043620    0.110535    
0.022097    0.039206    0.073039    0.865658    
0.008193    0.002617    0.231695    0.757494    
0.005485    0.932599    0.020244    0.041672    
0.980532    0.003523    0.002842    0.013104    
0.024054    0.003485    0.003398    0.969063    
0.022906    0.001914    0.005956    0.969224    
0.021091    0.642563    0.330699    0.005647    
0.944811    0.017968    0.004577    0.032644    
0.341973    0.141414    0.102784    0.413829    
0.334462    0.177310    0.188699    0.299530    
0.241477    0.225252    0.301470    0.231801    
0.315104    0.177225    0.158977    0.348694    
Consensus sequence: VDHATTCATTSAWDDH

Alignment:
HHDWTSAATGAATDDB
----TGGAGGAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00021        Zfp281_secondary                   Reverse Complement                      Original Motif                          Forward        4              9              0.014260       

Species: Mus musculus

Original motif
0.463582    0.061604    0.232850    0.241964    
0.128956    0.062321    0.481130    0.327593    
0.217730    0.020690    0.453776    0.307803    
0.535427    0.042857    0.149994    0.271722    
0.222391    0.125415    0.375419    0.276775    
0.640877    0.065373    0.223489    0.070261    
0.021896    0.962922    0.010999    0.004183    
0.033993    0.953699    0.002967    0.009341    
0.009096    0.979346    0.006614    0.004944    
0.010148    0.971252    0.010228    0.008373    
0.019605    0.958973    0.012496    0.008926    
0.752208    0.080178    0.046020    0.121594    
0.466313    0.149124    0.107403    0.277160    
0.177748    0.055516    0.159170    0.607566    
0.314879    0.170636    0.187525    0.326960    
0.322202    0.105206    0.230803    0.341789    
0.284925    0.228846    0.320951    0.165278    
Consensus sequence: DKKWDACCCCCAHTDDV

Reverse complement motif
0.284925    0.320951    0.228846    0.165278    
0.341789    0.105206    0.230803    0.322202    
0.326960    0.170636    0.187525    0.314879    
0.607566    0.055516    0.159170    0.177748    
0.277160    0.149124    0.107403    0.466313    
0.121594    0.080178    0.046020    0.752208    
0.019605    0.012496    0.958973    0.008926    
0.010148    0.010228    0.971252    0.008373    
0.009096    0.006614    0.979346    0.004944    
0.033993    0.002967    0.953699    0.009341    
0.021896    0.010999    0.962922    0.004183    
0.070261    0.065373    0.223489    0.640877    
0.222391    0.375419    0.125415    0.276775    
0.271722    0.042857    0.149994    0.535427    
0.217730    0.453776    0.020690    0.307803    
0.128956    0.481130    0.062321    0.327593    
0.241964    0.061604    0.232850    0.463582    
Consensus sequence: VDDAHTGGGGGTHWYYD

Alignment:
DKKWDACCCCCAHTDDV
---TTTCCTCCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00208        Obox5_2284.1                       Reverse Complement                      Reverse Complement                      Forward        5              9              0.016190       

Species: Mus musculus

Original motif
0.281264    0.188968    0.136609    0.393160    
0.344028    0.038266    0.328422    0.289284    
0.266627    0.234290    0.328022    0.171062    
0.393172    0.142839    0.379282    0.084706    
0.110940    0.063210    0.811347    0.014502    
0.089051    0.002920    0.905749    0.002280    
0.008411    0.000554    0.984833    0.006202    
0.987567    0.004995    0.000896    0.006542    
0.003972    0.001261    0.003058    0.991709    
0.007568    0.004773    0.000491    0.987168    
0.974587    0.000828    0.001598    0.022987    
0.799844    0.004926    0.020978    0.174252    
0.383707    0.178162    0.082155    0.355976    
0.074343    0.081369    0.030820    0.813467    
0.182973    0.309007    0.180900    0.327119    
0.274045    0.191530    0.121366    0.413060    
0.286677    0.377630    0.141803    0.193890    
Consensus sequence: HDVRGGGATTAAHTHHH

Reverse complement motif
0.286677    0.141803    0.377630    0.193890    
0.413060    0.191530    0.121366    0.274045    
0.327119    0.309007    0.180900    0.182973    
0.813467    0.081369    0.030820    0.074343    
0.355976    0.178162    0.082155    0.383707    
0.174252    0.004926    0.020978    0.799844    
0.022987    0.000828    0.001598    0.974587    
0.987168    0.004773    0.000491    0.007568    
0.991709    0.001261    0.003058    0.003972    
0.006542    0.004995    0.000896    0.987567    
0.008411    0.984833    0.000554    0.006202    
0.089051    0.905749    0.002920    0.002280    
0.110940    0.811347    0.063210    0.014502    
0.084706    0.142839    0.379282    0.393172    
0.266627    0.328022    0.234290    0.171062    
0.289284    0.038266    0.328422    0.344028    
0.393160    0.188968    0.136609    0.281264    
Consensus sequence: DHHAHTTAATCCCKVDH

Alignment:
DHHAHTTAATCCCKVDH
----TTTCCTCCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00419        Spic                               Original Motif                          Original Motif                          Backward       4              9              0.016816       

Species: Mus musculus

Original motif
0.372554    0.181557    0.296001    0.149888    
0.734552    0.057250    0.044752    0.163446    
0.707604    0.045049    0.110341    0.137006    
0.637848    0.057252    0.071934    0.232966    
0.125449    0.108933    0.689441    0.076176    
0.266215    0.517339    0.207018    0.009428    
0.015016    0.002582    0.979670    0.002732    
0.004303    0.002322    0.989973    0.003401    
0.982327    0.003552    0.003393    0.010727    
0.974155    0.001662    0.003294    0.020889    
0.040023    0.128522    0.821560    0.009894    
0.027635    0.045828    0.016297    0.910239    
0.317500    0.045635    0.172234    0.464631    
0.342838    0.107812    0.284775    0.264576    
Consensus sequence: VAAAGMGGAAGTWD

Reverse complement motif
0.264576    0.107812    0.284775    0.342838    
0.464631    0.045635    0.172234    0.317500    
0.910239    0.045828    0.016297    0.027635    
0.040023    0.821560    0.128522    0.009894    
0.020889    0.001662    0.003294    0.974155    
0.010727    0.003552    0.003393    0.982327    
0.004303    0.989973    0.002322    0.003401    
0.015016    0.979670    0.002582    0.002732    
0.266215    0.207018    0.517339    0.009428    
0.125449    0.689441    0.108933    0.076176    
0.232966    0.057252    0.071934    0.637848    
0.137006    0.045049    0.110341    0.707604    
0.163446    0.057250    0.044752    0.734552    
0.149888    0.181557    0.296001    0.372554    
Consensus sequence: DWACTTCCRCTTTB

Alignment:
VAAAGMGGAAGTWD
--TGGAGGAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00208        Obox5_3963.2                       Reverse Complement                      Reverse Complement                      Forward        5              9              0.017507       

Species: Mus musculus

Original motif
0.387261    0.198638    0.227497    0.186604    
0.433519    0.034731    0.333894    0.197856    
0.267661    0.212742    0.354328    0.165269    
0.592496    0.107283    0.224595    0.075627    
0.204749    0.093469    0.661179    0.040603    
0.117847    0.005218    0.874222    0.002713    
0.003947    0.001871    0.982671    0.011511    
0.983643    0.007799    0.001236    0.007322    
0.002525    0.002866    0.003899    0.990710    
0.006852    0.004502    0.001227    0.987419    
0.974671    0.000902    0.002297    0.022129    
0.768669    0.009517    0.017357    0.204456    
0.309857    0.185797    0.068291    0.436055    
0.083091    0.099239    0.032683    0.784987    
0.402339    0.181407    0.250088    0.166166    
0.273450    0.139411    0.090102    0.497037    
0.280230    0.335645    0.216046    0.168079    
Consensus sequence: VRVAGGGATTAAHTVWV

Reverse complement motif
0.280230    0.216046    0.335645    0.168079    
0.497037    0.139411    0.090102    0.273450    
0.166166    0.181407    0.250088    0.402339    
0.784987    0.099239    0.032683    0.083091    
0.436055    0.185797    0.068291    0.309857    
0.204456    0.009517    0.017357    0.768669    
0.022129    0.000902    0.002297    0.974671    
0.987419    0.004502    0.001227    0.006852    
0.990710    0.002866    0.003899    0.002525    
0.007322    0.007799    0.001236    0.983643    
0.003947    0.982671    0.001871    0.011511    
0.117847    0.874222    0.005218    0.002713    
0.204749    0.661179    0.093469    0.040603    
0.075627    0.107283    0.224595    0.592496    
0.267661    0.354328    0.212742    0.165269    
0.197856    0.034731    0.333894    0.433519    
0.186604    0.198638    0.227497    0.387261    
Consensus sequence: VWBAHTTAATCCCTVKB

Alignment:
VWBAHTTAATCCCTVKB
----TTTCCTCCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_primary                     Reverse Complement                      Reverse Complement                      Forward        3              9              0.017867       

Species: Mus musculus

Original motif
0.190539    0.277187    0.240231    0.292043    
0.132707    0.187246    0.111293    0.568754    
0.936112    0.021141    0.033932    0.008815    
0.012721    0.023350    0.004164    0.959765    
0.007185    0.002386    0.987110    0.003318    
0.059134    0.009005    0.034016    0.897845    
0.900906    0.002575    0.086677    0.009842    
0.003163    0.941371    0.002196    0.053270    
0.034631    0.265318    0.037179    0.662873    
0.967171    0.007014    0.003028    0.022787    
0.980796    0.002228    0.010049    0.006927    
0.020630    0.005755    0.005408    0.968208    
0.427020    0.122682    0.118347    0.331951    
0.447075    0.284990    0.061633    0.206303    
Consensus sequence: BTATGTACTAATWH

Reverse complement motif
0.206303    0.284990    0.061633    0.447075    
0.331951    0.122682    0.118347    0.427020    
0.968208    0.005755    0.005408    0.020630    
0.006927    0.002228    0.010049    0.980796    
0.022787    0.007014    0.003028    0.967171    
0.662873    0.265318    0.037179    0.034631    
0.003163    0.002196    0.941371    0.053270    
0.009842    0.002575    0.086677    0.900906    
0.897845    0.009005    0.034016    0.059134    
0.007185    0.987110    0.002386    0.003318    
0.959765    0.023350    0.004164    0.012721    
0.008815    0.021141    0.033932    0.936112    
0.568754    0.187246    0.111293    0.132707    
0.292043    0.277187    0.240231    0.190539    
Consensus sequence: HWATTAGTACATAV

Alignment:
HWATTAGTACATAV
--TTTCCTCCA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 42		Motif name: Motif 42

Original motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TGAATGAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TTCATTCA


************************************************************************ Best Matches for Motif ID 42 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_primary                       Original Motif                          Original Motif                          Forward        5              8              0.000000       

Species: Mus musculus

Original motif
0.348694    0.177225    0.158977    0.315104    
0.241477    0.301470    0.225252    0.231801    
0.299530    0.177310    0.188699    0.334462    
0.413829    0.141414    0.102784    0.341973    
0.032644    0.017968    0.004577    0.944811    
0.021091    0.330699    0.642563    0.005647    
0.969224    0.001914    0.005956    0.022906    
0.969063    0.003485    0.003398    0.024054    
0.013104    0.003523    0.002842    0.980532    
0.005485    0.020244    0.932599    0.041672    
0.757494    0.002617    0.231695    0.008193    
0.865658    0.039206    0.073039    0.022097    
0.110535    0.114879    0.043620    0.730965    
0.186322    0.154540    0.442471    0.216667    
0.366490    0.152622    0.256688    0.224200    
0.216146    0.261309    0.238703    0.283842    
Consensus sequence: HHDWTSAATGAATDDB

Reverse complement motif
0.283842    0.261309    0.238703    0.216146    
0.224200    0.152622    0.256688    0.366490    
0.186322    0.442471    0.154540    0.216667    
0.730965    0.114879    0.043620    0.110535    
0.022097    0.039206    0.073039    0.865658    
0.008193    0.002617    0.231695    0.757494    
0.005485    0.932599    0.020244    0.041672    
0.980532    0.003523    0.002842    0.013104    
0.024054    0.003485    0.003398    0.969063    
0.022906    0.001914    0.005956    0.969224    
0.021091    0.642563    0.330699    0.005647    
0.944811    0.017968    0.004577    0.032644    
0.341973    0.141414    0.102784    0.413829    
0.334462    0.177310    0.188699    0.299530    
0.241477    0.225252    0.301470    0.231801    
0.315104    0.177225    0.158977    0.348694    
Consensus sequence: VDHATTCATTSAWDDH

Alignment:
HHDWTSAATGAATDDB
----TGAATGAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00118        Pou4f3                             Original Motif                          Original Motif                          Forward        6              8              0.042090       

Species: Mus musculus

Original motif
0.383079    0.200564    0.157774    0.258582    
0.286661    0.232328    0.346094    0.134917    
0.183287    0.074980    0.188685    0.553047    
0.245056    0.223547    0.014679    0.516718    
0.928782    0.007660    0.014149    0.049409    
0.008881    0.020425    0.001142    0.969552    
0.020532    0.000614    0.002803    0.976051    
0.968278    0.003691    0.001780    0.026252    
0.986910    0.001908    0.004534    0.006648    
0.006532    0.009241    0.001632    0.982594    
0.062388    0.006200    0.562032    0.369379    
0.937585    0.034112    0.009775    0.018527    
0.305324    0.123407    0.348899    0.222371    
0.075111    0.110371    0.496285    0.318233    
0.221869    0.271240    0.060549    0.446342    
0.190858    0.546784    0.055998    0.206361    
Consensus sequence: HVTTATTAATKADKHC

Reverse complement motif
0.190858    0.055998    0.546784    0.206361    
0.446342    0.271240    0.060549    0.221869    
0.075111    0.496285    0.110371    0.318233    
0.305324    0.348899    0.123407    0.222371    
0.018527    0.034112    0.009775    0.937585    
0.062388    0.562032    0.006200    0.369379    
0.982594    0.009241    0.001632    0.006532    
0.006648    0.001908    0.004534    0.986910    
0.026252    0.003691    0.001780    0.968278    
0.976051    0.000614    0.002803    0.020532    
0.969552    0.020425    0.001142    0.008881    
0.049409    0.007660    0.014149    0.928782    
0.516718    0.223547    0.014679    0.245056    
0.553047    0.074980    0.188685    0.183287    
0.286661    0.346094    0.232328    0.134917    
0.258582    0.200564    0.157774    0.383079    
Consensus sequence: GHYHTYATTAATAAVH

Alignment:
HVTTATTAATKADKHC
-----TGAATGAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00237        Otp                                Reverse Complement                      Reverse Complement                      Backward       6              8              0.042625       

Species: Mus musculus

Original motif
0.230993    0.375169    0.212909    0.180928    
0.308053    0.197960    0.335842    0.158144    
0.146999    0.355311    0.118315    0.379375    
0.411189    0.175886    0.183790    0.229135    
0.473168    0.101553    0.388483    0.036796    
0.007589    0.115608    0.001555    0.875248    
0.008817    0.035417    0.000301    0.955465    
0.983825    0.008430    0.006604    0.001141    
0.983066    0.001256    0.010977    0.004701    
0.004701    0.010977    0.001256    0.983066    
0.001141    0.006604    0.008430    0.983825    
0.955465    0.000301    0.035417    0.008817    
0.875248    0.001555    0.115608    0.007589    
0.059530    0.422614    0.086819    0.431037    
0.234910    0.104731    0.282998    0.377362    
0.222053    0.180868    0.345763    0.251316    
0.124269    0.122352    0.604547    0.148832    
Consensus sequence: VVHDRTTAATTAAYDDG

Reverse complement motif
0.124269    0.604547    0.122352    0.148832    
0.222053    0.345763    0.180868    0.251316    
0.377362    0.104731    0.282998    0.234910    
0.431037    0.422614    0.086819    0.059530    
0.007589    0.001555    0.115608    0.875248    
0.008817    0.000301    0.035417    0.955465    
0.983825    0.006604    0.008430    0.001141    
0.983066    0.010977    0.001256    0.004701    
0.004701    0.001256    0.010977    0.983066    
0.001141    0.008430    0.006604    0.983825    
0.955465    0.035417    0.000301    0.008817    
0.875248    0.115608    0.001555    0.007589    
0.036796    0.101553    0.388483    0.473168    
0.229135    0.175886    0.183790    0.411189    
0.379375    0.355311    0.118315    0.146999    
0.308053    0.335842    0.197960    0.158144    
0.230993    0.212909    0.375169    0.180928    
Consensus sequence: CHDMTTAATTAAKDHVV

Alignment:
CHDMTTAATTAAKDHVV
----TTCATTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00130        Lhx3                               Original Motif                          Reverse Complement                      Backward       5              8              0.042789       

Species: Mus musculus

Original motif
0.226746    0.289244    0.371785    0.112225    
0.256971    0.229670    0.248726    0.264633    
0.556784    0.228344    0.038490    0.176382    
0.631659    0.088282    0.196624    0.083434    
0.021306    0.098213    0.006109    0.874373    
0.016974    0.029949    0.000343    0.952734    
0.971885    0.004194    0.023228    0.000693    
0.983076    0.001653    0.004793    0.010478    
0.010478    0.004793    0.001653    0.983076    
0.000693    0.023228    0.004194    0.971885    
0.952734    0.000343    0.029949    0.016974    
0.874373    0.006109    0.098213    0.021306    
0.425814    0.086548    0.127397    0.360241    
0.343977    0.034349    0.079320    0.542354    
0.412597    0.281154    0.077380    0.228869    
0.338396    0.315969    0.106509    0.239127    
0.112285    0.233324    0.310745    0.343646    
Consensus sequence: VDAATTAATTAAWWHHB

Reverse complement motif
0.343646    0.233324    0.310745    0.112285    
0.239127    0.315969    0.106509    0.338396    
0.228869    0.281154    0.077380    0.412597    
0.542354    0.034349    0.079320    0.343977    
0.360241    0.086548    0.127397    0.425814    
0.021306    0.006109    0.098213    0.874373    
0.016974    0.000343    0.029949    0.952734    
0.971885    0.023228    0.004194    0.000693    
0.983076    0.004793    0.001653    0.010478    
0.010478    0.001653    0.004793    0.983076    
0.000693    0.004194    0.023228    0.971885    
0.952734    0.029949    0.000343    0.016974    
0.874373    0.098213    0.006109    0.021306    
0.083434    0.088282    0.196624    0.631659    
0.176382    0.228344    0.038490    0.556784    
0.264633    0.229670    0.248726    0.256971    
0.226746    0.371785    0.289244    0.112225    
Consensus sequence: VHHWWTTAATTAATTDV

Alignment:
VHHWWTTAATTAATTDV
-----TGAATGAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00212        Lhx5                               Reverse Complement                      Reverse Complement                      Forward        6              8              0.044202       

Species: Mus musculus

Original motif
0.192127    0.348816    0.300474    0.158583    
0.251871    0.201197    0.314740    0.232192    
0.469240    0.195840    0.137749    0.197171    
0.620351    0.063061    0.196615    0.119973    
0.026357    0.096838    0.024928    0.851877    
0.010301    0.066114    0.000301    0.923283    
0.980649    0.007663    0.010886    0.000802    
0.981397    0.001294    0.004654    0.012655    
0.012655    0.004654    0.001294    0.981397    
0.000802    0.010886    0.007663    0.980649    
0.923283    0.000301    0.066114    0.010301    
0.851877    0.024928    0.096838    0.026357    
0.528438    0.142302    0.071537    0.257724    
0.296647    0.115284    0.062688    0.525382    
0.401193    0.235971    0.157675    0.205160    
0.309966    0.315367    0.145959    0.228708    
0.089761    0.287439    0.205359    0.417441    
Consensus sequence: VDHATTAATTAAAWHHB

Reverse complement motif
0.417441    0.287439    0.205359    0.089761    
0.309966    0.145959    0.315367    0.228708    
0.205160    0.235971    0.157675    0.401193    
0.525382    0.115284    0.062688    0.296647    
0.257724    0.142302    0.071537    0.528438    
0.026357    0.024928    0.096838    0.851877    
0.010301    0.000301    0.066114    0.923283    
0.980649    0.010886    0.007663    0.000802    
0.981397    0.004654    0.001294    0.012655    
0.012655    0.001294    0.004654    0.981397    
0.000802    0.007663    0.010886    0.980649    
0.923283    0.066114    0.000301    0.010301    
0.851877    0.096838    0.024928    0.026357    
0.119973    0.063061    0.196615    0.620351    
0.197171    0.195840    0.137749    0.469240    
0.251871    0.314740    0.201197    0.232192    
0.192127    0.300474    0.348816    0.158583    
Consensus sequence: VDHWTTTAATTAATHHV

Alignment:
VDHWTTTAATTAATHHV
-----TTCATTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00012        Bbx_primary                        Reverse Complement                      Reverse Complement                      Forward        4              8              0.045144       

Species: Mus musculus

Original motif
0.243561    0.194936    0.123150    0.438353    
0.606538    0.159878    0.056476    0.177109    
0.460256    0.141315    0.215237    0.183192    
0.134434    0.033508    0.053304    0.778753    
0.091333    0.019966    0.020704    0.867997    
0.136284    0.753571    0.062560    0.047585    
0.917109    0.031475    0.015472    0.035944    
0.452244    0.084890    0.121698    0.341168    
0.035944    0.015472    0.031475    0.917109    
0.047585    0.062560    0.753571    0.136284    
0.867997    0.020704    0.019966    0.091333    
0.778753    0.053304    0.033508    0.134434    
0.123705    0.284125    0.353361    0.238808    
0.291282    0.126574    0.120737    0.461406    
0.330626    0.062565    0.348868    0.257941    
Consensus sequence: HADTTCAWTGAABWD

Reverse complement motif
0.330626    0.348868    0.062565    0.257941    
0.461406    0.126574    0.120737    0.291282    
0.123705    0.353361    0.284125    0.238808    
0.134434    0.053304    0.033508    0.778753    
0.091333    0.020704    0.019966    0.867997    
0.047585    0.753571    0.062560    0.136284    
0.917109    0.015472    0.031475    0.035944    
0.341168    0.084890    0.121698    0.452244    
0.035944    0.031475    0.015472    0.917109    
0.136284    0.062560    0.753571    0.047585    
0.867997    0.019966    0.020704    0.091333    
0.778753    0.033508    0.053304    0.134434    
0.183192    0.141315    0.215237    0.460256    
0.177109    0.159878    0.056476    0.606538    
0.438353    0.194936    0.123150    0.243561    
Consensus sequence: HWBTTCAWTGAADTH

Alignment:
HWBTTCAWTGAADTH
---TTCATTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00142        Uncx4.1                            Original Motif                          Reverse Complement                      Forward        5              8              0.045595       

Species: Mus musculus

Original motif
0.304380    0.311795    0.268876    0.114949    
0.351118    0.211470    0.225202    0.212210    
0.231585    0.174454    0.127484    0.466477    
0.479229    0.157540    0.203780    0.159451    
0.625673    0.170623    0.111368    0.092336    
0.010242    0.148179    0.010210    0.831370    
0.009608    0.062829    0.000911    0.926652    
0.980815    0.008055    0.009383    0.001746    
0.980244    0.001172    0.005903    0.012681    
0.012681    0.005903    0.001172    0.980244    
0.001746    0.009383    0.008055    0.980815    
0.926652    0.000911    0.062829    0.009608    
0.831370    0.010210    0.148179    0.010242    
0.148058    0.361669    0.223929    0.266344    
0.178551    0.183863    0.465801    0.171785    
0.170980    0.366501    0.305559    0.156960    
0.125744    0.153063    0.556137    0.165056    
Consensus sequence: VDHDATTAATTAABVVG

Reverse complement motif
0.125744    0.556137    0.153063    0.165056    
0.170980    0.305559    0.366501    0.156960    
0.178551    0.465801    0.183863    0.171785    
0.148058    0.223929    0.361669    0.266344    
0.010242    0.010210    0.148179    0.831370    
0.009608    0.000911    0.062829    0.926652    
0.980815    0.009383    0.008055    0.001746    
0.980244    0.005903    0.001172    0.012681    
0.012681    0.001172    0.005903    0.980244    
0.001746    0.008055    0.009383    0.980815    
0.926652    0.062829    0.000911    0.009608    
0.831370    0.148179    0.010210    0.010242    
0.092336    0.170623    0.111368    0.625673    
0.159451    0.157540    0.203780    0.479229    
0.466477    0.174454    0.127484    0.231585    
0.212210    0.211470    0.225202    0.351118    
0.304380    0.268876    0.311795    0.114949    
Consensus sequence: CVVBTTAATTAATDHDV

Alignment:
CVVBTTAATTAATDHDV
----TGAATGAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00172        Prop1                              Original Motif                          Reverse Complement                      Forward        6              8              0.046095       

Species: Mus musculus

Original motif
0.239694    0.382964    0.212782    0.164560    
0.211105    0.192638    0.471186    0.125071    
0.361402    0.251084    0.217415    0.170099    
0.474402    0.180412    0.249562    0.095624    
0.015257    0.155181    0.007371    0.822191    
0.011633    0.033757    0.000947    0.953662    
0.984150    0.005351    0.005253    0.005247    
0.982857    0.001638    0.005309    0.010196    
0.010196    0.005309    0.001638    0.982857    
0.005247    0.005253    0.005351    0.984150    
0.953662    0.000947    0.033757    0.011633    
0.822191    0.007371    0.155181    0.015257    
0.159439    0.160044    0.349613    0.330903    
0.454571    0.111567    0.175216    0.258646    
0.305750    0.183822    0.246269    0.264159    
0.351726    0.178703    0.236408    0.233163    
0.142463    0.525857    0.103778    0.227902    
Consensus sequence: VVVVTTAATTAABDDDC

Reverse complement motif
0.142463    0.103778    0.525857    0.227902    
0.233163    0.178703    0.236408    0.351726    
0.264159    0.183822    0.246269    0.305750    
0.258646    0.111567    0.175216    0.454571    
0.159439    0.349613    0.160044    0.330903    
0.015257    0.007371    0.155181    0.822191    
0.011633    0.000947    0.033757    0.953662    
0.984150    0.005253    0.005351    0.005247    
0.982857    0.005309    0.001638    0.010196    
0.010196    0.001638    0.005309    0.982857    
0.005247    0.005351    0.005253    0.984150    
0.953662    0.033757    0.000947    0.011633    
0.822191    0.155181    0.007371    0.015257    
0.095624    0.180412    0.249562    0.474402    
0.170099    0.251084    0.217415    0.361402    
0.211105    0.471186    0.192638    0.125071    
0.239694    0.212782    0.382964    0.164560    
Consensus sequence: GDDDBTTAATTAABBVV

Alignment:
GDDDBTTAATTAABBVV
-----TGAATGAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00169        Lmx1b                              Original Motif                          Reverse Complement                      Forward        5              8              0.048175       

Species: Mus musculus

Original motif
0.336931    0.220707    0.306671    0.135692    
0.251068    0.126246    0.394767    0.227919    
0.318914    0.086872    0.150663    0.443551    
0.368649    0.051170    0.092361    0.487819    
0.359682    0.088506    0.064771    0.487041    
0.019535    0.162692    0.015925    0.801848    
0.015902    0.024224    0.000652    0.959222    
0.974698    0.006086    0.002334    0.016882    
0.978085    0.001281    0.005421    0.015214    
0.015214    0.005421    0.001281    0.978085    
0.016882    0.002334    0.006086    0.974698    
0.959222    0.000652    0.024224    0.015902    
0.801848    0.015925    0.162692    0.019535    
0.242323    0.115688    0.116364    0.525625    
0.283782    0.097563    0.188384    0.430271    
0.252386    0.255982    0.135946    0.355686    
0.141430    0.249462    0.350759    0.258349    
Consensus sequence: VDWWWTTAATTAATDHB

Reverse complement motif
0.141430    0.350759    0.249462    0.258349    
0.355686    0.255982    0.135946    0.252386    
0.430271    0.097563    0.188384    0.283782    
0.525625    0.115688    0.116364    0.242323    
0.019535    0.015925    0.162692    0.801848    
0.015902    0.000652    0.024224    0.959222    
0.974698    0.002334    0.006086    0.016882    
0.978085    0.005421    0.001281    0.015214    
0.015214    0.001281    0.005421    0.978085    
0.016882    0.006086    0.002334    0.974698    
0.959222    0.024224    0.000652    0.015902    
0.801848    0.162692    0.015925    0.019535    
0.487041    0.088506    0.064771    0.359682    
0.487819    0.051170    0.092361    0.368649    
0.443551    0.086872    0.150663    0.318914    
0.251068    0.394767    0.126246    0.227919    
0.135692    0.220707    0.306671    0.336931    
Consensus sequence: BHDATTAATTAAWWWHB

Alignment:
BHDATTAATTAAWWWHB
----TGAATGAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00149        Phox2b                             Reverse Complement                      Reverse Complement                      Backward       6              8              0.049128       

Species: Mus musculus

Original motif
0.270312    0.380127    0.282721    0.066841    
0.311438    0.198757    0.357591    0.132214    
0.166453    0.217463    0.312350    0.303735    
0.604298    0.151111    0.094727    0.149864    
0.577367    0.199873    0.198382    0.024378    
0.053117    0.151891    0.010359    0.784633    
0.018560    0.037001    0.003208    0.941231    
0.974725    0.006070    0.016797    0.002408    
0.975412    0.000845    0.011275    0.012468    
0.012468    0.011275    0.000845    0.975412    
0.002408    0.016797    0.006070    0.974725    
0.941231    0.003208    0.037001    0.018560    
0.784633    0.010359    0.151891    0.053117    
0.064719    0.315444    0.226411    0.393427    
0.379871    0.088168    0.289727    0.242234    
0.205449    0.280466    0.296675    0.217411    
0.161998    0.172365    0.502390    0.163246    
Consensus sequence: VVBAATTAATTAABDBG

Reverse complement motif
0.161998    0.502390    0.172365    0.163246    
0.205449    0.296675    0.280466    0.217411    
0.242234    0.088168    0.289727    0.379871    
0.393427    0.315444    0.226411    0.064719    
0.053117    0.010359    0.151891    0.784633    
0.018560    0.003208    0.037001    0.941231    
0.974725    0.016797    0.006070    0.002408    
0.975412    0.011275    0.000845    0.012468    
0.012468    0.000845    0.011275    0.975412    
0.002408    0.006070    0.016797    0.974725    
0.941231    0.037001    0.003208    0.018560    
0.784633    0.151891    0.010359    0.053117    
0.024378    0.199873    0.198382    0.577367    
0.149864    0.151111    0.094727    0.604298    
0.166453    0.312350    0.217463    0.303735    
0.311438    0.357591    0.198757    0.132214    
0.270312    0.282721    0.380127    0.066841    
Consensus sequence: CBDVTTAATTAATTBVV

Alignment:
CBDVTTAATTAATTBVV
----TTCATTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 43		Motif name: Motif 43

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AAKGAAAGGCA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TGCCTTTCYTT


************************************************************************ Best Matches for Motif ID 43 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00074        Isgf3g_primary                     Reverse Complement                      Reverse Complement                      Forward        1              11             0.012358       

Species: Mus musculus

Original motif
0.276786    0.305435    0.213026    0.204753    
0.396362    0.114731    0.248667    0.240240    
0.461284    0.092047    0.334734    0.111936    
0.775091    0.019703    0.057075    0.148131    
0.860742    0.032827    0.020878    0.085553    
0.318035    0.134940    0.114054    0.432971    
0.031989    0.819436    0.031529    0.117045    
0.038741    0.005309    0.945956    0.009995    
0.961581    0.018494    0.013401    0.006524    
0.943392    0.004223    0.007869    0.044516    
0.964748    0.010789    0.003727    0.020735    
0.029401    0.875794    0.079869    0.014937    
0.034572    0.294928    0.012201    0.658299    
0.370121    0.165750    0.227886    0.236243    
0.803710    0.072510    0.054519    0.069261    
Consensus sequence: VDRAAWCGAAACTDA

Reverse complement motif
0.069261    0.072510    0.054519    0.803710    
0.236243    0.165750    0.227886    0.370121    
0.658299    0.294928    0.012201    0.034572    
0.029401    0.079869    0.875794    0.014937    
0.020735    0.010789    0.003727    0.964748    
0.044516    0.004223    0.007869    0.943392    
0.006524    0.018494    0.013401    0.961581    
0.038741    0.945956    0.005309    0.009995    
0.031989    0.031529    0.819436    0.117045    
0.432971    0.134940    0.114054    0.318035    
0.085553    0.032827    0.020878    0.860742    
0.148131    0.019703    0.057075    0.775091    
0.111936    0.092047    0.334734    0.461284    
0.240240    0.114731    0.248667    0.396362    
0.276786    0.213026    0.305435    0.204753    
Consensus sequence: TDAGTTTCGWTTKDV

Alignment:
TDAGTTTCGWTTKDV
TGCCTTTCYTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Original Motif                          Reverse Complement                      Backward       3              11             0.014351       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
BDDASATCAAAGGMDDD
----AAKGAAAGGCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Forward        5              11             0.015991       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
----AAKGAAAGGCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Original Motif                          Backward       3              11             0.022126       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH
----AAKGAAAGGCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Reverse Complement                      Reverse Complement                      Backward       5              11             0.023370       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HHBTMCTTTGTTMDDVH
--TGCCTTTCYTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Reverse Complement                      Reverse Complement                      Forward        3              11             0.023497       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HHBBMCTTTGTTHDDBH
--TGCCTTTCYTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Original Motif                          Backward       3              11             0.023926       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHASATCAAAGVRHHH
----AAKGAAAGGCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Original Motif                          Backward       6              11             0.023978       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
-AAKGAAAGGCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00044        Mafk_secondary                     Reverse Complement                      Reverse Complement                      Backward       2              11             0.026408       

Species: Mus musculus

Original motif
0.289934    0.244974    0.342021    0.123071    
0.317105    0.250774    0.206169    0.225952    
0.589909    0.146264    0.176464    0.087364    
0.805648    0.031025    0.116712    0.046614    
0.859239    0.012630    0.068740    0.059391    
0.877855    0.017270    0.013520    0.091354    
0.822443    0.051458    0.029433    0.096666    
0.175032    0.076822    0.256419    0.491726    
0.028231    0.131221    0.031440    0.809107    
0.050608    0.039418    0.847824    0.062150    
0.041983    0.868232    0.042708    0.047077    
0.757931    0.111841    0.090214    0.040013    
0.451956    0.283644    0.033652    0.230747    
0.058765    0.285975    0.414514    0.240747    
0.391919    0.133805    0.407813    0.066464    
Consensus sequence: VHAAAAADTGCAHBR

Reverse complement motif
0.391919    0.407813    0.133805    0.066464    
0.058765    0.414514    0.285975    0.240747    
0.230747    0.283644    0.033652    0.451956    
0.040013    0.111841    0.090214    0.757931    
0.041983    0.042708    0.868232    0.047077    
0.050608    0.847824    0.039418    0.062150    
0.809107    0.131221    0.031440    0.028231    
0.491726    0.076822    0.256419    0.175032    
0.096666    0.051458    0.029433    0.822443    
0.091354    0.017270    0.013520    0.877855    
0.059391    0.012630    0.068740    0.859239    
0.046614    0.031025    0.116712    0.805648    
0.087364    0.146264    0.176464    0.589909    
0.225952    0.250774    0.206169    0.317105    
0.289934    0.342021    0.244974    0.123071    
Consensus sequence: MBHTGCADTTTTTHV

Alignment:
MBHTGCADTTTTTHV
---TGCCTTTCYTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00217        Hoxa10                             Original Motif                          Original Motif                          Backward       1              11             0.027394       

Species: Mus musculus

Original motif
0.253548    0.084175    0.291022    0.371255    
0.417014    0.294330    0.125631    0.163025    
0.123351    0.208324    0.445405    0.222921    
0.172372    0.079941    0.703466    0.044221    
0.067738    0.316338    0.008581    0.607343    
0.714812    0.267364    0.004791    0.013032    
0.889412    0.007924    0.076273    0.026392    
0.025273    0.005506    0.003887    0.965335    
0.702649    0.009737    0.005991    0.281622    
0.912510    0.003037    0.007419    0.077034    
0.883516    0.023732    0.005164    0.087588    
0.694916    0.058227    0.048693    0.198164    
0.235705    0.164601    0.066361    0.533333    
0.182632    0.079837    0.301116    0.436414    
0.280662    0.390486    0.085440    0.243412    
0.524839    0.080903    0.096006    0.298252    
Consensus sequence: DHBGYAATAAAATDHW

Reverse complement motif
0.298252    0.080903    0.096006    0.524839    
0.280662    0.085440    0.390486    0.243412    
0.436414    0.079837    0.301116    0.182632    
0.533333    0.164601    0.066361    0.235705    
0.198164    0.058227    0.048693    0.694916    
0.087588    0.023732    0.005164    0.883516    
0.077034    0.003037    0.007419    0.912510    
0.281622    0.009737    0.005991    0.702649    
0.965335    0.005506    0.003887    0.025273    
0.026392    0.007924    0.076273    0.889412    
0.013032    0.267364    0.004791    0.714812    
0.607343    0.316338    0.008581    0.067738    
0.172372    0.703466    0.079941    0.044221    
0.123351    0.445405    0.208324    0.222921    
0.163025    0.294330    0.125631    0.417014    
0.371255    0.084175    0.291022    0.253548    
Consensus sequence: WDDATTTTATTMCBHD

Alignment:
DHBGYAATAAAATDHW
-----AAKGAAAGGCA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 44		Motif name: Motif 44

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AATGKAAGAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TTCTTYCATT


************************************************************************ Best Matches for Motif ID 44 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_primary                     Original Motif                          Original Motif                          Forward        2              10             0.029321       

Species: Mus musculus

Original motif
0.190539    0.277187    0.240231    0.292043    
0.132707    0.187246    0.111293    0.568754    
0.936112    0.021141    0.033932    0.008815    
0.012721    0.023350    0.004164    0.959765    
0.007185    0.002386    0.987110    0.003318    
0.059134    0.009005    0.034016    0.897845    
0.900906    0.002575    0.086677    0.009842    
0.003163    0.941371    0.002196    0.053270    
0.034631    0.265318    0.037179    0.662873    
0.967171    0.007014    0.003028    0.022787    
0.980796    0.002228    0.010049    0.006927    
0.020630    0.005755    0.005408    0.968208    
0.427020    0.122682    0.118347    0.331951    
0.447075    0.284990    0.061633    0.206303    
Consensus sequence: BTATGTACTAATWH

Reverse complement motif
0.206303    0.284990    0.061633    0.447075    
0.331951    0.122682    0.118347    0.427020    
0.968208    0.005755    0.005408    0.020630    
0.006927    0.002228    0.010049    0.980796    
0.022787    0.007014    0.003028    0.967171    
0.662873    0.265318    0.037179    0.034631    
0.003163    0.002196    0.941371    0.053270    
0.009842    0.002575    0.086677    0.900906    
0.897845    0.009005    0.034016    0.059134    
0.007185    0.987110    0.002386    0.003318    
0.959765    0.023350    0.004164    0.012721    
0.008815    0.021141    0.033932    0.936112    
0.568754    0.187246    0.111293    0.132707    
0.292043    0.277187    0.240231    0.190539    
Consensus sequence: HWATTAGTACATAV

Alignment:
BTATGTACTAATWH
-AATGKAAGAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_primary                       Reverse Complement                      Reverse Complement                      Backward       7              10             0.031411       

Species: Mus musculus

Original motif
0.348694    0.177225    0.158977    0.315104    
0.241477    0.301470    0.225252    0.231801    
0.299530    0.177310    0.188699    0.334462    
0.413829    0.141414    0.102784    0.341973    
0.032644    0.017968    0.004577    0.944811    
0.021091    0.330699    0.642563    0.005647    
0.969224    0.001914    0.005956    0.022906    
0.969063    0.003485    0.003398    0.024054    
0.013104    0.003523    0.002842    0.980532    
0.005485    0.020244    0.932599    0.041672    
0.757494    0.002617    0.231695    0.008193    
0.865658    0.039206    0.073039    0.022097    
0.110535    0.114879    0.043620    0.730965    
0.186322    0.154540    0.442471    0.216667    
0.366490    0.152622    0.256688    0.224200    
0.216146    0.261309    0.238703    0.283842    
Consensus sequence: HHDWTSAATGAATDDB

Reverse complement motif
0.283842    0.261309    0.238703    0.216146    
0.224200    0.152622    0.256688    0.366490    
0.186322    0.442471    0.154540    0.216667    
0.730965    0.114879    0.043620    0.110535    
0.022097    0.039206    0.073039    0.865658    
0.008193    0.002617    0.231695    0.757494    
0.005485    0.932599    0.020244    0.041672    
0.980532    0.003523    0.002842    0.013104    
0.024054    0.003485    0.003398    0.969063    
0.022906    0.001914    0.005956    0.969224    
0.021091    0.642563    0.330699    0.005647    
0.944811    0.017968    0.004577    0.032644    
0.341973    0.141414    0.102784    0.413829    
0.334462    0.177310    0.188699    0.299530    
0.241477    0.225252    0.301470    0.231801    
0.315104    0.177225    0.158977    0.348694    
Consensus sequence: VDHATTCATTSAWDDH

Alignment:
VDHATTCATTSAWDDH
TTCTTYCATT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Original Motif                          Original Motif                          Backward       6              10             0.038592       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
DDAATGTAAACAAAVVB
--AATGKAAGAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Original Motif                          Backward       6              10             0.039278       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
DWAATRTAAACAAWVVB
--AATGKAAGAA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00157        Hmx3                               Reverse Complement                      Reverse Complement                      Backward       7              10             0.043381       

Species: Mus musculus

Original motif
0.493883    0.207908    0.206555    0.091654    
0.124338    0.490519    0.252638    0.132506    
0.482613    0.229280    0.188509    0.099597    
0.758821    0.067165    0.111206    0.062809    
0.154132    0.098232    0.594074    0.153562    
0.015565    0.938529    0.001667    0.044239    
0.835485    0.001163    0.156926    0.006426    
0.869937    0.118961    0.001666    0.009435    
0.005815    0.004470    0.001031    0.988683    
0.014066    0.042296    0.000378    0.943259    
0.924765    0.001168    0.024126    0.049941    
0.873425    0.020468    0.034636    0.071470    
0.387156    0.148327    0.115500    0.349017    
0.256863    0.183824    0.381900    0.177413    
0.472131    0.208576    0.255773    0.063519    
0.524326    0.109150    0.180486    0.186038    
0.125721    0.103316    0.133298    0.637666    
Consensus sequence: VBVAGCAATTAAHVVAT

Reverse complement motif
0.637666    0.103316    0.133298    0.125721    
0.186038    0.109150    0.180486    0.524326    
0.063519    0.208576    0.255773    0.472131    
0.256863    0.381900    0.183824    0.177413    
0.349017    0.148327    0.115500    0.387156    
0.071470    0.020468    0.034636    0.873425    
0.049941    0.001168    0.024126    0.924765    
0.943259    0.042296    0.000378    0.014066    
0.988683    0.004470    0.001031    0.005815    
0.009435    0.118961    0.001666    0.869937    
0.006426    0.001163    0.156926    0.835485    
0.015565    0.001667    0.938529    0.044239    
0.154132    0.594074    0.098232    0.153562    
0.062809    0.067165    0.111206    0.758821    
0.099597    0.229280    0.188509    0.482613    
0.124338    0.252638    0.490519    0.132506    
0.091654    0.207908    0.206555    0.493883    
Consensus sequence: ATBVHTTAATTGCTBBB

Alignment:
ATBVHTTAATTGCTBBB
-TTCTTYCATT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Reverse Complement                      Original Motif                          Backward       5              10             0.043670       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
DDDYCCTTTGATSTDDV
---TTCTTYCATT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Reverse Complement                      Original Motif                          Backward       5              10             0.044411       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
DDDYCCTTTGATCTDDV
---TTCTTYCATT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00155        Hmx2                               Reverse Complement                      Reverse Complement                      Backward       7              10             0.045489       

Species: Mus musculus

Original motif
0.496013    0.201439    0.234082    0.068466    
0.187731    0.442491    0.232786    0.136992    
0.546269    0.190140    0.171225    0.092365    
0.766900    0.055660    0.121480    0.055959    
0.166703    0.152146    0.573689    0.107463    
0.008586    0.974989    0.003194    0.013231    
0.847648    0.001099    0.146478    0.004775    
0.851907    0.131324    0.006893    0.009877    
0.005053    0.003719    0.001092    0.990135    
0.015092    0.055361    0.000333    0.929213    
0.934792    0.001369    0.011244    0.052595    
0.890982    0.010911    0.022703    0.075405    
0.360898    0.185917    0.109871    0.343315    
0.248362    0.207536    0.407845    0.136257    
0.413889    0.266826    0.266667    0.052618    
0.472173    0.104750    0.246154    0.176923    
0.094095    0.071488    0.092888    0.741528    
Consensus sequence: VVAAGCAATTAAHVVDT

Reverse complement motif
0.741528    0.071488    0.092888    0.094095    
0.176923    0.104750    0.246154    0.472173    
0.052618    0.266826    0.266667    0.413889    
0.248362    0.407845    0.207536    0.136257    
0.343315    0.185917    0.109871    0.360898    
0.075405    0.010911    0.022703    0.890982    
0.052595    0.001369    0.011244    0.934792    
0.929213    0.055361    0.000333    0.015092    
0.990135    0.003719    0.001092    0.005053    
0.009877    0.131324    0.006893    0.851907    
0.004775    0.001099    0.146478    0.847648    
0.008586    0.003194    0.974989    0.013231    
0.166703    0.573689    0.152146    0.107463    
0.055959    0.055660    0.121480    0.766900    
0.092365    0.190140    0.171225    0.546269    
0.187731    0.232786    0.442491    0.136992    
0.068466    0.201439    0.234082    0.496013    
Consensus sequence: ADBVHTTAATTGCTTVB

Alignment:
ADBVHTTAATTGCTTVB
-TTCTTYCATT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00134        Hoxb13                             Reverse Complement                      Reverse Complement                      Forward        2              10             0.047905       

Species: Mus musculus

Original motif
0.376100    0.272625    0.202253    0.149021    
0.479072    0.116315    0.274952    0.129661    
0.297412    0.328646    0.182054    0.191889    
0.052067    0.771717    0.088083    0.088133    
0.018222    0.666056    0.006952    0.308770    
0.755568    0.122362    0.001339    0.120731    
0.915413    0.001023    0.052340    0.031225    
0.002612    0.028396    0.000695    0.968297    
0.831092    0.001851    0.005615    0.161442    
0.927869    0.001839    0.001169    0.069123    
0.967747    0.009603    0.002871    0.019778    
0.843186    0.073812    0.055868    0.027134    
0.371084    0.143031    0.086222    0.399662    
0.264976    0.212885    0.118960    0.403179    
0.215633    0.345186    0.105518    0.333663    
0.221910    0.297212    0.329310    0.151568    
Consensus sequence: VRHCCAATAAAAWHHV

Reverse complement motif
0.221910    0.329310    0.297212    0.151568    
0.215633    0.105518    0.345186    0.333663    
0.403179    0.212885    0.118960    0.264976    
0.399662    0.143031    0.086222    0.371084    
0.027134    0.073812    0.055868    0.843186    
0.019778    0.009603    0.002871    0.967747    
0.069123    0.001839    0.001169    0.927869    
0.161442    0.001851    0.005615    0.831092    
0.968297    0.028396    0.000695    0.002612    
0.031225    0.001023    0.052340    0.915413    
0.120731    0.122362    0.001339    0.755568    
0.018222    0.006952    0.666056    0.308770    
0.052067    0.088083    0.771717    0.088133    
0.297412    0.182054    0.328646    0.191889    
0.129661    0.116315    0.274952    0.479072    
0.149021    0.272625    0.202253    0.376100    
Consensus sequence: VDHWTTTTATTGGDKB

Alignment:
VDHWTTTTATTGGDKB
-TTCTTYCATT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00180        Hoxd13                             Reverse Complement                      Reverse Complement                      Forward        2              10             0.048189       

Species: Mus musculus

Original motif
0.279189    0.316791    0.190404    0.213616    
0.297705    0.175638    0.191020    0.335637    
0.333485    0.203858    0.174034    0.288623    
0.046444    0.540349    0.083237    0.329969    
0.016780    0.648667    0.003870    0.330682    
0.679959    0.116873    0.002745    0.200422    
0.936496    0.002013    0.026876    0.034615    
0.004741    0.008734    0.003861    0.982665    
0.904624    0.000869    0.005345    0.089162    
0.967883    0.002295    0.001003    0.028819    
0.980087    0.004768    0.002887    0.012258    
0.898523    0.041633    0.022776    0.037069    
0.246903    0.292446    0.069240    0.391411    
0.192528    0.300908    0.105655    0.400908    
0.247610    0.343317    0.190760    0.218313    
0.246702    0.253595    0.176298    0.323404    
Consensus sequence: HDHYYAATAAAAHHHH

Reverse complement motif
0.323404    0.253595    0.176298    0.246702    
0.247610    0.190760    0.343317    0.218313    
0.400908    0.300908    0.105655    0.192528    
0.391411    0.292446    0.069240    0.246903    
0.037069    0.041633    0.022776    0.898523    
0.012258    0.004768    0.002887    0.980087    
0.028819    0.002295    0.001003    0.967883    
0.089162    0.000869    0.005345    0.904624    
0.982665    0.008734    0.003861    0.004741    
0.034615    0.002013    0.026876    0.936496    
0.200422    0.116873    0.002745    0.679959    
0.016780    0.003870    0.648667    0.330682    
0.046444    0.083237    0.540349    0.329969    
0.288623    0.203858    0.174034    0.333485    
0.335637    0.175638    0.191020    0.297705    
0.279189    0.190404    0.316791    0.213616    
Consensus sequence: HDHHTTTTATTKKHDD

Alignment:
HDHHTTTTATTKKHDD
-TTCTTYCATT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 45		Motif name: Motif 45

Original motif
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.500000    0.000000    0.000000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TAASTCTWTTTTAA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.500000    0.000000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: TTAAAAWAGASTTA


************************************************************************ Best Matches for Motif ID 45 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00114        Homez                              Original Motif                          Original Motif                          Forward        3              14             0.042602       

Species: Mus musculus

Original motif
0.585235    0.056880    0.174898    0.182987    
0.344783    0.171238    0.144379    0.339600    
0.496888    0.112442    0.086669    0.304001    
0.457408    0.134777    0.032789    0.375026    
0.342717    0.420568    0.171418    0.065297    
0.872988    0.030946    0.004203    0.091862    
0.006581    0.013120    0.006495    0.973804    
0.036193    0.946961    0.004377    0.012469    
0.014767    0.005226    0.966106    0.013901    
0.208700    0.008264    0.021875    0.761161    
0.037957    0.018882    0.028895    0.914266    
0.157997    0.026546    0.021365    0.794092    
0.139814    0.136272    0.117987    0.605927    
0.125467    0.233302    0.183071    0.458161    
0.523941    0.191122    0.050126    0.234811    
0.374984    0.049392    0.291831    0.283793    
0.268235    0.165772    0.308515    0.257477    
Consensus sequence: AHWWMATCGTTTTBADD

Reverse complement motif
0.268235    0.308515    0.165772    0.257477    
0.283793    0.049392    0.291831    0.374984    
0.234811    0.191122    0.050126    0.523941    
0.458161    0.233302    0.183071    0.125467    
0.605927    0.136272    0.117987    0.139814    
0.794092    0.026546    0.021365    0.157997    
0.914266    0.018882    0.028895    0.037957    
0.761161    0.008264    0.021875    0.208700    
0.014767    0.966106    0.005226    0.013901    
0.036193    0.004377    0.946961    0.012469    
0.973804    0.013120    0.006495    0.006581    
0.091862    0.030946    0.004203    0.872988    
0.342717    0.171418    0.420568    0.065297    
0.375026    0.134777    0.032789    0.457408    
0.304001    0.112442    0.086669    0.496888    
0.339600    0.171238    0.144379    0.344783    
0.182987    0.056880    0.174898    0.585235    
Consensus sequence: HDTVAAAACGATRWWHT

Alignment:
AHWWMATCGTTTTBADD
--TAASTCTWTTTTAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Reverse Complement                      Original Motif                          Forward        4              14             0.049350       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HBDDDAACAAAGRVBHH
---TTAAAAWAGASTTA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Reverse Complement                      Backward       5              13             0.542468       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
-VVVWTTGTTTAMATTWD
TAASTCTWTTTTAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00172        Prop1                              Reverse Complement                      Original Motif                          Forward        5              13             0.545182       

Species: Mus musculus

Original motif
0.239694    0.382964    0.212782    0.164560    
0.211105    0.192638    0.471186    0.125071    
0.361402    0.251084    0.217415    0.170099    
0.474402    0.180412    0.249562    0.095624    
0.015257    0.155181    0.007371    0.822191    
0.011633    0.033757    0.000947    0.953662    
0.984150    0.005351    0.005253    0.005247    
0.982857    0.001638    0.005309    0.010196    
0.010196    0.005309    0.001638    0.982857    
0.005247    0.005253    0.005351    0.984150    
0.953662    0.000947    0.033757    0.011633    
0.822191    0.007371    0.155181    0.015257    
0.159439    0.160044    0.349613    0.330903    
0.454571    0.111567    0.175216    0.258646    
0.305750    0.183822    0.246269    0.264159    
0.351726    0.178703    0.236408    0.233163    
0.142463    0.525857    0.103778    0.227902    
Consensus sequence: VVVVTTAATTAABDDDC

Reverse complement motif
0.142463    0.103778    0.525857    0.227902    
0.233163    0.178703    0.236408    0.351726    
0.264159    0.183822    0.246269    0.305750    
0.258646    0.111567    0.175216    0.454571    
0.159439    0.349613    0.160044    0.330903    
0.015257    0.007371    0.155181    0.822191    
0.011633    0.000947    0.033757    0.953662    
0.984150    0.005253    0.005351    0.005247    
0.982857    0.005309    0.001638    0.010196    
0.010196    0.001638    0.005309    0.982857    
0.005247    0.005351    0.005253    0.984150    
0.953662    0.033757    0.000947    0.011633    
0.822191    0.155181    0.007371    0.015257    
0.095624    0.180412    0.249562    0.474402    
0.170099    0.251084    0.217415    0.361402    
0.211105    0.471186    0.192638    0.125071    
0.239694    0.212782    0.382964    0.164560    
Consensus sequence: GDDDBTTAATTAABBVV

Alignment:
VVVVTTAATTAABDDDC-
----TTAAAAWAGASTTA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00212        Lhx5                               Original Motif                          Reverse Complement                      Backward       5              13             0.547386       

Species: Mus musculus

Original motif
0.192127    0.348816    0.300474    0.158583    
0.251871    0.201197    0.314740    0.232192    
0.469240    0.195840    0.137749    0.197171    
0.620351    0.063061    0.196615    0.119973    
0.026357    0.096838    0.024928    0.851877    
0.010301    0.066114    0.000301    0.923283    
0.980649    0.007663    0.010886    0.000802    
0.981397    0.001294    0.004654    0.012655    
0.012655    0.004654    0.001294    0.981397    
0.000802    0.010886    0.007663    0.980649    
0.923283    0.000301    0.066114    0.010301    
0.851877    0.024928    0.096838    0.026357    
0.528438    0.142302    0.071537    0.257724    
0.296647    0.115284    0.062688    0.525382    
0.401193    0.235971    0.157675    0.205160    
0.309966    0.315367    0.145959    0.228708    
0.089761    0.287439    0.205359    0.417441    
Consensus sequence: VDHATTAATTAAAWHHB

Reverse complement motif
0.417441    0.287439    0.205359    0.089761    
0.309966    0.145959    0.315367    0.228708    
0.205160    0.235971    0.157675    0.401193    
0.525382    0.115284    0.062688    0.296647    
0.257724    0.142302    0.071537    0.528438    
0.026357    0.024928    0.096838    0.851877    
0.010301    0.000301    0.066114    0.923283    
0.980649    0.010886    0.007663    0.000802    
0.981397    0.004654    0.001294    0.012655    
0.012655    0.001294    0.004654    0.981397    
0.000802    0.007663    0.010886    0.980649    
0.923283    0.066114    0.000301    0.010301    
0.851877    0.096838    0.024928    0.026357    
0.119973    0.063061    0.196615    0.620351    
0.197171    0.195840    0.137749    0.469240    
0.251871    0.314740    0.201197    0.232192    
0.192127    0.300474    0.348816    0.158583    
Consensus sequence: VDHWTTTAATTAATHHV

Alignment:
-VDHWTTTAATTAATHHV
TAASTCTWTTTTAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00237        Otp                                Reverse Complement                      Reverse Complement                      Backward       2              13             0.548444       

Species: Mus musculus

Original motif
0.230993    0.375169    0.212909    0.180928    
0.308053    0.197960    0.335842    0.158144    
0.146999    0.355311    0.118315    0.379375    
0.411189    0.175886    0.183790    0.229135    
0.473168    0.101553    0.388483    0.036796    
0.007589    0.115608    0.001555    0.875248    
0.008817    0.035417    0.000301    0.955465    
0.983825    0.008430    0.006604    0.001141    
0.983066    0.001256    0.010977    0.004701    
0.004701    0.010977    0.001256    0.983066    
0.001141    0.006604    0.008430    0.983825    
0.955465    0.000301    0.035417    0.008817    
0.875248    0.001555    0.115608    0.007589    
0.059530    0.422614    0.086819    0.431037    
0.234910    0.104731    0.282998    0.377362    
0.222053    0.180868    0.345763    0.251316    
0.124269    0.122352    0.604547    0.148832    
Consensus sequence: VVHDRTTAATTAAYDDG

Reverse complement motif
0.124269    0.604547    0.122352    0.148832    
0.222053    0.345763    0.180868    0.251316    
0.377362    0.104731    0.282998    0.234910    
0.431037    0.422614    0.086819    0.059530    
0.007589    0.001555    0.115608    0.875248    
0.008817    0.000301    0.035417    0.955465    
0.983825    0.006604    0.008430    0.001141    
0.983066    0.010977    0.001256    0.004701    
0.004701    0.001256    0.010977    0.983066    
0.001141    0.008430    0.006604    0.983825    
0.955465    0.035417    0.000301    0.008817    
0.875248    0.115608    0.001555    0.007589    
0.036796    0.101553    0.388483    0.473168    
0.229135    0.175886    0.183790    0.411189    
0.379375    0.355311    0.118315    0.146999    
0.308053    0.335842    0.197960    0.158144    
0.230993    0.212909    0.375169    0.180928    
Consensus sequence: CHDMTTAATTAAKDHVV

Alignment:
-CHDMTTAATTAAKDHVV
---TTAAAAWAGASTTA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00130        Lhx3                               Reverse Complement                      Original Motif                          Backward       2              13             0.548839       

Species: Mus musculus

Original motif
0.226746    0.289244    0.371785    0.112225    
0.256971    0.229670    0.248726    0.264633    
0.556784    0.228344    0.038490    0.176382    
0.631659    0.088282    0.196624    0.083434    
0.021306    0.098213    0.006109    0.874373    
0.016974    0.029949    0.000343    0.952734    
0.971885    0.004194    0.023228    0.000693    
0.983076    0.001653    0.004793    0.010478    
0.010478    0.004793    0.001653    0.983076    
0.000693    0.023228    0.004194    0.971885    
0.952734    0.000343    0.029949    0.016974    
0.874373    0.006109    0.098213    0.021306    
0.425814    0.086548    0.127397    0.360241    
0.343977    0.034349    0.079320    0.542354    
0.412597    0.281154    0.077380    0.228869    
0.338396    0.315969    0.106509    0.239127    
0.112285    0.233324    0.310745    0.343646    
Consensus sequence: VDAATTAATTAAWWHHB

Reverse complement motif
0.343646    0.233324    0.310745    0.112285    
0.239127    0.315969    0.106509    0.338396    
0.228869    0.281154    0.077380    0.412597    
0.542354    0.034349    0.079320    0.343977    
0.360241    0.086548    0.127397    0.425814    
0.021306    0.006109    0.098213    0.874373    
0.016974    0.000343    0.029949    0.952734    
0.971885    0.023228    0.004194    0.000693    
0.983076    0.004793    0.001653    0.010478    
0.010478    0.001653    0.004793    0.983076    
0.000693    0.004194    0.023228    0.971885    
0.952734    0.029949    0.000343    0.016974    
0.874373    0.098213    0.006109    0.021306    
0.083434    0.088282    0.196624    0.631659    
0.176382    0.228344    0.038490    0.556784    
0.264633    0.229670    0.248726    0.256971    
0.226746    0.371785    0.289244    0.112225    
Consensus sequence: VHHWWTTAATTAATTDV

Alignment:
-VHHWWTTAATTAATTDV
---TTAAAAWAGASTTA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00145        Barhl2                             Original Motif                          Reverse Complement                      Backward       3              12             1.030542       

Species: Mus musculus

Original motif
0.461695    0.224449    0.118884    0.194972    
0.573918    0.178052    0.084607    0.163423    
0.509202    0.299283    0.046830    0.144686    
0.781754    0.035879    0.132996    0.049371    
0.909629    0.018003    0.066327    0.006042    
0.185305    0.442819    0.168153    0.203723    
0.004152    0.938941    0.000741    0.056166    
0.952728    0.004094    0.036915    0.006262    
0.962648    0.006522    0.001095    0.029735    
0.002949    0.002007    0.002143    0.992902    
0.002773    0.003794    0.001682    0.991751    
0.985960    0.000635    0.003183    0.010222    
0.728479    0.023198    0.141457    0.106866    
0.100754    0.330009    0.347597    0.221641    
0.392007    0.211701    0.147142    0.249150    
0.323968    0.271247    0.123950    0.280834    
Consensus sequence: HAMAAHCAATTAABHH

Reverse complement motif
0.280834    0.271247    0.123950    0.323968    
0.249150    0.211701    0.147142    0.392007    
0.100754    0.347597    0.330009    0.221641    
0.106866    0.023198    0.141457    0.728479    
0.010222    0.000635    0.003183    0.985960    
0.991751    0.003794    0.001682    0.002773    
0.992902    0.002007    0.002143    0.002949    
0.029735    0.006522    0.001095    0.962648    
0.006262    0.004094    0.036915    0.952728    
0.004152    0.000741    0.938941    0.056166    
0.185305    0.168153    0.442819    0.203723    
0.006042    0.018003    0.066327    0.909629    
0.049371    0.035879    0.132996    0.781754    
0.144686    0.299283    0.046830    0.509202    
0.163423    0.178052    0.084607    0.573918    
0.194972    0.224449    0.118884    0.461695    
Consensus sequence: HHBTTAATTGDTTYTH

Alignment:
--HAMAAHCAATTAABHH
--TAASTCTWTTTTAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00109        Obox6                              Reverse Complement                      Original Motif                          Forward        3              12             1.034396       

Species: Mus musculus

Original motif
0.505449    0.243908    0.109355    0.141288    
0.297413    0.206507    0.201510    0.294571    
0.691300    0.037294    0.141216    0.130190    
0.680730    0.092257    0.036853    0.190160    
0.348071    0.118125    0.345388    0.188416    
0.140809    0.605582    0.189427    0.064182    
0.039008    0.001848    0.956724    0.002420    
0.003771    0.000570    0.983421    0.012238    
0.969153    0.028918    0.000574    0.001355    
0.003106    0.002396    0.001479    0.993019    
0.009026    0.012438    0.000393    0.978144    
0.969731    0.000460    0.002034    0.027774    
0.444629    0.020696    0.076200    0.458475    
0.254738    0.341763    0.053351    0.350148    
0.119131    0.226982    0.464626    0.189261    
Consensus sequence: AHAADCGGATTAWHB

Reverse complement motif
0.119131    0.464626    0.226982    0.189261    
0.350148    0.341763    0.053351    0.254738    
0.458475    0.020696    0.076200    0.444629    
0.027774    0.000460    0.002034    0.969731    
0.978144    0.012438    0.000393    0.009026    
0.993019    0.002396    0.001479    0.003106    
0.001355    0.028918    0.000574    0.969153    
0.003771    0.983421    0.000570    0.012238    
0.039008    0.956724    0.001848    0.002420    
0.140809    0.189427    0.605582    0.064182    
0.188416    0.118125    0.345388    0.348071    
0.190160    0.092257    0.036853    0.680730    
0.130190    0.037294    0.141216    0.691300    
0.294571    0.206507    0.201510    0.297413    
0.141288    0.243908    0.109355    0.505449    
Consensus sequence: BHWTAATCCGDTTHT

Alignment:
BHWTAATCCGDTTHT--
--TTAAAAWAGASTTA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00166        Barhl1                             Reverse Complement                      Original Motif                          Forward        3              12             1.037459       

Species: Mus musculus

Original motif
0.467514    0.210142    0.140580    0.181765    
0.607254    0.124874    0.137587    0.130285    
0.280889    0.423565    0.125411    0.170135    
0.748944    0.067655    0.136796    0.046605    
0.723747    0.023732    0.218759    0.033762    
0.075749    0.608701    0.182230    0.133321    
0.005053    0.764340    0.000825    0.229781    
0.951342    0.006010    0.029473    0.013175    
0.890431    0.010111    0.000910    0.098548    
0.004275    0.001291    0.002113    0.992321    
0.005850    0.006608    0.000432    0.987110    
0.979314    0.000732    0.001996    0.017957    
0.546971    0.034786    0.326876    0.091366    
0.120451    0.194359    0.328320    0.356870    
0.274765    0.177491    0.231888    0.315855    
0.223913    0.420032    0.139775    0.216280    
Consensus sequence: HAHAACCAATTARBDH

Reverse complement motif
0.223913    0.139775    0.420032    0.216280    
0.315855    0.177491    0.231888    0.274765    
0.356870    0.194359    0.328320    0.120451    
0.091366    0.034786    0.326876    0.546971    
0.017957    0.000732    0.001996    0.979314    
0.987110    0.006608    0.000432    0.005850    
0.992321    0.001291    0.002113    0.004275    
0.098548    0.010111    0.000910    0.890431    
0.013175    0.006010    0.029473    0.951342    
0.005053    0.000825    0.764340    0.229781    
0.075749    0.182230    0.608701    0.133321    
0.033762    0.023732    0.218759    0.723747    
0.046605    0.067655    0.136796    0.748944    
0.280889    0.125411    0.423565    0.170135    
0.130285    0.124874    0.137587    0.607254    
0.181765    0.210142    0.140580    0.467514    
Consensus sequence: DDVKTAATTGGTTDTH

Alignment:
DDVKTAATTGGTTDTH--
--TTAAAAWAGASTTA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 1		Motif ID: 46		Motif name: Motif 46

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: ATAGGTTTAGYATA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: TATKCTAAACCTAT


************************************************************************ Best Matches for Motif ID 46 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00111        Dmbx1                              Original Motif                          Original Motif                          Forward        4              14             0.036499       

Species: Mus musculus

Original motif
0.341712    0.131887    0.116437    0.409963    
0.283906    0.076249    0.365173    0.274672    
0.492212    0.077397    0.310871    0.119520    
0.493786    0.075296    0.130460    0.300459    
0.250600    0.362069    0.176185    0.211146    
0.276779    0.499358    0.197580    0.026283    
0.055301    0.013502    0.929631    0.001566    
0.003194    0.006606    0.987514    0.002686    
0.939596    0.057879    0.001197    0.001328    
0.003076    0.002848    0.001228    0.992848    
0.012045    0.007004    0.000799    0.980152    
0.971675    0.001072    0.001680    0.025573    
0.398313    0.051075    0.351335    0.199277    
0.092401    0.114350    0.374362    0.418888    
0.152628    0.280503    0.301836    0.265032    
0.303927    0.200947    0.192110    0.303017    
0.367352    0.124551    0.150288    0.357809    
Consensus sequence: WDRWHMGGATTADKBHD

Reverse complement motif
0.357809    0.124551    0.150288    0.367352    
0.303017    0.200947    0.192110    0.303927    
0.152628    0.301836    0.280503    0.265032    
0.418888    0.114350    0.374362    0.092401    
0.199277    0.051075    0.351335    0.398313    
0.025573    0.001072    0.001680    0.971675    
0.980152    0.007004    0.000799    0.012045    
0.992848    0.002848    0.001228    0.003076    
0.001328    0.057879    0.001197    0.939596    
0.003194    0.987514    0.006606    0.002686    
0.055301    0.929631    0.013502    0.001566    
0.276779    0.197580    0.499358    0.026283    
0.250600    0.176185    0.362069    0.211146    
0.300459    0.075296    0.130460    0.493786    
0.119520    0.077397    0.310871    0.492212    
0.283906    0.365173    0.076249    0.274672    
0.409963    0.131887    0.116437    0.341712    
Consensus sequence: DHBRDTAATCCRDWKHW

Alignment:
WDRWHMGGATTADKBHD
---ATAGGTTTAGYATA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Reverse Complement                      Original Motif                          Backward       3              14             0.039333       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
DWAATRTAAACAAWVVB
-TATKCTAAACCTAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_secondary                    Reverse Complement                      Reverse Complement                      Forward        1              14             0.039476       

Species: Mus musculus

Original motif
0.253642    0.252604    0.298295    0.195458    
0.112892    0.341342    0.341061    0.204704    
0.297430    0.215095    0.343350    0.144125    
0.241098    0.129378    0.421448    0.208076    
0.894201    0.007299    0.061032    0.037468    
0.052259    0.054303    0.856609    0.036829    
0.005074    0.015048    0.966734    0.013144    
0.003258    0.061529    0.002368    0.932845    
0.017531    0.005025    0.973155    0.004289    
0.116022    0.030172    0.047139    0.806667    
0.027749    0.602513    0.009946    0.359792    
0.018763    0.048982    0.794648    0.137608    
0.177116    0.459591    0.284833    0.078460    
0.121483    0.491485    0.148745    0.238287    
0.152590    0.245835    0.214717    0.386857    
0.221040    0.320773    0.249918    0.208270    
Consensus sequence: VBVDAGGTGTYGVBBV

Reverse complement motif
0.221040    0.249918    0.320773    0.208270    
0.386857    0.245835    0.214717    0.152590    
0.121483    0.148745    0.491485    0.238287    
0.177116    0.284833    0.459591    0.078460    
0.018763    0.794648    0.048982    0.137608    
0.027749    0.009946    0.602513    0.359792    
0.806667    0.030172    0.047139    0.116022    
0.017531    0.973155    0.005025    0.004289    
0.932845    0.061529    0.002368    0.003258    
0.005074    0.966734    0.015048    0.013144    
0.052259    0.856609    0.054303    0.036829    
0.037468    0.007299    0.061032    0.894201    
0.241098    0.421448    0.129378    0.208076    
0.297430    0.343350    0.215095    0.144125    
0.112892    0.341061    0.341342    0.204704    
0.253642    0.298295    0.252604    0.195458    
Consensus sequence: VVBVCKACACCTHVBV

Alignment:
VVBVCKACACCTHVBV
TATKCTAAACCTAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00112        Gsc                                Reverse Complement                      Original Motif                          Backward       3              14             0.041185       

Species: Mus musculus

Original motif
0.471765    0.155805    0.130216    0.242214    
0.336226    0.217033    0.236748    0.209992    
0.397939    0.127567    0.045155    0.429339    
0.262638    0.456883    0.100119    0.180360    
0.277939    0.114100    0.520395    0.087567    
0.069718    0.401925    0.012565    0.515792    
0.026036    0.001115    0.000374    0.972475    
0.985609    0.000281    0.009340    0.004771    
0.992498    0.001751    0.001641    0.004110    
0.003048    0.000589    0.009260    0.987104    
0.005338    0.968427    0.001002    0.025233    
0.001736    0.954156    0.002782    0.041326    
0.030103    0.441404    0.400145    0.128348    
0.083495    0.360697    0.075527    0.480281    
0.219244    0.119908    0.236702    0.424146    
0.256872    0.229901    0.124714    0.388513    
0.313903    0.308509    0.263518    0.114070    
Consensus sequence: HVWHRYTAATCCSYDHV

Reverse complement motif
0.114070    0.308509    0.263518    0.313903    
0.388513    0.229901    0.124714    0.256872    
0.424146    0.119908    0.236702    0.219244    
0.480281    0.360697    0.075527    0.083495    
0.030103    0.400145    0.441404    0.128348    
0.001736    0.002782    0.954156    0.041326    
0.005338    0.001002    0.968427    0.025233    
0.987104    0.000589    0.009260    0.003048    
0.004110    0.001751    0.001641    0.992498    
0.004771    0.000281    0.009340    0.985609    
0.972475    0.001115    0.000374    0.026036    
0.515792    0.401925    0.012565    0.069718    
0.277939    0.520395    0.114100    0.087567    
0.262638    0.100119    0.456883    0.180360    
0.429339    0.127567    0.045155    0.397939    
0.209992    0.217033    0.236748    0.336226    
0.242214    0.155805    0.130216    0.471765    
Consensus sequence: BHDMSGGATTAMMDWBH

Alignment:
HVWHRYTAATCCSYDHV
-TATKCTAAACCTAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00018        Irf4_primary                       Original Motif                          Reverse Complement                      Forward        1              14             0.041683       

Species: Mus musculus

Original motif
0.302723    0.390309    0.162248    0.144720    
0.263298    0.109753    0.466266    0.160683    
0.314007    0.079943    0.170722    0.435328    
0.657943    0.042407    0.054822    0.244828    
0.175125    0.281452    0.069422    0.474000    
0.014866    0.891988    0.005489    0.087657    
0.012252    0.001771    0.982933    0.003044    
0.985642    0.006248    0.005379    0.002731    
0.933526    0.002109    0.003143    0.061222    
0.988146    0.003436    0.001669    0.006749    
0.021771    0.945675    0.026522    0.006032    
0.029305    0.568908    0.017908    0.383879    
0.396869    0.133807    0.324146    0.145178    
0.326865    0.278882    0.198196    0.196056    
0.506287    0.142988    0.165503    0.185222    
Consensus sequence: VDDAYCGAAACYDVA

Reverse complement motif
0.185222    0.142988    0.165503    0.506287    
0.196056    0.278882    0.198196    0.326865    
0.145178    0.133807    0.324146    0.396869    
0.029305    0.017908    0.568908    0.383879    
0.021771    0.026522    0.945675    0.006032    
0.006749    0.003436    0.001669    0.988146    
0.061222    0.002109    0.003143    0.933526    
0.002731    0.006248    0.005379    0.985642    
0.012252    0.982933    0.001771    0.003044    
0.014866    0.005489    0.891988    0.087657    
0.474000    0.281452    0.069422    0.175125    
0.244828    0.042407    0.054822    0.657943    
0.435328    0.079943    0.170722    0.314007    
0.263298    0.466266    0.109753    0.160683    
0.302723    0.162248    0.390309    0.144720    
Consensus sequence: TBDKGTTTCGMTDHV

Alignment:
VDDAYCGAAACYDVA
ATAGGTTTAGYATA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Reverse Complement                      Original Motif                          Forward        2              14             0.042226       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
DDAATGTAAACAAAVVB
-TATKCTAAACCTAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00011        Irf6_primary                       Original Motif                          Reverse Complement                      Forward        3              14             0.042495       

Species: Mus musculus

Original motif
0.256714    0.363080    0.149403    0.230804    
0.312941    0.135162    0.190389    0.361507    
0.255033    0.128823    0.354898    0.261246    
0.667588    0.053933    0.205778    0.072701    
0.199950    0.339707    0.114445    0.345899    
0.029853    0.908514    0.006383    0.055250    
0.019621    0.002231    0.976266    0.001882    
0.983875    0.005320    0.008639    0.002166    
0.698671    0.002741    0.006725    0.291864    
0.990097    0.003609    0.003047    0.003247    
0.008905    0.975208    0.011495    0.004392    
0.022092    0.611448    0.018828    0.347632    
0.538109    0.125313    0.241515    0.095063    
0.456841    0.205124    0.177213    0.160822    
0.372926    0.189134    0.195747    0.242193    
0.217155    0.198027    0.300393    0.284425    
0.277630    0.187849    0.237049    0.297472    
Consensus sequence: HDDAHCGAAACYAVDDD

Reverse complement motif
0.297472    0.187849    0.237049    0.277630    
0.217155    0.300393    0.198027    0.284425    
0.242193    0.189134    0.195747    0.372926    
0.160822    0.205124    0.177213    0.456841    
0.095063    0.125313    0.241515    0.538109    
0.022092    0.018828    0.611448    0.347632    
0.008905    0.011495    0.975208    0.004392    
0.003247    0.003609    0.003047    0.990097    
0.291864    0.002741    0.006725    0.698671    
0.002166    0.005320    0.008639    0.983875    
0.019621    0.976266    0.002231    0.001882    
0.029853    0.006383    0.908514    0.055250    
0.345899    0.339707    0.114445    0.199950    
0.072701    0.053933    0.205778    0.667588    
0.255033    0.354898    0.128823    0.261246    
0.361507    0.135162    0.190389    0.312941    
0.256714    0.149403    0.363080    0.230804    
Consensus sequence: DHDBTKGTTTCGHTHDD

Alignment:
DHDBTKGTTTCGHTHDD
--ATAGGTTTAGYATA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00125        Pitx2                              Original Motif                          Original Motif                          Forward        3              14             0.043683       

Species: Mus musculus

Original motif
0.242677    0.229501    0.259308    0.268514    
0.239574    0.084187    0.407773    0.268465    
0.389673    0.131082    0.221817    0.257427    
0.458845    0.170821    0.273585    0.096749    
0.287524    0.102892    0.557422    0.052162    
0.106202    0.003368    0.887079    0.003351    
0.006667    0.001481    0.981787    0.010064    
0.949041    0.045868    0.000548    0.004542    
0.003032    0.006646    0.000697    0.989625    
0.008515    0.011174    0.000301    0.980009    
0.895900    0.000770    0.001149    0.102180    
0.700956    0.039195    0.190695    0.069155    
0.092379    0.164035    0.093911    0.649675    
0.257833    0.316866    0.114741    0.310560    
0.380147    0.125922    0.251193    0.242738    
0.281898    0.165542    0.207846    0.344713    
0.186833    0.429334    0.101793    0.282040    
Consensus sequence: DDDVRGGATTAATHDDH

Reverse complement motif
0.186833    0.101793    0.429334    0.282040    
0.344713    0.165542    0.207846    0.281898    
0.242738    0.125922    0.251193    0.380147    
0.257833    0.114741    0.316866    0.310560    
0.649675    0.164035    0.093911    0.092379    
0.069155    0.039195    0.190695    0.700956    
0.102180    0.000770    0.001149    0.895900    
0.980009    0.011174    0.000301    0.008515    
0.989625    0.006646    0.000697    0.003032    
0.004542    0.045868    0.000548    0.949041    
0.006667    0.981787    0.001481    0.010064    
0.106202    0.887079    0.003368    0.003351    
0.287524    0.557422    0.102892    0.052162    
0.096749    0.170821    0.273585    0.458845    
0.257427    0.131082    0.221817    0.389673    
0.239574    0.407773    0.084187    0.268465    
0.268514    0.229501    0.259308    0.242677    
Consensus sequence: DDDDATTAATCCMBDHD

Alignment:
DDDVRGGATTAATHDDH
--ATAGGTTTAGYATA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00229        Otx1                               Original Motif                          Original Motif                          Forward        3              14             0.044340       

Species: Mus musculus

Original motif
0.300610    0.149999    0.303810    0.245581    
0.194444    0.095366    0.487289    0.222901    
0.366838    0.110418    0.162922    0.359822    
0.426793    0.049280    0.474292    0.049636    
0.176031    0.195172    0.608443    0.020354    
0.077179    0.003862    0.916244    0.002715    
0.006954    0.001526    0.985903    0.005616    
0.953016    0.043074    0.000504    0.003406    
0.001743    0.004547    0.001783    0.991927    
0.012882    0.003454    0.000402    0.983262    
0.939084    0.000404    0.001874    0.058638    
0.687439    0.025328    0.143515    0.143718    
0.117461    0.128987    0.097084    0.656468    
0.291905    0.125407    0.094129    0.488559    
0.241296    0.237850    0.201291    0.319563    
0.317041    0.222787    0.160309    0.299862    
0.187481    0.261819    0.240698    0.310001    
Consensus sequence: DDDRGGGATTAATWHHB

Reverse complement motif
0.310001    0.261819    0.240698    0.187481    
0.299862    0.222787    0.160309    0.317041    
0.319563    0.237850    0.201291    0.241296    
0.488559    0.125407    0.094129    0.291905    
0.656468    0.128987    0.097084    0.117461    
0.143718    0.025328    0.143515    0.687439    
0.058638    0.000404    0.001874    0.939084    
0.983262    0.003454    0.000402    0.012882    
0.991927    0.004547    0.001783    0.001743    
0.003406    0.043074    0.000504    0.953016    
0.006954    0.985903    0.001526    0.005616    
0.077179    0.916244    0.003862    0.002715    
0.176031    0.608443    0.195172    0.020354    
0.426793    0.474292    0.049280    0.049636    
0.359822    0.110418    0.162922    0.366838    
0.194444    0.487289    0.095366    0.222901    
0.300610    0.303810    0.149999    0.245581    
Consensus sequence: VHHWATTAATCCCMDHH

Alignment:
DDDRGGGATTAATWHHB
--ATAGGTTTAGYATA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00153        Pitx1                              Original Motif                          Original Motif                          Backward       1              14             0.044637       

Species: Mus musculus

Original motif
0.207371    0.246323    0.166934    0.379372    
0.115831    0.171040    0.352289    0.360841    
0.435857    0.190325    0.290547    0.083272    
0.281154    0.147141    0.422767    0.148938    
0.453996    0.050465    0.389240    0.106298    
0.187631    0.043211    0.734974    0.034185    
0.042788    0.001867    0.954016    0.001329    
0.006032    0.001055    0.986493    0.006420    
0.955163    0.042114    0.000355    0.002368    
0.003755    0.004760    0.000754    0.990731    
0.005515    0.009073    0.000267    0.985144    
0.913280    0.000712    0.001035    0.084973    
0.721584    0.024188    0.198396    0.055833    
0.334868    0.490003    0.058252    0.116877    
0.457303    0.071620    0.241947    0.229130    
0.478355    0.207860    0.143752    0.170032    
0.256961    0.248882    0.203598    0.290559    
Consensus sequence: HBVDRGGGATTAAMDHH

Reverse complement motif
0.290559    0.248882    0.203598    0.256961    
0.170032    0.207860    0.143752    0.478355    
0.229130    0.071620    0.241947    0.457303    
0.334868    0.058252    0.490003    0.116877    
0.055833    0.024188    0.198396    0.721584    
0.084973    0.000712    0.001035    0.913280    
0.985144    0.009073    0.000267    0.005515    
0.990731    0.004760    0.000754    0.003755    
0.002368    0.042114    0.000355    0.955163    
0.006032    0.986493    0.001055    0.006420    
0.042788    0.954016    0.001867    0.001329    
0.187631    0.734974    0.043211    0.034185    
0.106298    0.050465    0.389240    0.453996    
0.281154    0.422767    0.147141    0.148938    
0.083272    0.190325    0.290547    0.435857    
0.360841    0.171040    0.352289    0.115831    
0.379372    0.246323    0.166934    0.207371    
Consensus sequence: HHDRTTAATCCCKHBVH

Alignment:
HBVDRGGGATTAAMDHH
---ATAGGTTTAGYATA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 2		Motif ID: 47		Motif name: Motif 47

Original motif
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.714286    0.285714    0.000000    0.000000    
0.000000    0.857143    0.000000    0.142857    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.142857    0.142857    0.714286    
0.357143    0.000000    0.357143    0.285714    
0.000000    0.428571    0.571429    0.000000    
0.142857    0.071429    0.000000    0.785714    
0.000000    0.000000    1.000000    0.000000    
0.071429    0.000000    0.785714    0.142857    
0.142857    0.428571    0.000000    0.428571    
Consensus sequence: YGCCACCTDSTGGY

Reserve complement motif
0.142857    0.000000    0.428571    0.428571    
0.071429    0.785714    0.000000    0.142857    
0.000000    1.000000    0.000000    0.000000    
0.785714    0.071429    0.000000    0.142857    
0.000000    0.571429    0.428571    0.000000    
0.285714    0.000000    0.357143    0.357143    
0.714286    0.142857    0.142857    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.857143    0.142857    
0.000000    0.285714    0.000000    0.714286    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
Consensus sequence: KCCASDAGGTGGCK


************************************************************************ Best Matches for Motif ID 47 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Reverse Complement                      Original Motif                          Backward       7              14             0.014596       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB
---KCCASDAGGTGGCK------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Original Motif                          Original Motif                          Backward       3              14             0.018818       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
------YGCCACCTDSTGGY--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Original Motif                          Reverse Complement                      Forward        8              14             0.023110       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
HGDHVHKGACCACCCGGBGBGDB
-------YGCCACCTDSTGGY--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00022        Zfp740_secondary                   Original Motif                          Original Motif                          Forward        4              14             0.025419       

Species: Mus musculus

Original motif
0.398967    0.071604    0.323957    0.205472    
0.457709    0.058192    0.267218    0.216881    
0.393346    0.032365    0.329533    0.244756    
0.119528    0.091191    0.190078    0.599202    
0.273933    0.123548    0.073075    0.529444    
0.068935    0.812883    0.015245    0.102937    
0.029664    0.907790    0.024804    0.037742    
0.020725    0.933422    0.016796    0.029057    
0.015086    0.948448    0.018030    0.018436    
0.015628    0.884941    0.061172    0.038259    
0.067508    0.744063    0.107305    0.081125    
0.108097    0.140614    0.650174    0.101115    
0.065696    0.247239    0.506149    0.180916    
0.395005    0.077185    0.345914    0.181895    
0.527081    0.093650    0.281853    0.097416    
0.289378    0.245159    0.348803    0.116660    
0.147136    0.260117    0.145993    0.446754    
Consensus sequence: DDDTWCCCCCCGGDRVH

Reverse complement motif
0.446754    0.260117    0.145993    0.147136    
0.289378    0.348803    0.245159    0.116660    
0.097416    0.093650    0.281853    0.527081    
0.181895    0.077185    0.345914    0.395005    
0.065696    0.506149    0.247239    0.180916    
0.108097    0.650174    0.140614    0.101115    
0.067508    0.107305    0.744063    0.081125    
0.015628    0.061172    0.884941    0.038259    
0.015086    0.018030    0.948448    0.018436    
0.020725    0.016796    0.933422    0.029057    
0.029664    0.024804    0.907790    0.037742    
0.068935    0.015245    0.812883    0.102937    
0.529444    0.123548    0.073075    0.273933    
0.599202    0.091191    0.190078    0.119528    
0.244756    0.032365    0.329533    0.393346    
0.216881    0.058192    0.267218    0.457709    
0.205472    0.071604    0.323957    0.398967    
Consensus sequence: HVKDCCGGGGGGWADDD

Alignment:
DDDTWCCCCCCGGDRVH
---YGCCACCTDSTGGY

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Original Motif                          Original Motif                          Backward       1              14             0.027879       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
HDGHHBHRGACCACCCGSVDVG
--------YGCCACCTDSTGGY

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00006        Zic3_primary                       Original Motif                          Original Motif                          Forward        1              14             0.028396       

Species: Mus musculus

Original motif
0.133123    0.374622    0.252864    0.239392    
0.305344    0.451195    0.093638    0.149822    
0.125347    0.723516    0.027695    0.123442    
0.129457    0.754873    0.045215    0.070455    
0.117681    0.809987    0.036742    0.035590    
0.046565    0.817263    0.077300    0.058872    
0.047132    0.790594    0.143506    0.018768    
0.059681    0.087688    0.665195    0.187436    
0.058872    0.077300    0.817263    0.046565    
0.035590    0.036742    0.809987    0.117681    
0.070455    0.045215    0.754873    0.129457    
0.123442    0.027695    0.723516    0.125347    
0.104029    0.069439    0.636026    0.190506    
0.070968    0.197801    0.581172    0.150060    
0.147077    0.235294    0.230097    0.387531    
Consensus sequence: BMCCCCCGGGGGGGB

Reverse complement motif
0.387531    0.235294    0.230097    0.147077    
0.070968    0.581172    0.197801    0.150060    
0.104029    0.636026    0.069439    0.190506    
0.123442    0.723516    0.027695    0.125347    
0.070455    0.754873    0.045215    0.129457    
0.035590    0.809987    0.036742    0.117681    
0.058872    0.817263    0.077300    0.046565    
0.059681    0.665195    0.087688    0.187436    
0.047132    0.143506    0.790594    0.018768    
0.046565    0.077300    0.817263    0.058872    
0.117681    0.036742    0.809987    0.035590    
0.129457    0.045215    0.754873    0.070455    
0.125347    0.027695    0.723516    0.123442    
0.305344    0.093638    0.451195    0.149822    
0.133123    0.252864    0.374622    0.239392    
Consensus sequence: VCCCCCCCGGGGGRB

Alignment:
BMCCCCCGGGGGGGB
YGCCACCTDSTGGY-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00102        Zic1_primary                       Original Motif                          Original Motif                          Forward        1              14             0.028786       

Species: Mus musculus

Original motif
0.174040    0.367918    0.270176    0.187866    
0.359560    0.309872    0.111047    0.219520    
0.094468    0.790352    0.026034    0.089145    
0.114860    0.779490    0.050895    0.054755    
0.105195    0.837712    0.031857    0.025237    
0.045234    0.825039    0.073990    0.055737    
0.145555    0.592986    0.228415    0.033044    
0.045273    0.175001    0.607615    0.172111    
0.055737    0.073990    0.825039    0.045234    
0.025237    0.031857    0.837712    0.105195    
0.054755    0.050895    0.779490    0.114860    
0.089145    0.026034    0.790352    0.094468    
0.060833    0.067787    0.717352    0.154028    
0.097742    0.194545    0.591608    0.116104    
Consensus sequence: BHCCCCCGGGGGGG

Reverse complement motif
0.097742    0.591608    0.194545    0.116104    
0.060833    0.717352    0.067787    0.154028    
0.089145    0.790352    0.026034    0.094468    
0.054755    0.779490    0.050895    0.114860    
0.025237    0.837712    0.031857    0.105195    
0.055737    0.825039    0.073990    0.045234    
0.045273    0.607615    0.175001    0.172111    
0.145555    0.228415    0.592986    0.033044    
0.045234    0.073990    0.825039    0.055737    
0.105195    0.031857    0.837712    0.025237    
0.114860    0.050895    0.779490    0.054755    
0.094468    0.026034    0.790352    0.089145    
0.219520    0.309872    0.111047    0.359560    
0.174040    0.270176    0.367918    0.187866    
Consensus sequence: CCCCCCCGGGGGHB

Alignment:
BHCCCCCGGGGGGG
YGCCACCTDSTGGY

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Original Motif                          Forward        8              14             0.028999       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
MHHHWHYTMCCHCCCACVAABVH
-------YGCCACCTDSTGGY--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Reverse Complement                      Reverse Complement                      Backward       7              14             0.029786       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
---KCCASDAGGTGGCK------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00057        Zic2_primary                       Original Motif                          Original Motif                          Forward        1              14             0.030218       

Species: Mus musculus

Original motif
0.171475    0.300729    0.275648    0.252148    
0.274948    0.494479    0.090926    0.139646    
0.136266    0.716563    0.033328    0.113843    
0.116272    0.772964    0.046083    0.064680    
0.103529    0.835329    0.032215    0.028927    
0.057023    0.813129    0.071277    0.058571    
0.057483    0.766273    0.157290    0.018955    
0.071535    0.110226    0.631760    0.186479    
0.058571    0.071277    0.813129    0.057023    
0.028927    0.032215    0.835329    0.103529    
0.064680    0.046083    0.772964    0.116272    
0.113843    0.033328    0.716563    0.136266    
0.119744    0.068294    0.609218    0.202743    
0.065793    0.215443    0.562951    0.155813    
0.178819    0.196535    0.205955    0.418691    
Consensus sequence: BMCCCCCGGGGGGGB

Reverse complement motif
0.418691    0.196535    0.205955    0.178819    
0.065793    0.562951    0.215443    0.155813    
0.119744    0.609218    0.068294    0.202743    
0.113843    0.716563    0.033328    0.136266    
0.064680    0.772964    0.046083    0.116272    
0.028927    0.835329    0.032215    0.103529    
0.058571    0.813129    0.071277    0.057023    
0.071535    0.631760    0.110226    0.186479    
0.057483    0.157290    0.766273    0.018955    
0.057023    0.071277    0.813129    0.058571    
0.103529    0.032215    0.835329    0.028927    
0.116272    0.046083    0.772964    0.064680    
0.136266    0.033328    0.716563    0.113843    
0.274948    0.090926    0.494479    0.139646    
0.171475    0.275648    0.300729    0.252148    
Consensus sequence: VCCCCCCCGGGGGRB

Alignment:
BMCCCCCGGGGGGGB
YGCCACCTDSTGGY-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 2		Motif ID: 48		Motif name: Motif 48

Original motif
0.023810    0.000000    0.976190    0.000000    
0.238095    0.714286    0.000000    0.047619    
0.952380    0.023810    0.000000    0.023810    
0.380952    0.142857    0.452381    0.023810    
0.523810    0.190476    0.285714    0.000000    
0.095238    0.047619    0.619048    0.238095    
0.000000    0.023810    0.904761    0.071429    
0.000000    0.571429    0.428571    0.000000    
0.976190    0.023810    0.000000    0.000000    
0.333333    0.000000    0.666667    0.000000    
0.000000    0.428571    0.571429    0.000000    
Consensus sequence: GCARRGGSAGS

Reserve complement motif
0.000000    0.571429    0.428571    0.000000    
0.333333    0.666667    0.000000    0.000000    
0.000000    0.023810    0.000000    0.976190    
0.000000    0.428571    0.571429    0.000000    
0.000000    0.904761    0.023810    0.071429    
0.095238    0.619048    0.047619    0.238095    
0.000000    0.190476    0.285714    0.523810    
0.380952    0.452381    0.142857    0.023810    
0.023810    0.023810    0.000000    0.952380    
0.238095    0.000000    0.714286    0.047619    
0.023810    0.976190    0.000000    0.000000    
Consensus sequence: SCTSCCKMTGC


************************************************************************ Best Matches for Motif ID 48 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00153        Pitx1                              Reverse Complement                      Reverse Complement                      Forward        7              11             0.045469       

Species: Mus musculus

Original motif
0.207371    0.246323    0.166934    0.379372    
0.115831    0.171040    0.352289    0.360841    
0.435857    0.190325    0.290547    0.083272    
0.281154    0.147141    0.422767    0.148938    
0.453996    0.050465    0.389240    0.106298    
0.187631    0.043211    0.734974    0.034185    
0.042788    0.001867    0.954016    0.001329    
0.006032    0.001055    0.986493    0.006420    
0.955163    0.042114    0.000355    0.002368    
0.003755    0.004760    0.000754    0.990731    
0.005515    0.009073    0.000267    0.985144    
0.913280    0.000712    0.001035    0.084973    
0.721584    0.024188    0.198396    0.055833    
0.334868    0.490003    0.058252    0.116877    
0.457303    0.071620    0.241947    0.229130    
0.478355    0.207860    0.143752    0.170032    
0.256961    0.248882    0.203598    0.290559    
Consensus sequence: HBVDRGGGATTAAMDHH

Reverse complement motif
0.290559    0.248882    0.203598    0.256961    
0.170032    0.207860    0.143752    0.478355    
0.229130    0.071620    0.241947    0.457303    
0.334868    0.058252    0.490003    0.116877    
0.055833    0.024188    0.198396    0.721584    
0.084973    0.000712    0.001035    0.913280    
0.985144    0.009073    0.000267    0.005515    
0.990731    0.004760    0.000754    0.003755    
0.002368    0.042114    0.000355    0.955163    
0.006032    0.986493    0.001055    0.006420    
0.042788    0.954016    0.001867    0.001329    
0.187631    0.734974    0.043211    0.034185    
0.106298    0.050465    0.389240    0.453996    
0.281154    0.422767    0.147141    0.148938    
0.083272    0.190325    0.290547    0.435857    
0.360841    0.171040    0.352289    0.115831    
0.379372    0.246323    0.166934    0.207371    
Consensus sequence: HHDRTTAATCCCKHBVH

Alignment:
HHDRTTAATCCCKHBVH
------SCTSCCKMTGC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00085        Sfpi1_primary                      Original Motif                          Original Motif                          Backward       4              11             0.045822       

Species: Mus musculus

Original motif
0.211586    0.273653    0.234763    0.279998    
0.298032    0.104818    0.290385    0.306764    
0.593467    0.048056    0.154602    0.203875    
0.459746    0.052697    0.169949    0.317608    
0.188623    0.155357    0.591543    0.064477    
0.402746    0.286227    0.290285    0.020742    
0.048569    0.001240    0.946397    0.003793    
0.004354    0.001387    0.990819    0.003441    
0.974272    0.001416    0.001466    0.022847    
0.938748    0.003090    0.000833    0.057329    
0.045831    0.270321    0.674644    0.009204    
0.055664    0.092552    0.026061    0.825722    
0.301235    0.122653    0.267039    0.309073    
0.278680    0.276099    0.219159    0.226061    
Consensus sequence: BDAWGVGGAAGTDH

Reverse complement motif
0.226061    0.276099    0.219159    0.278680    
0.309073    0.122653    0.267039    0.301235    
0.825722    0.092552    0.026061    0.055664    
0.045831    0.674644    0.270321    0.009204    
0.057329    0.003090    0.000833    0.938748    
0.022847    0.001416    0.001466    0.974272    
0.004354    0.990819    0.001387    0.003441    
0.048569    0.946397    0.001240    0.003793    
0.020742    0.286227    0.290285    0.402746    
0.188623    0.591543    0.155357    0.064477    
0.317608    0.052697    0.169949    0.459746    
0.203875    0.048056    0.154602    0.593467    
0.306764    0.104818    0.290385    0.298032    
0.279998    0.273653    0.234763    0.211586    
Consensus sequence: HDACTTCCBCWTDV

Alignment:
BDAWGVGGAAGTDH
GCARRGGSAGS---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Reverse Complement                      Original Motif                          Forward        8              11             0.046367       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
-------SCTSCCKMTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Reverse Complement                      Original Motif                          Forward        6              11             0.046586       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
-----SCTSCCKMTGC-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00099        Ascl2_primary                      Reverse Complement                      Original Motif                          Backward       6              11             0.047335       

Species: Mus musculus

Original motif
0.168852    0.325948    0.188604    0.316596    
0.150343    0.193286    0.241301    0.415069    
0.091518    0.482905    0.122928    0.302648    
0.472493    0.198776    0.225796    0.102935    
0.294513    0.179919    0.447250    0.078318    
0.014660    0.972080    0.005591    0.007668    
0.954848    0.008107    0.008474    0.028571    
0.006076    0.178912    0.760021    0.054991    
0.052082    0.817415    0.124797    0.005707    
0.019342    0.010406    0.008905    0.961347    
0.005455    0.008073    0.977684    0.008788    
0.042946    0.715551    0.087020    0.154483    
0.116888    0.241739    0.170073    0.471300    
0.315931    0.324343    0.291451    0.068274    
0.199164    0.366921    0.163690    0.270226    
0.218561    0.211076    0.187732    0.382631    
0.145317    0.139808    0.389262    0.325614    
Consensus sequence: BBYVVCAGCTGCBVHHD

Reverse complement motif
0.145317    0.389262    0.139808    0.325614    
0.382631    0.211076    0.187732    0.218561    
0.199164    0.163690    0.366921    0.270226    
0.315931    0.291451    0.324343    0.068274    
0.471300    0.241739    0.170073    0.116888    
0.042946    0.087020    0.715551    0.154483    
0.005455    0.977684    0.008073    0.008788    
0.961347    0.010406    0.008905    0.019342    
0.052082    0.124797    0.817415    0.005707    
0.006076    0.760021    0.178912    0.054991    
0.028571    0.008107    0.008474    0.954848    
0.014660    0.005591    0.972080    0.007668    
0.294513    0.447250    0.179919    0.078318    
0.102935    0.198776    0.225796    0.472493    
0.091518    0.122928    0.482905    0.302648    
0.415069    0.193286    0.241301    0.150343    
0.168852    0.188604    0.325948    0.316596    
Consensus sequence: HHDVVGCAGCTGVBKVB

Alignment:
BBYVVCAGCTGCBVHHD
-SCTSCCKMTGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Reverse Complement                      Reverse Complement                      Backward       11             11             0.048713       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
-SCTSCCKMTGC----------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00010        Tcfap2b_secondary                  Original Motif                          Reverse Complement                      Backward       1              11             0.049762       

Species: Mus musculus

Original motif
0.325895    0.099601    0.286848    0.287657    
0.177095    0.035123    0.260876    0.526906    
0.344850    0.211117    0.015725    0.428308    
0.128363    0.059965    0.777560    0.034112    
0.048072    0.881624    0.024842    0.045462    
0.072628    0.872650    0.011271    0.043451    
0.057165    0.162157    0.347719    0.432959    
0.015437    0.448405    0.428425    0.107733    
0.446877    0.336374    0.099940    0.116809    
0.090955    0.023004    0.848240    0.037801    
0.040151    0.015072    0.901303    0.043473    
0.087378    0.817019    0.027876    0.067727    
0.532482    0.021469    0.266773    0.179276    
0.325017    0.271661    0.138860    0.264463    
0.203625    0.179490    0.143885    0.473001    
Consensus sequence: DTWGCCKSMGGCRHH

Reverse complement motif
0.473001    0.179490    0.143885    0.203625    
0.264463    0.271661    0.138860    0.325017    
0.179276    0.021469    0.266773    0.532482    
0.087378    0.027876    0.817019    0.067727    
0.040151    0.901303    0.015072    0.043473    
0.090955    0.848240    0.023004    0.037801    
0.116809    0.336374    0.099940    0.446877    
0.015437    0.428425    0.448405    0.107733    
0.432959    0.162157    0.347719    0.057165    
0.072628    0.011271    0.872650    0.043451    
0.048072    0.024842    0.881624    0.045462    
0.128363    0.777560    0.059965    0.034112    
0.428308    0.211117    0.015725    0.344850    
0.526906    0.035123    0.260876    0.177095    
0.287657    0.099601    0.286848    0.325895    
Consensus sequence: HHKGCCYSRGGCWAD

Alignment:
HHKGCCYSRGGCWAD
----GCARRGGSAGS

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Reverse Complement                      Reverse Complement                      Backward       1              11             0.050755       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-----------SCTSCCKMTGC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_secondary                     Original Motif                          Reverse Complement                      Backward       2              11             0.050865       

Species: Mus musculus

Original motif
0.313621    0.149049    0.200899    0.336432    
0.262644    0.147616    0.334882    0.254859    
0.175848    0.137857    0.292272    0.394023    
0.045910    0.364107    0.180535    0.409448    
0.093235    0.718630    0.093516    0.094619    
0.095552    0.724866    0.044589    0.134993    
0.058227    0.785149    0.029814    0.126810    
0.897368    0.023735    0.019064    0.059832    
0.043826    0.041750    0.020731    0.893692    
0.044268    0.013557    0.014689    0.927487    
0.102208    0.026005    0.709573    0.162214    
0.058404    0.046118    0.135257    0.760221    
0.303689    0.280676    0.320259    0.095375    
0.258633    0.262177    0.197029    0.282161    
0.564761    0.122466    0.194691    0.118082    
0.104738    0.358061    0.310533    0.226668    
0.267450    0.230099    0.197859    0.304593    
Consensus sequence: DDDYCCCATTGTVHABH

Reverse complement motif
0.304593    0.230099    0.197859    0.267450    
0.104738    0.310533    0.358061    0.226668    
0.118082    0.122466    0.194691    0.564761    
0.282161    0.262177    0.197029    0.258633    
0.303689    0.320259    0.280676    0.095375    
0.760221    0.046118    0.135257    0.058404    
0.102208    0.709573    0.026005    0.162214    
0.927487    0.013557    0.014689    0.044268    
0.893692    0.041750    0.020731    0.043826    
0.059832    0.023735    0.019064    0.897368    
0.058227    0.029814    0.785149    0.126810    
0.095552    0.044589    0.724866    0.134993    
0.093235    0.093516    0.718630    0.094619    
0.409448    0.364107    0.180535    0.045910    
0.394023    0.137857    0.292272    0.175848    
0.262644    0.334882    0.147616    0.254859    
0.336432    0.149049    0.200899    0.313621    
Consensus sequence: HBTHVACAATGGGMDHD

Alignment:
HBTHVACAATGGGMDHD
-----GCARRGGSAGS-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00005        Tcfap2a_primary                    Original Motif                          Original Motif                          Backward       1              11             0.051294       

Species: Mus musculus

Original motif
0.422613    0.103833    0.119614    0.353939    
0.249412    0.169205    0.202313    0.379071    
0.229443    0.231233    0.068690    0.470634    
0.013814    0.501744    0.463635    0.020806    
0.006744    0.985507    0.003252    0.004497    
0.001758    0.859562    0.001396    0.137285    
0.005460    0.315890    0.186790    0.491861    
0.040326    0.375312    0.497433    0.086929    
0.491861    0.186790    0.315890    0.005460    
0.137285    0.001396    0.859562    0.001758    
0.004497    0.003252    0.985507    0.006744    
0.020806    0.463635    0.501744    0.013814    
0.348377    0.094358    0.419593    0.137673    
0.559411    0.134625    0.133295    0.172668    
0.331903    0.197670    0.240404    0.230023    
Consensus sequence: WDHSCCYSRGGSRAD

Reverse complement motif
0.230023    0.197670    0.240404    0.331903    
0.172668    0.134625    0.133295    0.559411    
0.348377    0.419593    0.094358    0.137673    
0.020806    0.501744    0.463635    0.013814    
0.004497    0.985507    0.003252    0.006744    
0.137285    0.859562    0.001396    0.001758    
0.005460    0.186790    0.315890    0.491861    
0.040326    0.497433    0.375312    0.086929    
0.491861    0.315890    0.186790    0.005460    
0.001758    0.001396    0.859562    0.137285    
0.006744    0.003252    0.985507    0.004497    
0.013814    0.463635    0.501744    0.020806    
0.470634    0.231233    0.068690    0.229443    
0.379071    0.169205    0.202313    0.249412    
0.353939    0.103833    0.119614    0.422613    
Consensus sequence: DTMSCCKSMGGSHDW

Alignment:
WDHSCCYSRGGSRAD
----GCARRGGSAGS

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 2		Motif ID: 49		Motif name: Motif 49

Original motif
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: AAAAAAAAAAAAAT

Reserve complement motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: ATTTTTTTTTTTTT


************************************************************************ Best Matches for Motif ID 49 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00037        Zfp105_primary                     Reverse Complement                      Reverse Complement                      Backward       2              14             0.036174       

Species: Mus musculus

Original motif
0.363104    0.182807    0.145232    0.308856    
0.419707    0.133742    0.222546    0.224005    
0.164481    0.418263    0.052397    0.364858    
0.715575    0.117639    0.064914    0.101872    
0.883836    0.026985    0.032584    0.056596    
0.558797    0.151280    0.033120    0.256803    
0.267037    0.403488    0.026746    0.302729    
0.939762    0.013627    0.034579    0.012032    
0.897072    0.009878    0.035642    0.057408    
0.305904    0.516040    0.055311    0.122746    
0.880940    0.027958    0.048350    0.042752    
0.710082    0.052464    0.040250    0.197204    
0.246712    0.125155    0.318627    0.309506    
0.429749    0.181755    0.176892    0.211603    
0.339643    0.097216    0.355250    0.207891    
Consensus sequence: HDYAAAHAAMAADHD

Reverse complement motif
0.339643    0.355250    0.097216    0.207891    
0.211603    0.181755    0.176892    0.429749    
0.246712    0.318627    0.125155    0.309506    
0.197204    0.052464    0.040250    0.710082    
0.042752    0.027958    0.048350    0.880940    
0.305904    0.055311    0.516040    0.122746    
0.057408    0.009878    0.035642    0.897072    
0.012032    0.013627    0.034579    0.939762    
0.267037    0.026746    0.403488    0.302729    
0.256803    0.151280    0.033120    0.558797    
0.056596    0.026985    0.032584    0.883836    
0.101872    0.117639    0.064914    0.715575    
0.164481    0.052397    0.418263    0.364858    
0.224005    0.133742    0.222546    0.419707    
0.308856    0.182807    0.145232    0.363104    
Consensus sequence: HHHTTRTTDTTTKDH

Alignment:
HHHTTRTTDTTTKDH
ATTTTTTTTTTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Original Motif                          Original Motif                          Forward        2              14             0.039144       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
DWAATRTAAACAAWVVB
-AAAAAAAAAAAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00077        Srf_secondary                      Original Motif                          Original Motif                          Forward        3              14             0.041604       

Species: Mus musculus

Original motif
0.162968    0.284828    0.440984    0.111220    
0.151392    0.200635    0.205316    0.442657    
0.267215    0.083669    0.192498    0.456618    
0.332771    0.180711    0.200027    0.286491    
0.509370    0.102954    0.242569    0.145107    
0.666262    0.077309    0.154466    0.101962    
0.737968    0.113335    0.100401    0.048296    
0.658878    0.141580    0.134033    0.065510    
0.766115    0.094051    0.069763    0.070072    
0.755621    0.088491    0.044802    0.111086    
0.749083    0.135917    0.047510    0.067490    
0.663231    0.176795    0.028134    0.131839    
0.553358    0.277659    0.038655    0.130328    
0.392578    0.314083    0.209844    0.083495    
0.198462    0.237132    0.239466    0.324940    
0.275121    0.210087    0.194779    0.320013    
0.287748    0.277395    0.142704    0.292154    
Consensus sequence: VBDDAAAAAAAAMVBHH

Reverse complement motif
0.292154    0.277395    0.142704    0.287748    
0.320013    0.210087    0.194779    0.275121    
0.324940    0.237132    0.239466    0.198462    
0.083495    0.314083    0.209844    0.392578    
0.130328    0.277659    0.038655    0.553358    
0.131839    0.176795    0.028134    0.663231    
0.067490    0.135917    0.047510    0.749083    
0.111086    0.088491    0.044802    0.755621    
0.070072    0.094051    0.069763    0.766115    
0.065510    0.141580    0.134033    0.658878    
0.048296    0.113335    0.100401    0.737968    
0.101962    0.077309    0.154466    0.666262    
0.145107    0.102954    0.242569    0.509370    
0.286491    0.180711    0.200027    0.332771    
0.456618    0.083669    0.192498    0.267215    
0.442657    0.200635    0.205316    0.151392    
0.162968    0.440984    0.284828    0.111220    
Consensus sequence: HHVBYTTTTTTTTDDVV

Alignment:
VBDDAAAAAAAAMVBHH
--AAAAAAAAAAAAAT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Reverse Complement                      Reverse Complement                      Forward        3              14             0.042087       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
BDVTTTKTTTACWTWHH
--ATTTTTTTTTTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00180        Hoxd13                             Reverse Complement                      Reverse Complement                      Forward        3              14             0.042413       

Species: Mus musculus

Original motif
0.279189    0.316791    0.190404    0.213616    
0.297705    0.175638    0.191020    0.335637    
0.333485    0.203858    0.174034    0.288623    
0.046444    0.540349    0.083237    0.329969    
0.016780    0.648667    0.003870    0.330682    
0.679959    0.116873    0.002745    0.200422    
0.936496    0.002013    0.026876    0.034615    
0.004741    0.008734    0.003861    0.982665    
0.904624    0.000869    0.005345    0.089162    
0.967883    0.002295    0.001003    0.028819    
0.980087    0.004768    0.002887    0.012258    
0.898523    0.041633    0.022776    0.037069    
0.246903    0.292446    0.069240    0.391411    
0.192528    0.300908    0.105655    0.400908    
0.247610    0.343317    0.190760    0.218313    
0.246702    0.253595    0.176298    0.323404    
Consensus sequence: HDHYYAATAAAAHHHH

Reverse complement motif
0.323404    0.253595    0.176298    0.246702    
0.247610    0.190760    0.343317    0.218313    
0.400908    0.300908    0.105655    0.192528    
0.391411    0.292446    0.069240    0.246903    
0.037069    0.041633    0.022776    0.898523    
0.012258    0.004768    0.002887    0.980087    
0.028819    0.002295    0.001003    0.967883    
0.089162    0.000869    0.005345    0.904624    
0.982665    0.008734    0.003861    0.004741    
0.034615    0.002013    0.026876    0.936496    
0.200422    0.116873    0.002745    0.679959    
0.016780    0.003870    0.648667    0.330682    
0.046444    0.083237    0.540349    0.329969    
0.288623    0.203858    0.174034    0.333485    
0.335637    0.175638    0.191020    0.297705    
0.279189    0.190404    0.316791    0.213616    
Consensus sequence: HDHHTTTTATTKKHDD

Alignment:
HDHHTTTTATTKKHDD
--ATTTTTTTTTTTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_secondary                    Reverse Complement                      Reverse Complement                      Backward       2              14             0.042467       

Species: Mus musculus

Original motif
0.560226    0.121586    0.083231    0.234957    
0.318077    0.149137    0.179955    0.352831    
0.482497    0.118420    0.173594    0.225488    
0.200166    0.160901    0.191493    0.447440    
0.033691    0.569719    0.018901    0.377690    
0.638020    0.166545    0.021254    0.174181    
0.573953    0.105729    0.009308    0.311010    
0.890518    0.053364    0.013424    0.042694    
0.910758    0.028166    0.032648    0.028428    
0.013358    0.738707    0.023981    0.223953    
0.911783    0.018754    0.031898    0.037564    
0.702891    0.068940    0.076823    0.151346    
0.445507    0.320769    0.057216    0.176507    
0.587798    0.129586    0.140592    0.142024    
0.258981    0.330939    0.167334    0.242747    
0.362022    0.333796    0.145861    0.158320    
Consensus sequence: ADDDYAWAACAAMAHH

Reverse complement motif
0.158320    0.333796    0.145861    0.362022    
0.258981    0.167334    0.330939    0.242747    
0.142024    0.129586    0.140592    0.587798    
0.176507    0.320769    0.057216    0.445507    
0.151346    0.068940    0.076823    0.702891    
0.037564    0.018754    0.031898    0.911783    
0.013358    0.023981    0.738707    0.223953    
0.028428    0.028166    0.032648    0.910758    
0.042694    0.053364    0.013424    0.890518    
0.311010    0.105729    0.009308    0.573953    
0.174181    0.166545    0.021254    0.638020    
0.033691    0.018901    0.569719    0.377690    
0.447440    0.160901    0.191493    0.200166    
0.225488    0.118420    0.173594    0.482497    
0.352831    0.149137    0.179955    0.318077    
0.234957    0.121586    0.083231    0.560226    
Consensus sequence: HDTYTTGTTWTKDDDT

Alignment:
HDTYTTGTTWTKDDDT
-ATTTTTTTTTTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Reverse Complement                      Reverse Complement                      Forward        3              14             0.043061       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
BBVTTTGTTTACATTDD
--ATTTTTTTTTTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00134        Hoxb13                             Reverse Complement                      Reverse Complement                      Backward       1              14             0.043554       

Species: Mus musculus

Original motif
0.376100    0.272625    0.202253    0.149021    
0.479072    0.116315    0.274952    0.129661    
0.297412    0.328646    0.182054    0.191889    
0.052067    0.771717    0.088083    0.088133    
0.018222    0.666056    0.006952    0.308770    
0.755568    0.122362    0.001339    0.120731    
0.915413    0.001023    0.052340    0.031225    
0.002612    0.028396    0.000695    0.968297    
0.831092    0.001851    0.005615    0.161442    
0.927869    0.001839    0.001169    0.069123    
0.967747    0.009603    0.002871    0.019778    
0.843186    0.073812    0.055868    0.027134    
0.371084    0.143031    0.086222    0.399662    
0.264976    0.212885    0.118960    0.403179    
0.215633    0.345186    0.105518    0.333663    
0.221910    0.297212    0.329310    0.151568    
Consensus sequence: VRHCCAATAAAAWHHV

Reverse complement motif
0.221910    0.329310    0.297212    0.151568    
0.215633    0.105518    0.345186    0.333663    
0.403179    0.212885    0.118960    0.264976    
0.399662    0.143031    0.086222    0.371084    
0.027134    0.073812    0.055868    0.843186    
0.019778    0.009603    0.002871    0.967747    
0.069123    0.001839    0.001169    0.927869    
0.161442    0.001851    0.005615    0.831092    
0.968297    0.028396    0.000695    0.002612    
0.031225    0.001023    0.052340    0.915413    
0.120731    0.122362    0.001339    0.755568    
0.018222    0.006952    0.666056    0.308770    
0.052067    0.088083    0.771717    0.088133    
0.297412    0.182054    0.328646    0.191889    
0.129661    0.116315    0.274952    0.479072    
0.149021    0.272625    0.202253    0.376100    
Consensus sequence: VDHWTTTTATTGGDKB

Alignment:
VDHWTTTTATTGGDKB
--ATTTTTTTTTTTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_secondary                    Reverse Complement                      Reverse Complement                      Forward        1              14             0.043907       

Species: Mus musculus

Original motif
0.240753    0.425595    0.141281    0.192371    
0.367715    0.247224    0.117353    0.267708    
0.489169    0.220343    0.113844    0.176644    
0.742256    0.042809    0.146704    0.068231    
0.078936    0.546144    0.032328    0.342592    
0.588419    0.293580    0.082117    0.035885    
0.913924    0.026256    0.050778    0.009042    
0.009007    0.565680    0.010683    0.414630    
0.947562    0.020878    0.018821    0.012739    
0.901384    0.021519    0.030204    0.046893    
0.077157    0.797900    0.026432    0.098511    
0.824314    0.040128    0.051910    0.083648    
0.254436    0.342235    0.143789    0.259539    
0.319400    0.338163    0.129746    0.212691    
0.231014    0.260719    0.169042    0.339225    
Consensus sequence: HHHAYAAYAACAHHH

Reverse complement motif
0.339225    0.260719    0.169042    0.231014    
0.319400    0.129746    0.338163    0.212691    
0.254436    0.143789    0.342235    0.259539    
0.083648    0.040128    0.051910    0.824314    
0.077157    0.026432    0.797900    0.098511    
0.046893    0.021519    0.030204    0.901384    
0.012739    0.020878    0.018821    0.947562    
0.009007    0.010683    0.565680    0.414630    
0.009042    0.026256    0.050778    0.913924    
0.035885    0.293580    0.082117    0.588419    
0.078936    0.032328    0.546144    0.342592    
0.068231    0.042809    0.146704    0.742256    
0.176644    0.220343    0.113844    0.489169    
0.267708    0.247224    0.117353    0.367715    
0.240753    0.141281    0.425595    0.192371    
Consensus sequence: HDDTGTTKTTKTHHD

Alignment:
HDDTGTTKTTKTHHD
ATTTTTTTTTTTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_primary                      Original Motif                          Original Motif                          Backward       3              14             0.045165       

Species: Mus musculus

Original motif
0.273456    0.257473    0.208488    0.260583    
0.338566    0.133379    0.306363    0.221693    
0.475488    0.192852    0.156858    0.174803    
0.506619    0.132646    0.170373    0.190362    
0.349042    0.127275    0.325924    0.197759    
0.303850    0.013619    0.678034    0.004497    
0.014136    0.015691    0.003073    0.967100    
0.913373    0.082928    0.001910    0.001789    
0.956294    0.017745    0.000584    0.025378    
0.987796    0.001685    0.004159    0.006360    
0.002288    0.814764    0.001427    0.181521    
0.986707    0.002688    0.003346    0.007259    
0.787378    0.065481    0.057961    0.089180    
0.572982    0.089910    0.066184    0.270924    
0.224167    0.339979    0.258886    0.176968    
0.268414    0.272007    0.239541    0.220038    
0.241771    0.394748    0.174273    0.189208    
Consensus sequence: HDHADGTAAACAAAVVH

Reverse complement motif
0.241771    0.174273    0.394748    0.189208    
0.268414    0.239541    0.272007    0.220038    
0.224167    0.258886    0.339979    0.176968    
0.270924    0.089910    0.066184    0.572982    
0.089180    0.065481    0.057961    0.787378    
0.007259    0.002688    0.003346    0.986707    
0.002288    0.001427    0.814764    0.181521    
0.006360    0.001685    0.004159    0.987796    
0.025378    0.017745    0.000584    0.956294    
0.001789    0.082928    0.001910    0.913373    
0.967100    0.015691    0.003073    0.014136    
0.303850    0.678034    0.013619    0.004497    
0.197759    0.127275    0.325924    0.349042    
0.190362    0.132646    0.170373    0.506619    
0.174803    0.192852    0.156858    0.475488    
0.221693    0.133379    0.306363    0.338566    
0.260583    0.257473    0.208488    0.273456    
Consensus sequence: DVVTTTGTTTACDTHDH

Alignment:
HDHADGTAAACAAAVVH
-AAAAAAAAAAAAAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 2		Motif ID: 50		Motif name: Motif 50

Original motif
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.625000    0.375000    0.000000    0.000000    
Consensus sequence: GGAAM

Reserve complement motif
0.000000    0.375000    0.000000    0.625000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: YTTCC


************************************************************************ Best Matches for Motif ID 50 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00424        Gm4881                             Original Motif                          Reverse Complement                      Backward       6              5              0.000000       

Species: Mus musculus

Original motif
0.329653    0.202372    0.295939    0.172036    
0.115902    0.257124    0.275681    0.351293    
0.166218    0.287124    0.323101    0.223557    
0.362654    0.226006    0.172880    0.238460    
0.763083    0.011021    0.209049    0.016847    
0.002627    0.453407    0.008750    0.535216    
0.114520    0.002235    0.003479    0.879767    
0.008768    0.002063    0.001821    0.987348    
0.002319    0.990917    0.003213    0.003552    
0.002458    0.990806    0.002092    0.004645    
0.002211    0.005454    0.950960    0.041374    
0.055418    0.054277    0.859284    0.031021    
0.116069    0.088611    0.037729    0.757591    
0.342397    0.173151    0.180376    0.304077    
0.246785    0.140058    0.440199    0.172957    
0.287474    0.183857    0.212951    0.315718    
Consensus sequence: VBBHAYTTCCGGTDDD

Reverse complement motif
0.315718    0.183857    0.212951    0.287474    
0.246785    0.440199    0.140058    0.172957    
0.304077    0.173151    0.180376    0.342397    
0.757591    0.088611    0.037729    0.116069    
0.055418    0.859284    0.054277    0.031021    
0.002211    0.950960    0.005454    0.041374    
0.002458    0.002092    0.990806    0.004645    
0.002319    0.003213    0.990917    0.003552    
0.987348    0.002063    0.001821    0.008768    
0.879767    0.002235    0.003479    0.114520    
0.535216    0.453407    0.008750    0.002627    
0.016847    0.011021    0.209049    0.763083    
0.238460    0.226006    0.172880    0.362654    
0.166218    0.323101    0.287124    0.223557    
0.351293    0.257124    0.275681    0.115902    
0.172036    0.202372    0.295939    0.329653    
Consensus sequence: DHDACCGGAAMTHBVB

Alignment:
DHDACCGGAAMTHBVB
------GGAAM-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00416        Fli1                               Reverse Complement                      Original Motif                          Backward       7              5              0.001638       

Species: Mus musculus

Original motif
0.306248    0.320757    0.227284    0.145711    
0.154859    0.254523    0.255295    0.335323    
0.131261    0.300255    0.356247    0.212237    
0.349545    0.222549    0.254062    0.173844    
0.736280    0.006475    0.242691    0.014555    
0.001696    0.522360    0.010544    0.465399    
0.082657    0.000819    0.004666    0.911858    
0.007818    0.001869    0.001302    0.989011    
0.002303    0.992768    0.002361    0.002568    
0.002417    0.992259    0.003375    0.001949    
0.000360    0.004820    0.907484    0.087336    
0.004749    0.022225    0.959164    0.013862    
0.197948    0.147167    0.034749    0.620136    
0.340568    0.182434    0.187068    0.289930    
0.240105    0.146975    0.344334    0.268587    
0.189372    0.384338    0.143385    0.282906    
Consensus sequence: VBBVAYTTCCGGTDDH

Reverse complement motif
0.189372    0.143385    0.384338    0.282906    
0.240105    0.344334    0.146975    0.268587    
0.289930    0.182434    0.187068    0.340568    
0.620136    0.147167    0.034749    0.197948    
0.004749    0.959164    0.022225    0.013862    
0.000360    0.907484    0.004820    0.087336    
0.002417    0.003375    0.992259    0.001949    
0.002303    0.002361    0.992768    0.002568    
0.989011    0.001869    0.001302    0.007818    
0.911858    0.000819    0.004666    0.082657    
0.001696    0.010544    0.522360    0.465399    
0.014555    0.006475    0.242691    0.736280    
0.173844    0.222549    0.254062    0.349545    
0.131261    0.356247    0.300255    0.212237    
0.335323    0.254523    0.255295    0.154859    
0.306248    0.227284    0.320757    0.145711    
Consensus sequence: DHDACCGGAAKTBBVV

Alignment:
VBBVAYTTCCGGTDDH
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00422        Etv3                               Reverse Complement                      Original Motif                          Forward        6              5              0.002344       

Species: Mus musculus

Original motif
0.332809    0.229564    0.274530    0.163097    
0.135229    0.358662    0.213133    0.292977    
0.175467    0.227303    0.362532    0.234698    
0.414668    0.219948    0.135069    0.230314    
0.753697    0.016289    0.187301    0.042714    
0.004731    0.490263    0.022866    0.482139    
0.090430    0.003072    0.014474    0.892025    
0.008761    0.004125    0.001801    0.985313    
0.003087    0.987821    0.004506    0.004586    
0.002955    0.989874    0.002924    0.004247    
0.004528    0.010188    0.939087    0.046196    
0.103036    0.063134    0.799250    0.034580    
0.243182    0.089819    0.055020    0.611978    
0.439614    0.180450    0.158093    0.221844    
0.214372    0.144123    0.384421    0.257084    
0.210021    0.334608    0.177182    0.278189    
Consensus sequence: VBBHAYTTCCGGTHDH

Reverse complement motif
0.210021    0.177182    0.334608    0.278189    
0.214372    0.384421    0.144123    0.257084    
0.221844    0.180450    0.158093    0.439614    
0.611978    0.089819    0.055020    0.243182    
0.103036    0.799250    0.063134    0.034580    
0.004528    0.939087    0.010188    0.046196    
0.002955    0.002924    0.989874    0.004247    
0.003087    0.004506    0.987821    0.004586    
0.985313    0.004125    0.001801    0.008761    
0.892025    0.003072    0.014474    0.090430    
0.004731    0.022866    0.490263    0.482139    
0.042714    0.016289    0.187301    0.753697    
0.230314    0.219948    0.135069    0.414668    
0.175467    0.362532    0.227303    0.234698    
0.135229    0.213133    0.358662    0.292977    
0.163097    0.229564    0.274530    0.332809    
Consensus sequence: DHHACCGGAAKTHBBB

Alignment:
VBBHAYTTCCGGTHDH
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00411        Erg                                Reverse Complement                      Original Motif                          Backward       7              5              0.005898       

Species: Mus musculus

Original motif
0.301267    0.284764    0.255705    0.158264    
0.122975    0.233756    0.238767    0.404502    
0.154943    0.290275    0.345790    0.208992    
0.321204    0.330726    0.177808    0.170262    
0.780210    0.006861    0.200535    0.012393    
0.001550    0.582732    0.011633    0.404085    
0.105245    0.000870    0.004910    0.888976    
0.009093    0.001705    0.001205    0.987996    
0.002195    0.992811    0.002476    0.002518    
0.003021    0.992233    0.002469    0.002278    
0.000332    0.004293    0.893671    0.101704    
0.005607    0.034448    0.942814    0.017131    
0.185818    0.115556    0.035998    0.662628    
0.300053    0.198903    0.221728    0.279316    
0.186224    0.170560    0.307002    0.336213    
0.157640    0.407799    0.198527    0.236034    
Consensus sequence: VBBVAYTTCCGGTDDB

Reverse complement motif
0.157640    0.198527    0.407799    0.236034    
0.336213    0.170560    0.307002    0.186224    
0.279316    0.198903    0.221728    0.300053    
0.662628    0.115556    0.035998    0.185818    
0.005607    0.942814    0.034448    0.017131    
0.000332    0.893671    0.004293    0.101704    
0.003021    0.002469    0.992233    0.002278    
0.002195    0.002476    0.992811    0.002518    
0.987996    0.001705    0.001205    0.009093    
0.888976    0.000870    0.004910    0.105245    
0.001550    0.011633    0.582732    0.404085    
0.012393    0.006861    0.200535    0.780210    
0.321204    0.177808    0.330726    0.170262    
0.154943    0.345790    0.290275    0.208992    
0.404502    0.233756    0.238767    0.122975    
0.158264    0.284764    0.255705    0.301267    
Consensus sequence: BDDACCGGAAKTVBVB

Alignment:
VBBVAYTTCCGGTDDB
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00418        Etv6                               Reverse Complement                      Original Motif                          Backward       7              5              0.006913       

Species: Mus musculus

Original motif
0.354972    0.069107    0.299350    0.276571    
0.209701    0.408003    0.227382    0.154914    
0.284336    0.375266    0.162604    0.177794    
0.176569    0.181438    0.342172    0.299820    
0.106551    0.204378    0.060299    0.628772    
0.884088    0.003252    0.103113    0.009546    
0.001110    0.704391    0.006294    0.288205    
0.014992    0.000892    0.001401    0.982714    
0.004842    0.001887    0.002470    0.990801    
0.002724    0.992864    0.002206    0.002206    
0.001792    0.991200    0.001615    0.005393    
0.005151    0.010157    0.940259    0.044433    
0.017780    0.199839    0.761921    0.020459    
0.230834    0.269936    0.119652    0.379577    
0.233019    0.093692    0.034743    0.638546    
0.194739    0.181763    0.175340    0.448159    
0.145452    0.293709    0.335917    0.224922    
Consensus sequence: DVHBTACTTCCGGHTHB

Reverse complement motif
0.145452    0.335917    0.293709    0.224922    
0.448159    0.181763    0.175340    0.194739    
0.638546    0.093692    0.034743    0.233019    
0.379577    0.269936    0.119652    0.230834    
0.017780    0.761921    0.199839    0.020459    
0.005151    0.940259    0.010157    0.044433    
0.001792    0.001615    0.991200    0.005393    
0.002724    0.002206    0.992864    0.002206    
0.990801    0.001887    0.002470    0.004842    
0.982714    0.000892    0.001401    0.014992    
0.001110    0.006294    0.704391    0.288205    
0.009546    0.003252    0.103113    0.884088    
0.628772    0.204378    0.060299    0.106551    
0.176569    0.342172    0.181438    0.299820    
0.284336    0.162604    0.375266    0.177794    
0.209701    0.227382    0.408003    0.154914    
0.276571    0.069107    0.299350    0.354972    
Consensus sequence: BHAHCCGGAAGTABDVD

Alignment:
DVHBTACTTCCGGHTHB
------YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00415        Elk4                               Reverse Complement                      Original Motif                          Backward       7              5              0.007222       

Species: Mus musculus

Original motif
0.300853    0.294487    0.280460    0.124201    
0.157232    0.233834    0.211586    0.397348    
0.159310    0.203905    0.424971    0.211814    
0.354339    0.199657    0.183532    0.262473    
0.600444    0.009731    0.360126    0.029699    
0.003569    0.539578    0.034527    0.422325    
0.133878    0.001340    0.015798    0.848984    
0.007617    0.004852    0.001324    0.986208    
0.002444    0.991121    0.003343    0.003092    
0.002826    0.990981    0.004609    0.001584    
0.000526    0.003830    0.945849    0.049795    
0.017484    0.038092    0.911945    0.032479    
0.150144    0.246623    0.061547    0.541686    
0.394683    0.150027    0.234684    0.220606    
0.303982    0.110838    0.383852    0.201327    
0.214111    0.413717    0.133729    0.238442    
Consensus sequence: VBBHRYTTCCGGTDDH

Reverse complement motif
0.214111    0.133729    0.413717    0.238442    
0.303982    0.383852    0.110838    0.201327    
0.220606    0.150027    0.234684    0.394683    
0.541686    0.246623    0.061547    0.150144    
0.017484    0.911945    0.038092    0.032479    
0.000526    0.945849    0.003830    0.049795    
0.002826    0.004609    0.990981    0.001584    
0.002444    0.003343    0.991121    0.003092    
0.986208    0.004852    0.001324    0.007617    
0.848984    0.001340    0.015798    0.133878    
0.003569    0.034527    0.539578    0.422325    
0.029699    0.009731    0.360126    0.600444    
0.262473    0.199657    0.183532    0.354339    
0.159310    0.424971    0.203905    0.211814    
0.397348    0.233834    0.211586    0.157232    
0.124201    0.294487    0.280460    0.300853    
Consensus sequence: DHDACCGGAAKKHBVB

Alignment:
VBBHRYTTCCGGTDDH
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00413        Elf4                               Reverse Complement                      Original Motif                          Backward       7              5              0.015311       

Species: Mus musculus

Original motif
0.349744    0.139466    0.209326    0.301464    
0.080478    0.359482    0.307083    0.252956    
0.145756    0.213763    0.350557    0.289924    
0.317307    0.199359    0.096089    0.387245    
0.868576    0.009724    0.088821    0.032878    
0.001975    0.827004    0.014159    0.156862    
0.045494    0.000985    0.001907    0.951615    
0.011012    0.001203    0.002186    0.985599    
0.002743    0.992908    0.002226    0.002123    
0.001498    0.990840    0.001556    0.006106    
0.000951    0.005138    0.880591    0.113319    
0.003127    0.107962    0.867980    0.020930    
0.156602    0.055355    0.396563    0.391480    
0.421246    0.049379    0.084495    0.444880    
0.223879    0.068063    0.203809    0.504249    
0.144100    0.323579    0.131544    0.400777    
Consensus sequence: DBBHACTTCCGGKWTH

Reverse complement motif
0.400777    0.323579    0.131544    0.144100    
0.504249    0.068063    0.203809    0.223879    
0.444880    0.049379    0.084495    0.421246    
0.156602    0.396563    0.055355    0.391480    
0.003127    0.867980    0.107962    0.020930    
0.000951    0.880591    0.005138    0.113319    
0.001498    0.001556    0.990840    0.006106    
0.002743    0.002226    0.992908    0.002123    
0.985599    0.001203    0.002186    0.011012    
0.951615    0.000985    0.001907    0.045494    
0.001975    0.014159    0.827004    0.156862    
0.032878    0.009724    0.088821    0.868576    
0.387245    0.199359    0.096089    0.317307    
0.145756    0.350557    0.213763    0.289924    
0.080478    0.307083    0.359482    0.252956    
0.301464    0.139466    0.209326    0.349744    
Consensus sequence: HAWYCCGGAAGTHBBD

Alignment:
DBBHACTTCCGGKWTH
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00404        Elf2                               Reverse Complement                      Original Motif                          Backward       7              5              0.015346       

Species: Mus musculus

Original motif
0.381592    0.198656    0.201326    0.218426    
0.091509    0.331644    0.302830    0.274017    
0.165404    0.272650    0.352528    0.209418    
0.322145    0.255685    0.129399    0.292771    
0.853490    0.012857    0.078563    0.055090    
0.002655    0.792907    0.026436    0.178002    
0.058923    0.001063    0.002976    0.937038    
0.014944    0.001369    0.002865    0.980822    
0.003786    0.992305    0.002102    0.001807    
0.001365    0.988969    0.001554    0.008111    
0.001527    0.009592    0.891056    0.097824    
0.003671    0.143708    0.836117    0.016503    
0.242982    0.061527    0.305342    0.390148    
0.426709    0.117673    0.096260    0.359357    
0.202520    0.113885    0.262005    0.421589    
0.137957    0.359367    0.163919    0.338758    
Consensus sequence: DBBHACTTCCGGDWDB

Reverse complement motif
0.137957    0.163919    0.359367    0.338758    
0.421589    0.113885    0.262005    0.202520    
0.359357    0.117673    0.096260    0.426709    
0.390148    0.061527    0.305342    0.242982    
0.003671    0.836117    0.143708    0.016503    
0.001527    0.891056    0.009592    0.097824    
0.001365    0.001554    0.988969    0.008111    
0.003786    0.002102    0.992305    0.001807    
0.980822    0.001369    0.002865    0.014944    
0.937038    0.001063    0.002976    0.058923    
0.002655    0.026436    0.792907    0.178002    
0.055090    0.012857    0.078563    0.853490    
0.292771    0.255685    0.129399    0.322145    
0.165404    0.352528    0.272650    0.209418    
0.091509    0.302830    0.331644    0.274017    
0.218426    0.198656    0.201326    0.381592    
Consensus sequence: BDWDCCGGAAGTHBBD

Alignment:
DBBHACTTCCGGDWDB
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00417        Etv4                               Reverse Complement                      Original Motif                          Forward        6              5              0.021968       

Species: Mus musculus

Original motif
0.184878    0.284434    0.409923    0.120764    
0.109377    0.175465    0.236839    0.478318    
0.178098    0.256797    0.363549    0.201555    
0.364772    0.248187    0.178759    0.208283    
0.724780    0.030390    0.208903    0.035927    
0.002995    0.613982    0.054050    0.328972    
0.343836    0.005047    0.005182    0.645935    
0.010738    0.001234    0.002703    0.985325    
0.003133    0.992033    0.003651    0.001183    
0.002003    0.992420    0.002597    0.002979    
0.000776    0.002346    0.925715    0.071164    
0.012174    0.089110    0.885352    0.013364    
0.240364    0.196426    0.055886    0.507324    
0.210052    0.182581    0.413971    0.193396    
0.228279    0.169636    0.398631    0.203454    
0.155773    0.389556    0.186769    0.267902    
Consensus sequence: VBBHAYWTCCGGTDDB

Reverse complement motif
0.155773    0.186769    0.389556    0.267902    
0.228279    0.398631    0.169636    0.203454    
0.210052    0.413971    0.182581    0.193396    
0.507324    0.196426    0.055886    0.240364    
0.012174    0.885352    0.089110    0.013364    
0.000776    0.925715    0.002346    0.071164    
0.002003    0.002597    0.992420    0.002979    
0.003133    0.003651    0.992033    0.001183    
0.985325    0.001234    0.002703    0.010738    
0.645935    0.005047    0.005182    0.343836    
0.002995    0.054050    0.613982    0.328972    
0.035927    0.030390    0.208903    0.724780    
0.208283    0.248187    0.178759    0.364772    
0.178098    0.363549    0.256797    0.201555    
0.478318    0.175465    0.236839    0.109377    
0.184878    0.409923    0.284434    0.120764    
Consensus sequence: BHHACCGGAWKTHBVV

Alignment:
VBBHAYWTCCGGTDDB
-----YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00419        Spic                               Reverse Complement                      Reverse Complement                      Backward       7              5              0.022402       

Species: Mus musculus

Original motif
0.372554    0.181557    0.296001    0.149888    
0.734552    0.057250    0.044752    0.163446    
0.707604    0.045049    0.110341    0.137006    
0.637848    0.057252    0.071934    0.232966    
0.125449    0.108933    0.689441    0.076176    
0.266215    0.517339    0.207018    0.009428    
0.015016    0.002582    0.979670    0.002732    
0.004303    0.002322    0.989973    0.003401    
0.982327    0.003552    0.003393    0.010727    
0.974155    0.001662    0.003294    0.020889    
0.040023    0.128522    0.821560    0.009894    
0.027635    0.045828    0.016297    0.910239    
0.317500    0.045635    0.172234    0.464631    
0.342838    0.107812    0.284775    0.264576    
Consensus sequence: VAAAGMGGAAGTWD

Reverse complement motif
0.264576    0.107812    0.284775    0.342838    
0.464631    0.045635    0.172234    0.317500    
0.910239    0.045828    0.016297    0.027635    
0.040023    0.821560    0.128522    0.009894    
0.020889    0.001662    0.003294    0.974155    
0.010727    0.003552    0.003393    0.982327    
0.004303    0.989973    0.002322    0.003401    
0.015016    0.979670    0.002582    0.002732    
0.266215    0.207018    0.517339    0.009428    
0.125449    0.689441    0.108933    0.076176    
0.232966    0.057252    0.071934    0.637848    
0.137006    0.045049    0.110341    0.707604    
0.163446    0.057250    0.044752    0.734552    
0.149888    0.181557    0.296001    0.372554    
Consensus sequence: DWACTTCCRCTTTB

Alignment:
DWACTTCCRCTTTB
---YTTCC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 51		Motif name: HNF4A

Original motif
0.417910    0.104478    0.402985    0.074627    
0.029851    0.029851    0.835821    0.104478    
0.179104    0.059701    0.522388    0.238806    
0.074627    0.343284    0.298507    0.283582    
0.044776    0.761194    0.059701    0.134328    
0.880597    0.014925    0.044776    0.059701    
0.791045    0.029851    0.149254    0.029851    
0.835821    0.014925    0.119403    0.029851    
0.059701    0.059701    0.865672    0.014925    
0.089552    0.029851    0.492537    0.388060    
0.044776    0.328358    0.164179    0.462687    
0.059701    0.731343    0.074627    0.134328    
0.626866    0.104478    0.149254    0.119403    
Consensus sequence: RGGBCAAAGKYCA

Reserve complement motif
0.119403    0.104478    0.149254    0.626866    
0.059701    0.074627    0.731343    0.134328    
0.462687    0.328358    0.164179    0.044776    
0.089552    0.492537    0.029851    0.388060    
0.059701    0.865672    0.059701    0.014925    
0.029851    0.014925    0.119403    0.835821    
0.029851    0.029851    0.149254    0.791045    
0.059701    0.014925    0.044776    0.880597    
0.044776    0.059701    0.761194    0.134328    
0.074627    0.298507    0.343284    0.283582    
0.179104    0.522388    0.059701    0.238806    
0.029851    0.835821    0.029851    0.104478    
0.074627    0.104478    0.402985    0.417910    
Consensus sequence: TGMYCTTTGBCCK


************************************************************************ Best Matches for Motif ID 51 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Original Motif                          Backward       2              13             0.035778       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHASATCAAAGVRHHH
---RGGBCAAAGKYCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Original Motif                          Backward       2              13             0.035779       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH
---RGGBCAAAGKYCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Forward        4              13             0.035901       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
---RGGBCAAAGKYCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Original Motif                          Reverse Complement                      Backward       2              13             0.036079       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
BDDASATCAAAGGMDDD
---RGGBCAAAGKYCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_secondary                   Original Motif                          Original Motif                          Backward       4              13             0.040576       

Species: Mus musculus

Original motif
0.296417    0.247522    0.206749    0.249312    
0.410113    0.201959    0.303149    0.084779    
0.267313    0.132645    0.452057    0.147985    
0.187929    0.136827    0.427628    0.247616    
0.198671    0.425254    0.234160    0.141915    
0.029244    0.953929    0.004092    0.012734    
0.954570    0.014314    0.018695    0.012421    
0.010025    0.055055    0.845504    0.089415    
0.874802    0.040849    0.069178    0.015172    
0.015084    0.010551    0.008736    0.965628    
0.012981    0.007192    0.965036    0.014791    
0.037724    0.016891    0.495632    0.449753    
0.021685    0.438927    0.056118    0.483270    
0.209872    0.365671    0.139706    0.284751    
0.151815    0.336912    0.289382    0.221891    
0.152995    0.262354    0.416434    0.168217    
0.227567    0.187603    0.447892    0.136938    
Consensus sequence: HVDDVCAGATGKYHBBV

Reverse complement motif
0.227567    0.447892    0.187603    0.136938    
0.152995    0.416434    0.262354    0.168217    
0.151815    0.289382    0.336912    0.221891    
0.209872    0.139706    0.365671    0.284751    
0.483270    0.438927    0.056118    0.021685    
0.037724    0.495632    0.016891    0.449753    
0.012981    0.965036    0.007192    0.014791    
0.965628    0.010551    0.008736    0.015084    
0.015172    0.040849    0.069178    0.874802    
0.010025    0.845504    0.055055    0.089415    
0.012421    0.014314    0.018695    0.954570    
0.029244    0.004092    0.953929    0.012734    
0.198671    0.234160    0.425254    0.141915    
0.187929    0.427628    0.136827    0.247616    
0.267313    0.452057    0.132645    0.147985    
0.084779    0.201959    0.303149    0.410113    
0.249312    0.247522    0.206749    0.296417    
Consensus sequence: VBBDMYCATCTGVHHBH

Alignment:
HVDDVCAGATGKYHBBV
-RGGBCAAAGKYCA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Reverse Complement                      Reverse Complement                      Forward        2              13             0.040991       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HHBBMCTTTGTTHDDBH
-TGMYCTTTGBCCK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00101        Sox12_secondary                    Reverse Complement                      Reverse Complement                      Forward        1              13             0.041322       

Species: Mus musculus

Original motif
0.378898    0.318901    0.205859    0.096341    
0.352524    0.321236    0.224504    0.101736    
0.323551    0.182056    0.210897    0.283496    
0.135539    0.325230    0.208031    0.331200    
0.663106    0.055471    0.154459    0.126963    
0.051748    0.292567    0.537307    0.118378    
0.886489    0.042361    0.035742    0.035408    
0.043647    0.688744    0.094358    0.173252    
0.882052    0.039818    0.018899    0.059231    
0.864171    0.036011    0.068363    0.031455    
0.790158    0.046868    0.041594    0.121379    
0.087447    0.143905    0.707798    0.060849    
0.295919    0.132479    0.485703    0.085899    
0.653156    0.133004    0.110012    0.103828    
0.351764    0.131771    0.217730    0.298736    
0.203977    0.196773    0.099958    0.499292    
Consensus sequence: VVDBASACAAAGRADH

Reverse complement motif
0.499292    0.196773    0.099958    0.203977    
0.298736    0.131771    0.217730    0.351764    
0.103828    0.133004    0.110012    0.653156    
0.295919    0.485703    0.132479    0.085899    
0.087447    0.707798    0.143905    0.060849    
0.121379    0.046868    0.041594    0.790158    
0.031455    0.036011    0.068363    0.864171    
0.059231    0.039818    0.018899    0.882052    
0.043647    0.094358    0.688744    0.173252    
0.035408    0.042361    0.035742    0.886489    
0.051748    0.537307    0.292567    0.118378    
0.126963    0.055471    0.154459    0.663106    
0.331200    0.325230    0.208031    0.135539    
0.283496    0.182056    0.210897    0.323551    
0.101736    0.321236    0.224504    0.352524    
0.096341    0.318901    0.205859    0.378898    
Consensus sequence: HDTMCTTTGTSTVDBB

Alignment:
HDTMCTTTGTSTVDBB
TGMYCTTTGBCCK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Reverse Complement                      Reverse Complement                      Forward        2              13             0.042110       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HHBTMCTTTGTTMDDVH
-TGMYCTTTGBCCK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00086        Irf3_secondary                     Original Motif                          Original Motif                          Backward       2              13             0.044200       

Species: Mus musculus

Original motif
0.236565    0.149020    0.414811    0.199604    
0.197737    0.139048    0.436764    0.226451    
0.598309    0.089963    0.124245    0.187483    
0.212136    0.055296    0.648272    0.084296    
0.747144    0.027184    0.047789    0.177884    
0.766825    0.051238    0.039008    0.142929    
0.479462    0.085743    0.175517    0.259279    
0.064625    0.107366    0.753079    0.074929    
0.058034    0.074096    0.820937    0.046934    
0.270072    0.088714    0.217158    0.424057    
0.063867    0.384543    0.418514    0.133076    
0.047352    0.597210    0.167770    0.187669    
0.266737    0.150063    0.382264    0.200936    
0.381079    0.204427    0.218492    0.196003    
Consensus sequence: DDAGAADGGDSCDV

Reverse complement motif
0.196003    0.204427    0.218492    0.381079    
0.266737    0.382264    0.150063    0.200936    
0.047352    0.167770    0.597210    0.187669    
0.063867    0.418514    0.384543    0.133076    
0.424057    0.088714    0.217158    0.270072    
0.058034    0.820937    0.074096    0.046934    
0.064625    0.753079    0.107366    0.074929    
0.259279    0.085743    0.175517    0.479462    
0.142929    0.051238    0.039008    0.766825    
0.177884    0.027184    0.047789    0.747144    
0.212136    0.648272    0.055296    0.084296    
0.187483    0.089963    0.124245    0.598309    
0.197737    0.436764    0.139048    0.226451    
0.236565    0.414811    0.149020    0.199604    
Consensus sequence: BHGSDCCDTTCTHH

Alignment:
DDAGAADGGDSCDV
RGGBCAAAGKYCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_secondary                   Original Motif                          Reverse Complement                      Forward        4              13             0.044688       

Species: Mus musculus

Original motif
0.173063    0.169680    0.440836    0.216421    
0.353277    0.179996    0.249403    0.217325    
0.307337    0.038055    0.616380    0.038228    
0.316636    0.564670    0.023732    0.094962    
0.015484    0.923764    0.019439    0.041313    
0.011243    0.956300    0.009443    0.023014    
0.062273    0.107531    0.010739    0.819456    
0.126670    0.201521    0.192005    0.479803    
0.093090    0.045924    0.835792    0.025194    
0.020165    0.015483    0.009567    0.954786    
0.010873    0.672448    0.004559    0.312121    
0.018002    0.846860    0.017605    0.117533    
0.335703    0.408170    0.104095    0.152031    
0.150308    0.362296    0.067408    0.419988    
0.286490    0.242211    0.176532    0.294767    
0.265022    0.249655    0.272219    0.213104    
Consensus sequence: DDGMCCTBGTCCHYHV

Reverse complement motif
0.265022    0.272219    0.249655    0.213104    
0.294767    0.242211    0.176532    0.286490    
0.419988    0.362296    0.067408    0.150308    
0.335703    0.104095    0.408170    0.152031    
0.018002    0.017605    0.846860    0.117533    
0.010873    0.004559    0.672448    0.312121    
0.954786    0.015483    0.009567    0.020165    
0.093090    0.835792    0.045924    0.025194    
0.479803    0.201521    0.192005    0.126670    
0.819456    0.107531    0.010739    0.062273    
0.011243    0.009443    0.956300    0.023014    
0.015484    0.019439    0.923764    0.041313    
0.316636    0.023732    0.564670    0.094962    
0.307337    0.616380    0.038055    0.038228    
0.217325    0.179996    0.249403    0.353277    
0.173063    0.440836    0.169680    0.216421    
Consensus sequence: VHMDGGACVAGGRCDH

Alignment:
VHMDGGACVAGGRCDH
---RGGBCAAAGKYCA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 52		Motif name: NR2F1

Original motif
0.000000    0.000000    0.153846    0.846154    
0.076923    0.000000    0.923077    0.000000    
0.923077    0.000000    0.076923    0.000000    
0.461538    0.538462    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.230769    0.000000    0.769231    
0.000000    0.153846    0.000000    0.846154    
0.076923    0.000000    0.000000    0.923077    
0.153846    0.000000    0.846154    0.000000    
0.461538    0.307692    0.230769    0.000000    
0.461538    0.384615    0.076923    0.076923    
0.076923    0.769231    0.076923    0.076923    
0.230769    0.461538    0.000000    0.307692    
0.000000    0.230769    0.230769    0.538462    
Consensus sequence: TGAMCTTTGMMCYT

Reserve complement motif
0.538462    0.230769    0.230769    0.000000    
0.230769    0.000000    0.461538    0.307692    
0.076923    0.076923    0.769231    0.076923    
0.076923    0.384615    0.076923    0.461538    
0.000000    0.307692    0.230769    0.461538    
0.153846    0.846154    0.000000    0.000000    
0.923077    0.000000    0.000000    0.076923    
0.846154    0.153846    0.000000    0.000000    
0.769231    0.230769    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.461538    0.000000    0.538462    0.000000    
0.000000    0.000000    0.076923    0.923077    
0.076923    0.923077    0.000000    0.000000    
0.846154    0.000000    0.153846    0.000000    
Consensus sequence: AKGYYCAAAGRTCA


************************************************************************ Best Matches for Motif ID 52 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Original Motif                          Original Motif                          Backward       3              14             0.045236       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
DDDYCCTTTGATSTDDV
-TGAMCTTTGMMCYT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Reverse Complement                      Reverse Complement                      Backward       2              14             0.045345       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
--AKGYYCAAAGRTCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Original Motif                          Reverse Complement                      Backward       2              14             0.046136       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-------TGAMCTTTGMMCYT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Reverse Complement                      Original Motif                          Backward       2              14             0.046177       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH
--AKGYYCAAAGRTCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Reverse Complement                      Original Motif                          Backward       2              14             0.047363       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHASATCAAAGVRHHH
--AKGYYCAAAGRTCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_secondary                   Original Motif                          Original Motif                          Forward        1              14             0.048019       

Species: Mus musculus

Original motif
0.173063    0.169680    0.440836    0.216421    
0.353277    0.179996    0.249403    0.217325    
0.307337    0.038055    0.616380    0.038228    
0.316636    0.564670    0.023732    0.094962    
0.015484    0.923764    0.019439    0.041313    
0.011243    0.956300    0.009443    0.023014    
0.062273    0.107531    0.010739    0.819456    
0.126670    0.201521    0.192005    0.479803    
0.093090    0.045924    0.835792    0.025194    
0.020165    0.015483    0.009567    0.954786    
0.010873    0.672448    0.004559    0.312121    
0.018002    0.846860    0.017605    0.117533    
0.335703    0.408170    0.104095    0.152031    
0.150308    0.362296    0.067408    0.419988    
0.286490    0.242211    0.176532    0.294767    
0.265022    0.249655    0.272219    0.213104    
Consensus sequence: DDGMCCTBGTCCHYHV

Reverse complement motif
0.265022    0.272219    0.249655    0.213104    
0.294767    0.242211    0.176532    0.286490    
0.419988    0.362296    0.067408    0.150308    
0.335703    0.104095    0.408170    0.152031    
0.018002    0.017605    0.846860    0.117533    
0.010873    0.004559    0.672448    0.312121    
0.954786    0.015483    0.009567    0.020165    
0.093090    0.835792    0.045924    0.025194    
0.479803    0.201521    0.192005    0.126670    
0.819456    0.107531    0.010739    0.062273    
0.011243    0.009443    0.956300    0.023014    
0.015484    0.019439    0.923764    0.041313    
0.316636    0.023732    0.564670    0.094962    
0.307337    0.616380    0.038055    0.038228    
0.217325    0.179996    0.249403    0.353277    
0.173063    0.440836    0.169680    0.216421    
Consensus sequence: VHMDGGACVAGGRCDH

Alignment:
DDGMCCTBGTCCHYHV
TGAMCTTTGMMCYT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Reverse Complement                      Forward        2              14             0.049545       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HHBBMCTTTGTTHDDBH
-TGAMCTTTGMMCYT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Reverse Complement                      Backward       3              14             0.049903       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HHBTMCTTTGTTMDDVH
-TGAMCTTTGMMCYT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00023        Sox30_primary                      Original Motif                          Original Motif                          Forward        3              14             0.051153       

Species: Mus musculus

Original motif
0.372432    0.102933    0.322145    0.202491    
0.328072    0.182071    0.157347    0.332510    
0.289417    0.084511    0.292873    0.333198    
0.157571    0.227851    0.441662    0.172917    
0.716832    0.049010    0.201411    0.032747    
0.957368    0.003162    0.004402    0.035068    
0.003907    0.862678    0.009407    0.124008    
0.977231    0.007658    0.004263    0.010847    
0.976481    0.004510    0.015225    0.003784    
0.067568    0.004353    0.005071    0.923008    
0.158205    0.108442    0.467023    0.266330    
0.334549    0.091557    0.510241    0.063654    
0.456431    0.182602    0.150234    0.210732    
0.387485    0.241062    0.151504    0.219950    
0.188387    0.269857    0.176514    0.365242    
0.175680    0.243984    0.165833    0.414502    
Consensus sequence: DHDBAACAATDRHHHH

Reverse complement motif
0.414502    0.243984    0.165833    0.175680    
0.365242    0.269857    0.176514    0.188387    
0.219950    0.241062    0.151504    0.387485    
0.210732    0.182602    0.150234    0.456431    
0.334549    0.510241    0.091557    0.063654    
0.158205    0.467023    0.108442    0.266330    
0.923008    0.004353    0.005071    0.067568    
0.003784    0.004510    0.015225    0.976481    
0.010847    0.007658    0.004263    0.977231    
0.003907    0.009407    0.862678    0.124008    
0.035068    0.003162    0.004402    0.957368    
0.032747    0.049010    0.201411    0.716832    
0.157571    0.441662    0.227851    0.172917    
0.333198    0.084511    0.292873    0.289417    
0.332510    0.182071    0.157347    0.328072    
0.202491    0.102933    0.322145    0.372432    
Consensus sequence: HHHHMHATTGTTBDHD

Alignment:
DHDBAACAATDRHHHH
--TGAMCTTTGMMCYT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00005        Tcfap2a_secondary                  Reverse Complement                      Reverse Complement                      Backward       1              14             0.051697       

Species: Mus musculus

Original motif
0.198427    0.243196    0.159241    0.399136    
0.267754    0.388187    0.116811    0.227248    
0.448284    0.056403    0.414623    0.080691    
0.031469    0.826323    0.055436    0.086772    
0.035527    0.756642    0.022985    0.184845    
0.127338    0.316078    0.155806    0.400778    
0.135021    0.313650    0.287760    0.263570    
0.418892    0.082297    0.068352    0.430460    
0.201062    0.044735    0.711358    0.042845    
0.038934    0.022320    0.903763    0.034982    
0.201790    0.065554    0.460526    0.272130    
0.006890    0.786923    0.061853    0.144334    
0.460666    0.103658    0.196452    0.239224    
0.092272    0.204611    0.390375    0.312742    
Consensus sequence: HHRCCBBWGGDCDB

Reverse complement motif
0.092272    0.390375    0.204611    0.312742    
0.239224    0.103658    0.196452    0.460666    
0.006890    0.061853    0.786923    0.144334    
0.201790    0.460526    0.065554    0.272130    
0.038934    0.903763    0.022320    0.034982    
0.201062    0.711358    0.044735    0.042845    
0.430460    0.082297    0.068352    0.418892    
0.135021    0.287760    0.313650    0.263570    
0.400778    0.316078    0.155806    0.127338    
0.035527    0.022985    0.756642    0.184845    
0.031469    0.055436    0.826323    0.086772    
0.080691    0.056403    0.414623    0.448284    
0.267754    0.116811    0.388187    0.227248    
0.399136    0.243196    0.159241    0.198427    
Consensus sequence: BDGHCCWBVGGKDH

Alignment:
BDGHCCWBVGGKDH
AKGYYCAAAGRTCA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 53		Motif name: ESR1

Original motif
0.261242    0.256959    0.329764    0.152034    
0.228632    0.170940    0.350427    0.250000    
0.136752    0.369658    0.318376    0.175214    
0.176596    0.487234    0.138298    0.197872    
0.285106    0.493617    0.100000    0.121277    
0.651163    0.059197    0.188161    0.101480    
0.075949    0.016878    0.816456    0.090717    
0.040000    0.037895    0.884211    0.037895    
0.069474    0.086316    0.191579    0.652632    
0.008421    0.829474    0.111579    0.050526    
0.837895    0.027368    0.056842    0.077895    
0.122105    0.526316    0.225263    0.126316    
0.132632    0.581053    0.111579    0.174737    
0.134737    0.543158    0.204211    0.117895    
0.067368    0.040000    0.016842    0.875789    
0.044211    0.046316    0.896842    0.012632    
0.642105    0.223158    0.065263    0.069474    
0.021053    0.917895    0.025263    0.035789    
0.124211    0.743158    0.004211    0.128421    
0.054737    0.347368    0.046316    0.551579    
Consensus sequence: VDBHMAGGTCACCCTGACCY

Reserve complement motif
0.551579    0.347368    0.046316    0.054737    
0.124211    0.004211    0.743158    0.128421    
0.021053    0.025263    0.917895    0.035789    
0.069474    0.223158    0.065263    0.642105    
0.044211    0.896842    0.046316    0.012632    
0.875789    0.040000    0.016842    0.067368    
0.134737    0.204211    0.543158    0.117895    
0.132632    0.111579    0.581053    0.174737    
0.122105    0.225263    0.526316    0.126316    
0.077895    0.027368    0.056842    0.837895    
0.008421    0.111579    0.829474    0.050526    
0.652632    0.086316    0.191579    0.069474    
0.040000    0.884211    0.037895    0.037895    
0.075949    0.816456    0.016878    0.090717    
0.101480    0.059197    0.188161    0.651163    
0.285106    0.100000    0.493617    0.121277    
0.176596    0.138298    0.487234    0.197872    
0.136752    0.318376    0.369658    0.175214    
0.228632    0.350427    0.170940    0.250000    
0.261242    0.329764    0.256959    0.152034    
Consensus sequence: MGGTCAGGGTGACCTRDBHV


************************************************************************ Best Matches for Motif ID 53 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Reverse Complement                      Backward       4              20             0.065841       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
VDBHMAGGTCACCCTGACCY---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Original Motif                          Reverse Complement                      Forward        1              20             0.068975       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
VDBHMAGGTCACCCTGACCY---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Reverse Complement                      Reverse Complement                      Backward       3              20             0.070125       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
MGGTCAGGGTGACCTRDBHV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Reverse Complement                      Original Motif                          Backward       3              20             0.071127       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
HVGVSAGGAGGGTCYHHHHYVH
MGGTCAGGGTGACCTRDBHV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Original Motif                          Reverse Complement                      Forward        2              20             0.074243       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
-VDBHMAGGTCACCCTGACCY-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_primary               Original Motif                          Original Motif                          Backward       2              20             0.074705       

Species: Mus musculus

Original motif
0.641428    0.180211    0.044767    0.133594    
0.171696    0.262981    0.334148    0.231174    
0.129726    0.322735    0.243462    0.304077    
0.165713    0.175735    0.256108    0.402445    
0.146090    0.171890    0.412753    0.269266    
0.212837    0.439192    0.280990    0.066980    
0.251088    0.275516    0.374380    0.099015    
0.575438    0.079656    0.338201    0.006704    
0.005634    0.003422    0.972597    0.018348    
0.890447    0.077034    0.031851    0.000668    
0.007128    0.986862    0.000496    0.005515    
0.001445    0.991564    0.001925    0.005066    
0.738761    0.190157    0.026399    0.044684    
0.013384    0.983783    0.000896    0.001937    
0.068077    0.929549    0.000773    0.001602    
0.040830    0.933742    0.005283    0.020145    
0.730274    0.029225    0.145689    0.094812    
0.165032    0.572838    0.162001    0.100129    
0.383584    0.129942    0.429497    0.056977    
0.455959    0.071959    0.208204    0.263878    
0.134271    0.262985    0.222626    0.380117    
0.071193    0.346594    0.346081    0.236132    
0.445661    0.405278    0.053901    0.095160    
Consensus sequence: ABBBBVVRGACCACCCACRDBBM

Reverse complement motif
0.095160    0.405278    0.053901    0.445661    
0.071193    0.346081    0.346594    0.236132    
0.380117    0.262985    0.222626    0.134271    
0.263878    0.071959    0.208204    0.455959    
0.383584    0.429497    0.129942    0.056977    
0.165032    0.162001    0.572838    0.100129    
0.094812    0.029225    0.145689    0.730274    
0.040830    0.005283    0.933742    0.020145    
0.068077    0.000773    0.929549    0.001602    
0.013384    0.000896    0.983783    0.001937    
0.044684    0.190157    0.026399    0.738761    
0.001445    0.001925    0.991564    0.005066    
0.007128    0.000496    0.986862    0.005515    
0.000668    0.077034    0.031851    0.890447    
0.005634    0.972597    0.003422    0.018348    
0.006704    0.079656    0.338201    0.575438    
0.251088    0.374380    0.275516    0.099015    
0.212837    0.280990    0.439192    0.066980    
0.146090    0.412753    0.171890    0.269266    
0.402445    0.175735    0.256108    0.165713    
0.129726    0.243462    0.322735    0.304077    
0.171696    0.334148    0.262981    0.231174    
0.133594    0.180211    0.044767    0.641428    
Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Alignment:
ABBBBVVRGACCACCCACRDBBM
--VDBHMAGGTCACCCTGACCY-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Original Motif                          Original Motif                          Forward        4              20             0.074917       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
---VDBHMAGGTCACCCTGACCY

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Original Motif                          Original Motif                          Forward        2              20             0.075931       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BBBDVVRGACCACCCAVGABBAB
-VDBHMAGGTCACCCTGACCY--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Reverse Complement                      Reverse Complement                      Backward       3              20             0.076269       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
-MGGTCAGGGTGACCTRDBHV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Original Motif                          Original Motif                          Forward        1              20             0.078011       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
VDBHMAGGTCACCCTGACCY--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 54		Motif name: Esrrb

Original motif
0.290198    0.220264    0.271200    0.218337    
0.184941    0.227810    0.376477    0.210772    
0.115226    0.332236    0.331687    0.220850    
0.070959    0.342466    0.122740    0.463836    
0.084862    0.729264    0.171640    0.014235    
0.909737    0.008753    0.067834    0.013676    
0.975656    0.000547    0.016411    0.007385    
0.008758    0.001368    0.981390    0.008484    
0.005750    0.003286    0.986309    0.004655    
0.049904    0.012613    0.066904    0.870579    
0.002473    0.927473    0.046703    0.023352    
0.951569    0.005504    0.035498    0.007430    
Consensus sequence: VBBYCAAGGTCA

Reserve complement motif
0.007430    0.005504    0.035498    0.951569    
0.002473    0.046703    0.927473    0.023352    
0.870579    0.012613    0.066904    0.049904    
0.005750    0.986309    0.003286    0.004655    
0.008758    0.981390    0.001368    0.008484    
0.007385    0.000547    0.016411    0.975656    
0.013676    0.008753    0.067834    0.909737    
0.084862    0.171640    0.729264    0.014235    
0.463836    0.342466    0.122740    0.070959    
0.115226    0.331687    0.332236    0.220850    
0.184941    0.376477    0.227810    0.210772    
0.218337    0.220264    0.271200    0.290198    
Consensus sequence: TGACCTTGMBBB


************************************************************************ Best Matches for Motif ID 54 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Reverse Complement                      Reverse Complement                      Forward        6              12             0.000000       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
HHBVHTGACCTTGVDHD
-----TGACCTTGMBBB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Original Motif                          Original Motif                          Backward       5              12             0.020547       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
DHBHAAAGGTCAHVHB
VBBYCAAGGTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Original Motif                          Original Motif                          Forward        1              12             0.021437       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
VBBYCAAGGTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_secondary                    Reverse Complement                      Reverse Complement                      Forward        5              12             0.043076       

Species: Mus musculus

Original motif
0.195749    0.435700    0.196915    0.171636    
0.131070    0.131912    0.417834    0.319184    
0.238959    0.441529    0.174973    0.144539    
0.187749    0.189727    0.405849    0.216675    
0.006751    0.541370    0.182092    0.269787    
0.005388    0.590608    0.339869    0.064135    
0.088153    0.004666    0.902351    0.004830    
0.002459    0.004278    0.982637    0.010626    
0.003618    0.002504    0.985275    0.008602    
0.003325    0.004017    0.009244    0.983414    
0.002547    0.972864    0.005345    0.019244    
0.940260    0.002927    0.053632    0.003181    
0.222459    0.390569    0.251497    0.135475    
0.151824    0.258444    0.332866    0.256865    
0.175811    0.290583    0.232086    0.301520    
0.356690    0.198973    0.136050    0.308287    
Consensus sequence: VBVBCSGGGTCAVBBH

Reverse complement motif
0.308287    0.198973    0.136050    0.356690    
0.301520    0.290583    0.232086    0.175811    
0.151824    0.332866    0.258444    0.256865    
0.222459    0.251497    0.390569    0.135475    
0.003181    0.002927    0.053632    0.940260    
0.002547    0.005345    0.972864    0.019244    
0.983414    0.004017    0.009244    0.003325    
0.003618    0.985275    0.002504    0.008602    
0.002459    0.982637    0.004278    0.010626    
0.088153    0.902351    0.004666    0.004830    
0.005388    0.339869    0.590608    0.064135    
0.006751    0.182092    0.541370    0.269787    
0.187749    0.405849    0.189727    0.216675    
0.238959    0.174973    0.441529    0.144539    
0.131070    0.417834    0.131912    0.319184    
0.195749    0.196915    0.435700    0.171636    
Consensus sequence: HVBVTGACCCSGBVBV

Alignment:
HVBVTGACCCSGBVBV
----TGACCTTGMBBB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_primary                      Original Motif                          Original Motif                          Forward        1              12             0.045178       

Species: Mus musculus

Original motif
0.223704    0.280688    0.251889    0.243719    
0.198683    0.190981    0.267970    0.342366    
0.150012    0.319579    0.206063    0.324347    
0.274896    0.302572    0.238597    0.183935    
0.438853    0.331148    0.021186    0.208812    
0.133937    0.027342    0.832490    0.006231    
0.141462    0.002336    0.854359    0.001843    
0.003464    0.000753    0.987433    0.008349    
0.004388    0.000692    0.884494    0.110426    
0.003808    0.001605    0.016793    0.977794    
0.001992    0.976605    0.003739    0.017664    
0.881237    0.089981    0.026017    0.002764    
0.735041    0.106592    0.083260    0.075107    
0.164419    0.315518    0.181031    0.339032    
0.228285    0.176364    0.157583    0.437768    
0.233407    0.193567    0.327076    0.245951    
0.320479    0.312566    0.195701    0.171254    
Consensus sequence: BDBVMGGGGTCAABHDV

Reverse complement motif
0.171254    0.312566    0.195701    0.320479    
0.233407    0.327076    0.193567    0.245951    
0.437768    0.176364    0.157583    0.228285    
0.339032    0.315518    0.181031    0.164419    
0.075107    0.106592    0.083260    0.735041    
0.002764    0.089981    0.026017    0.881237    
0.001992    0.003739    0.976605    0.017664    
0.977794    0.001605    0.016793    0.003808    
0.004388    0.884494    0.000692    0.110426    
0.003464    0.987433    0.000753    0.008349    
0.141462    0.854359    0.002336    0.001843    
0.133937    0.832490    0.027342    0.006231    
0.208812    0.331148    0.021186    0.438853    
0.274896    0.238597    0.302572    0.183935    
0.324347    0.319579    0.206063    0.150012    
0.342366    0.190981    0.267970    0.198683    
0.223704    0.251889    0.280688    0.243719    
Consensus sequence: BHHVTTGACCCCYVVDB

Alignment:
BDBVMGGGGTCAABHDV
VBBYCAAGGTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_secondary                    Original Motif                          Original Motif                          Backward       6              12             0.048250       

Species: Mus musculus

Original motif
0.252126    0.268706    0.351590    0.127578    
0.158171    0.083434    0.389646    0.368749    
0.180010    0.290882    0.279192    0.249916    
0.206905    0.249360    0.275438    0.268296    
0.756588    0.046202    0.023921    0.173289    
0.018262    0.022596    0.949143    0.010000    
0.206468    0.046491    0.745475    0.001566    
0.005511    0.001141    0.983152    0.010196    
0.004791    0.001893    0.985951    0.007365    
0.027643    0.001133    0.008565    0.962659    
0.002459    0.970934    0.007826    0.018780    
0.924387    0.003164    0.071225    0.001224    
0.419387    0.230189    0.111588    0.238836    
0.290954    0.163823    0.341233    0.203991    
0.196768    0.281307    0.313868    0.208056    
0.128428    0.260428    0.378607    0.232537    
0.269305    0.378895    0.123480    0.228320    
Consensus sequence: VKBBAGGGGTCAHDBBH

Reverse complement motif
0.269305    0.123480    0.378895    0.228320    
0.128428    0.378607    0.260428    0.232537    
0.196768    0.313868    0.281307    0.208056    
0.290954    0.341233    0.163823    0.203991    
0.238836    0.230189    0.111588    0.419387    
0.001224    0.003164    0.071225    0.924387    
0.002459    0.007826    0.970934    0.018780    
0.962659    0.001133    0.008565    0.027643    
0.004791    0.985951    0.001893    0.007365    
0.005511    0.983152    0.001141    0.010196    
0.206468    0.745475    0.046491    0.001566    
0.018262    0.949143    0.022596    0.010000    
0.173289    0.046202    0.023921    0.756588    
0.206905    0.275438    0.249360    0.268296    
0.180010    0.279192    0.290882    0.249916    
0.158171    0.389646    0.083434    0.368749    
0.252126    0.351590    0.268706    0.127578    
Consensus sequence: DBBHHTGACCCCTBBYV

Alignment:
VKBBAGGGGTCAHDBBH
VBBYCAAGGTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Reverse Complement                      Original Motif                          Backward       1              12             0.049902       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
DBHBDTGACCCCDHVHB
-----TGACCTTGMBBB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Reverse Complement                      Reverse Complement                      Forward        8              12             0.052535       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-------TGACCTTGMBBB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Reverse Complement                      Reverse Complement                      Backward       1              12             0.058055       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
HHAYTGGACTTTHDBV
----TGACCTTGMBBB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Reverse Complement                      Reverse Complement                      Forward        9              12             0.060974       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
--------TGACCTTGMBBB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 55		Motif name: ZEB1

Original motif
0.024390    0.829268    0.024390    0.121951    
0.926829    0.000000    0.048780    0.024390    
0.000000    0.975610    0.024390    0.000000    
0.000000    0.926829    0.073171    0.000000    
0.000000    0.024390    0.000000    0.975610    
0.243902    0.024390    0.390244    0.341463    
Consensus sequence: CACCTD

Reserve complement motif
0.243902    0.390244    0.024390    0.341463    
0.975610    0.024390    0.000000    0.000000    
0.000000    0.073171    0.926829    0.000000    
0.000000    0.024390    0.975610    0.000000    
0.024390    0.000000    0.048780    0.926829    
0.024390    0.024390    0.829268    0.121951    
Consensus sequence: HAGGTG


************************************************************************ Best Matches for Motif ID 55 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_secondary                    Original Motif                          Reverse Complement                      Backward       4              6              0.000000       

Species: Mus musculus

Original motif
0.253642    0.252604    0.298295    0.195458    
0.112892    0.341342    0.341061    0.204704    
0.297430    0.215095    0.343350    0.144125    
0.241098    0.129378    0.421448    0.208076    
0.894201    0.007299    0.061032    0.037468    
0.052259    0.054303    0.856609    0.036829    
0.005074    0.015048    0.966734    0.013144    
0.003258    0.061529    0.002368    0.932845    
0.017531    0.005025    0.973155    0.004289    
0.116022    0.030172    0.047139    0.806667    
0.027749    0.602513    0.009946    0.359792    
0.018763    0.048982    0.794648    0.137608    
0.177116    0.459591    0.284833    0.078460    
0.121483    0.491485    0.148745    0.238287    
0.152590    0.245835    0.214717    0.386857    
0.221040    0.320773    0.249918    0.208270    
Consensus sequence: VBVDAGGTGTYGVBBV

Reverse complement motif
0.221040    0.249918    0.320773    0.208270    
0.386857    0.245835    0.214717    0.152590    
0.121483    0.148745    0.491485    0.238287    
0.177116    0.284833    0.459591    0.078460    
0.018763    0.794648    0.048982    0.137608    
0.027749    0.009946    0.602513    0.359792    
0.806667    0.030172    0.047139    0.116022    
0.017531    0.973155    0.005025    0.004289    
0.932845    0.061529    0.002368    0.003258    
0.005074    0.966734    0.015048    0.013144    
0.052259    0.856609    0.054303    0.036829    
0.037468    0.007299    0.061032    0.894201    
0.241098    0.421448    0.129378    0.208076    
0.297430    0.343350    0.215095    0.144125    
0.112892    0.341061    0.341342    0.204704    
0.253642    0.298295    0.252604    0.195458    
Consensus sequence: VVBVCKACACCTHVBV

Alignment:
VVBVCKACACCTHVBV
-------CACCTD---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00199        Six4                               Reverse Complement                      Reverse Complement                      Forward        4              6              0.004331       

Species: Mus musculus

Original motif
0.523054    0.168817    0.140331    0.167798    
0.187385    0.177009    0.246164    0.389442    
0.414492    0.118547    0.308876    0.158085    
0.345234    0.289795    0.130249    0.234723    
0.611522    0.116948    0.098944    0.172586    
0.016342    0.029436    0.015062    0.939161    
0.014351    0.004796    0.962435    0.018418    
0.987454    0.005228    0.002590    0.004727    
0.007431    0.812214    0.005849    0.174506    
0.969354    0.025386    0.002362    0.002898    
0.005123    0.989068    0.003362    0.002447    
0.001424    0.969981    0.012011    0.016585    
0.209729    0.227411    0.210523    0.352337    
0.341679    0.297940    0.104590    0.255792    
0.126190    0.288862    0.245018    0.339930    
0.173008    0.295896    0.252422    0.278674    
0.409639    0.210750    0.296197    0.083415    
Consensus sequence: ADDHATGACACCBHBBV

Reverse complement motif
0.083415    0.210750    0.296197    0.409639    
0.173008    0.252422    0.295896    0.278674    
0.339930    0.288862    0.245018    0.126190    
0.255792    0.297940    0.104590    0.341679    
0.352337    0.227411    0.210523    0.209729    
0.001424    0.012011    0.969981    0.016585    
0.005123    0.003362    0.989068    0.002447    
0.002898    0.025386    0.002362    0.969354    
0.007431    0.005849    0.812214    0.174506    
0.004727    0.005228    0.002590    0.987454    
0.014351    0.962435    0.004796    0.018418    
0.939161    0.029436    0.015062    0.016342    
0.172586    0.116948    0.098944    0.611522    
0.234723    0.289795    0.130249    0.345234    
0.158085    0.118547    0.308876    0.414492    
0.389442    0.177009    0.246164    0.187385    
0.167798    0.168817    0.140331    0.523054    
Consensus sequence: BBVHVGGTGTCATHDDT

Alignment:
BBVHVGGTGTCATHDDT
---HAGGTG--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_primary                      Original Motif                          Reverse Complement                      Forward        9              6              0.005241       

Species: Mus musculus

Original motif
0.186316    0.215541    0.297644    0.300499    
0.300381    0.234276    0.266283    0.199061    
0.317841    0.211418    0.183235    0.287507    
0.482598    0.095323    0.245062    0.177017    
0.654197    0.008988    0.261951    0.074864    
0.095656    0.022883    0.843364    0.038097    
0.002655    0.008355    0.976390    0.012600    
0.003287    0.080755    0.001057    0.914900    
0.006753    0.001517    0.989917    0.001813    
0.039940    0.098800    0.003305    0.857955    
0.009015    0.039036    0.844029    0.107921    
0.984070    0.002369    0.008852    0.004709    
0.789505    0.101528    0.029294    0.079672    
0.649685    0.139882    0.090466    0.119966    
0.421759    0.205595    0.073074    0.299573    
0.214779    0.290522    0.134050    0.360649    
0.202141    0.270323    0.176798    0.350738    
Consensus sequence: BVHDAGGTGTGAAAHHH

Reverse complement motif
0.350738    0.270323    0.176798    0.202141    
0.360649    0.290522    0.134050    0.214779    
0.299573    0.205595    0.073074    0.421759    
0.119966    0.139882    0.090466    0.649685    
0.079672    0.101528    0.029294    0.789505    
0.004709    0.002369    0.008852    0.984070    
0.009015    0.844029    0.039036    0.107921    
0.857955    0.098800    0.003305    0.039940    
0.006753    0.989917    0.001517    0.001813    
0.914900    0.080755    0.001057    0.003287    
0.002655    0.976390    0.008355    0.012600    
0.095656    0.843364    0.022883    0.038097    
0.074864    0.008988    0.261951    0.654197    
0.177017    0.095323    0.245062    0.482598    
0.287507    0.211418    0.183235    0.317841    
0.199061    0.234276    0.266283    0.300381    
0.300499    0.215541    0.297644    0.186316    
Consensus sequence: HHHTTTCACACCTDHBV

Alignment:
HHHTTTCACACCTDHBV
--------CACCTD---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_primary                     Original Motif                          Reverse Complement                      Forward        7              6              0.009113       

Species: Mus musculus

Original motif
0.306209    0.232705    0.244475    0.216611    
0.165668    0.171480    0.222584    0.440269    
0.213008    0.429038    0.156385    0.201569    
0.283226    0.329518    0.160795    0.226461    
0.439156    0.283517    0.251270    0.026056    
0.014994    0.980987    0.000714    0.003304    
0.975741    0.020182    0.002909    0.001168    
0.000926    0.191353    0.801648    0.006073    
0.015382    0.090853    0.893043    0.000721    
0.001549    0.005912    0.001713    0.990826    
0.004000    0.000857    0.989667    0.005475    
0.016957    0.663726    0.148127    0.171190    
0.299047    0.091156    0.448649    0.161148    
0.354701    0.214677    0.236757    0.193865    
0.399446    0.174508    0.200036    0.226009    
0.303545    0.277435    0.200094    0.218926    
0.380242    0.148876    0.163367    0.307514    
Consensus sequence: VBHHVCAGGTGCDVDHD

Reverse complement motif
0.307514    0.148876    0.163367    0.380242    
0.218926    0.277435    0.200094    0.303545    
0.226009    0.174508    0.200036    0.399446    
0.193865    0.214677    0.236757    0.354701    
0.299047    0.448649    0.091156    0.161148    
0.016957    0.148127    0.663726    0.171190    
0.004000    0.989667    0.000857    0.005475    
0.990826    0.005912    0.001713    0.001549    
0.015382    0.893043    0.090853    0.000721    
0.000926    0.801648    0.191353    0.006073    
0.001168    0.020182    0.002909    0.975741    
0.014994    0.000714    0.980987    0.003304    
0.026056    0.283517    0.251270    0.439156    
0.283226    0.160795    0.329518    0.226461    
0.213008    0.156385    0.429038    0.201569    
0.440269    0.171480    0.222584    0.165668    
0.216611    0.232705    0.244475    0.306209    
Consensus sequence: DHDBHGCACCTGBDDVB

Alignment:
DHDBHGCACCTGBDDVB
------CACCTD-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00047        Zbtb7b_secondary                   Original Motif                          Original Motif                          Backward       4              6              0.023356       

Species: Mus musculus

Original motif
0.203365    0.307129    0.203712    0.285795    
0.306328    0.182359    0.203143    0.308170    
0.220878    0.174035    0.265341    0.339746    
0.475421    0.085294    0.281054    0.158231    
0.395971    0.330114    0.260810    0.013104    
0.001970    0.006366    0.962058    0.029606    
0.907785    0.081900    0.001279    0.009036    
0.008745    0.981422    0.002970    0.006863    
0.006791    0.966163    0.017605    0.009441    
0.894233    0.081139    0.004949    0.019679    
0.007553    0.970771    0.004892    0.016783    
0.016719    0.797465    0.011842    0.173974    
0.415678    0.189952    0.165207    0.229163    
0.092707    0.182206    0.346121    0.378967    
0.175722    0.130498    0.215118    0.478662    
0.365762    0.163282    0.315788    0.155168    
0.214734    0.272805    0.243194    0.269267    
Consensus sequence: BDDRVGACCACCHBDVB

Reverse complement motif
0.214734    0.243194    0.272805    0.269267    
0.155168    0.163282    0.315788    0.365762    
0.478662    0.130498    0.215118    0.175722    
0.378967    0.182206    0.346121    0.092707    
0.229163    0.189952    0.165207    0.415678    
0.016719    0.011842    0.797465    0.173974    
0.007553    0.004892    0.970771    0.016783    
0.019679    0.081139    0.004949    0.894233    
0.006791    0.017605    0.966163    0.009441    
0.008745    0.002970    0.981422    0.006863    
0.009036    0.081900    0.001279    0.907785    
0.001970    0.962058    0.006366    0.029606    
0.013104    0.330114    0.260810    0.395971    
0.158231    0.085294    0.281054    0.475421    
0.339746    0.174035    0.265341    0.220878    
0.308170    0.182359    0.203143    0.306328    
0.203365    0.203712    0.307129    0.285795    
Consensus sequence: BBDVHGGTGGTCBKDDB

Alignment:
BDDRVGACCACCHBDVB
--------CACCTD---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Original Motif                          Backward       11             6              0.023393       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-------HAGGTG----------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Original Motif                          Original Motif                          Forward        12             6              0.025434       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
HTBVVVDGGACCACCCRGRDBG
-----------CACCTD-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Original Motif                          Original Motif                          Backward       6              6              0.029014       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
HDGHHBHRGACCACCCGSVDVG
-----------CACCTD-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00036        Myf6_primary                       Reverse Complement                      Original Motif                          Forward        7              6              0.030967       

Species: Mus musculus

Original motif
0.249543    0.203739    0.394131    0.152587    
0.349361    0.204136    0.321767    0.124736    
0.386930    0.174655    0.250284    0.188131    
0.173937    0.233501    0.412360    0.180201    
0.663624    0.037653    0.264216    0.034507    
0.717265    0.040761    0.206656    0.035318    
0.004176    0.985948    0.003219    0.006657    
0.967612    0.005543    0.008604    0.018241    
0.080781    0.089857    0.746009    0.083354    
0.019831    0.270961    0.409808    0.299401    
0.019877    0.026996    0.014022    0.939105    
0.005169    0.007980    0.978334    0.008518    
0.115710    0.200514    0.226485    0.457291    
0.032392    0.527196    0.128372    0.312041    
0.202049    0.384912    0.106488    0.306551    
0.181994    0.192975    0.425582    0.199448    
Consensus sequence: VVDBAACAGBTGBYHB

Reverse complement motif
0.181994    0.425582    0.192975    0.199448    
0.202049    0.106488    0.384912    0.306551    
0.032392    0.128372    0.527196    0.312041    
0.457291    0.200514    0.226485    0.115710    
0.005169    0.978334    0.007980    0.008518    
0.939105    0.026996    0.014022    0.019877    
0.019831    0.409808    0.270961    0.299401    
0.080781    0.746009    0.089857    0.083354    
0.018241    0.005543    0.008604    0.967612    
0.004176    0.003219    0.985948    0.006657    
0.035318    0.040761    0.206656    0.717265    
0.034507    0.037653    0.264216    0.663624    
0.173937    0.412360    0.233501    0.180201    
0.188131    0.174655    0.250284    0.386930    
0.124736    0.204136    0.321767    0.349361    
0.249543    0.394131    0.203739    0.152587    
Consensus sequence: BDKVCABCTGTTBDBV

Alignment:
VVDBAACAGBTGBYHB
------HAGGTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00249        Nkx2-5                             Original Motif                          Original Motif                          Forward        6              6              0.031502       

Species: Mus musculus

Original motif
0.284346    0.280937    0.138180    0.296538    
0.399663    0.110464    0.327481    0.162392    
0.637560    0.029806    0.218321    0.114314    
0.184898    0.144379    0.370828    0.299895    
0.017459    0.862111    0.118223    0.002207    
0.001004    0.958164    0.000888    0.039945    
0.947796    0.011499    0.000413    0.040291    
0.024268    0.973476    0.000709    0.001546    
0.002616    0.001901    0.003337    0.992147    
0.006742    0.071290    0.000276    0.921691    
0.393078    0.093424    0.490620    0.022879    
0.870162    0.007294    0.051952    0.070591    
0.632449    0.156278    0.172644    0.038628    
0.362798    0.126579    0.085796    0.424828    
0.132810    0.206405    0.025084    0.635702    
0.094708    0.272324    0.087702    0.545267    
Consensus sequence: HDADCCACTTRAAWTT

Reverse complement motif
0.545267    0.272324    0.087702    0.094708    
0.635702    0.206405    0.025084    0.132810    
0.424828    0.126579    0.085796    0.362798    
0.038628    0.156278    0.172644    0.632449    
0.070591    0.007294    0.051952    0.870162    
0.393078    0.490620    0.093424    0.022879    
0.921691    0.071290    0.000276    0.006742    
0.992147    0.001901    0.003337    0.002616    
0.024268    0.000709    0.973476    0.001546    
0.040291    0.011499    0.000413    0.947796    
0.001004    0.000888    0.958164    0.039945    
0.017459    0.118223    0.862111    0.002207    
0.184898    0.370828    0.144379    0.299895    
0.114314    0.029806    0.218321    0.637560    
0.162392    0.110464    0.327481    0.399663    
0.296538    0.280937    0.138180    0.284346    
Consensus sequence: AAWTTMAAGTGGHTDH

Alignment:
HDADCCACTTRAAWTT
-----CACCTD-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 56		Motif name: Mycn

Original motif
0.349315    0.363014    0.143836    0.143836    
0.089041    0.388128    0.447489    0.075342    
0.015982    0.984018    0.000000    0.000000    
0.945205    0.000000    0.041096    0.013699    
0.000000    0.961187    0.018265    0.020548    
0.070776    0.002283    0.924658    0.002283    
0.054795    0.221461    0.004566    0.719178    
0.000000    0.000000    0.938356    0.061644    
0.061644    0.111872    0.739726    0.086758    
0.139269    0.605023    0.091324    0.164384    
Consensus sequence: HSCACGTGGC

Reserve complement motif
0.139269    0.091324    0.605023    0.164384    
0.061644    0.739726    0.111872    0.086758    
0.000000    0.938356    0.000000    0.061644    
0.719178    0.221461    0.004566    0.054795    
0.070776    0.924658    0.002283    0.002283    
0.000000    0.018265    0.961187    0.020548    
0.013699    0.000000    0.041096    0.945205    
0.015982    0.000000    0.984018    0.000000    
0.089041    0.447489    0.388128    0.075342    
0.349315    0.143836    0.363014    0.143836    
Consensus sequence: GCCACGTGSD


************************************************************************ Best Matches for Motif ID 56 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00060        Max_primary                        Original Motif                          Original Motif                          Forward        3              10             0.000000       

Species: Mus musculus

Original motif
0.234855    0.152539    0.301720    0.310886    
0.199226    0.147959    0.439250    0.213565    
0.582926    0.274768    0.075866    0.066440    
0.138829    0.475428    0.305884    0.079859    
0.024979    0.969691    0.001811    0.003520    
0.966345    0.003728    0.022320    0.007607    
0.000598    0.907006    0.008160    0.084236    
0.084236    0.008160    0.907006    0.000598    
0.007607    0.022320    0.003728    0.966345    
0.003520    0.001811    0.969691    0.024979    
0.149140    0.241218    0.389598    0.220044    
0.066440    0.075866    0.274768    0.582926    
0.186990    0.346199    0.250066    0.216745    
0.273437    0.225889    0.300738    0.199936    
0.160893    0.111177    0.477963    0.249968    
0.171790    0.101256    0.424580    0.302375    
Consensus sequence: DDASCACGTGBTBVDD

Reverse complement motif
0.171790    0.424580    0.101256    0.302375    
0.160893    0.477963    0.111177    0.249968    
0.273437    0.300738    0.225889    0.199936    
0.186990    0.250066    0.346199    0.216745    
0.582926    0.075866    0.274768    0.066440    
0.149140    0.389598    0.241218    0.220044    
0.003520    0.969691    0.001811    0.024979    
0.966345    0.022320    0.003728    0.007607    
0.084236    0.907006    0.008160    0.000598    
0.000598    0.008160    0.907006    0.084236    
0.007607    0.003728    0.022320    0.966345    
0.024979    0.001811    0.969691    0.003520    
0.138829    0.305884    0.475428    0.079859    
0.066440    0.274768    0.075866    0.582926    
0.199226    0.439250    0.147959    0.213565    
0.310886    0.152539    0.301720    0.234855    
Consensus sequence: HHVBABCACGTGSTHD

Alignment:
DDASCACGTGBTBVDD
--HSCACGTGGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Reverse Complement                      Reverse Complement                      Backward       7              10             0.007838       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
-------GCCACGTGSD------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_primary                     Reverse Complement                      Reverse Complement                      Backward       7              10             0.013286       

Species: Mus musculus

Original motif
0.347837    0.112349    0.403713    0.136102    
0.298329    0.175329    0.324534    0.201809    
0.421791    0.222553    0.113615    0.242041    
0.387506    0.130670    0.161435    0.320389    
0.197183    0.244864    0.304611    0.253342    
0.345884    0.188786    0.278290    0.187041    
0.228203    0.142148    0.408269    0.221381    
0.037126    0.006772    0.231775    0.724328    
0.055214    0.942800    0.001192    0.000794    
0.974119    0.004466    0.015535    0.005880    
0.000300    0.958145    0.007498    0.034056    
0.034056    0.007498    0.958145    0.000300    
0.005880    0.015535    0.004466    0.974119    
0.000794    0.001192    0.942800    0.055214    
0.724328    0.231775    0.006772    0.037126    
0.015720    0.466476    0.315208    0.202596    
0.173670    0.355170    0.210710    0.260449    
0.407419    0.261539    0.134430    0.196612    
0.351478    0.209698    0.262426    0.176399    
0.207869    0.284582    0.198951    0.308598    
0.434482    0.113724    0.184408    0.267386    
0.211144    0.363745    0.173978    0.251133    
Consensus sequence: RDHDBVDTCACGTGASBHVHDH

Reverse complement motif
0.211144    0.173978    0.363745    0.251133    
0.267386    0.113724    0.184408    0.434482    
0.308598    0.284582    0.198951    0.207869    
0.176399    0.209698    0.262426    0.351478    
0.196612    0.261539    0.134430    0.407419    
0.173670    0.210710    0.355170    0.260449    
0.015720    0.315208    0.466476    0.202596    
0.037126    0.231775    0.006772    0.724328    
0.000794    0.942800    0.001192    0.055214    
0.974119    0.015535    0.004466    0.005880    
0.034056    0.958145    0.007498    0.000300    
0.000300    0.007498    0.958145    0.034056    
0.005880    0.004466    0.015535    0.974119    
0.055214    0.001192    0.942800    0.000794    
0.724328    0.006772    0.231775    0.037126    
0.228203    0.408269    0.142148    0.221381    
0.187041    0.188786    0.278290    0.345884    
0.197183    0.304611    0.244864    0.253342    
0.320389    0.130670    0.161435    0.387506    
0.242041    0.222553    0.113615    0.421791    
0.298329    0.324534    0.175329    0.201809    
0.347837    0.403713    0.112349    0.136102    
Consensus sequence: DDHBHBSTCACGTGAHBBDHHM

Alignment:
DDHBHBSTCACGTGAHBBDHHM
------GCCACGTGSD------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_primary                     Reverse Complement                      Original Motif                          Backward       5              10             0.022793       

Species: Mus musculus

Original motif
0.306209    0.232705    0.244475    0.216611    
0.165668    0.171480    0.222584    0.440269    
0.213008    0.429038    0.156385    0.201569    
0.283226    0.329518    0.160795    0.226461    
0.439156    0.283517    0.251270    0.026056    
0.014994    0.980987    0.000714    0.003304    
0.975741    0.020182    0.002909    0.001168    
0.000926    0.191353    0.801648    0.006073    
0.015382    0.090853    0.893043    0.000721    
0.001549    0.005912    0.001713    0.990826    
0.004000    0.000857    0.989667    0.005475    
0.016957    0.663726    0.148127    0.171190    
0.299047    0.091156    0.448649    0.161148    
0.354701    0.214677    0.236757    0.193865    
0.399446    0.174508    0.200036    0.226009    
0.303545    0.277435    0.200094    0.218926    
0.380242    0.148876    0.163367    0.307514    
Consensus sequence: VBHHVCAGGTGCDVDHD

Reverse complement motif
0.307514    0.148876    0.163367    0.380242    
0.218926    0.277435    0.200094    0.303545    
0.226009    0.174508    0.200036    0.399446    
0.193865    0.214677    0.236757    0.354701    
0.299047    0.448649    0.091156    0.161148    
0.016957    0.148127    0.663726    0.171190    
0.004000    0.989667    0.000857    0.005475    
0.990826    0.005912    0.001713    0.001549    
0.015382    0.893043    0.090853    0.000721    
0.000926    0.801648    0.191353    0.006073    
0.001168    0.020182    0.002909    0.975741    
0.014994    0.000714    0.980987    0.003304    
0.026056    0.283517    0.251270    0.439156    
0.283226    0.160795    0.329518    0.226461    
0.213008    0.156385    0.429038    0.201569    
0.440269    0.171480    0.222584    0.165668    
0.216611    0.232705    0.244475    0.306209    
Consensus sequence: DHDBHGCACCTGBDDVB

Alignment:
VBHHVCAGGTGCDVDHD
---GCCACGTGSD----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00060        Max_secondary                      Original Motif                          Original Motif                          Forward        3              10             0.025701       

Species: Mus musculus

Original motif
0.127991    0.202889    0.399822    0.269298    
0.156940    0.244015    0.182364    0.416681    
0.046494    0.050598    0.744311    0.158596    
0.196142    0.365183    0.183389    0.255286    
0.019306    0.946805    0.015210    0.018680    
0.924839    0.022113    0.027620    0.025428    
0.007478    0.672138    0.027789    0.292595    
0.046702    0.026044    0.906146    0.021107    
0.117335    0.610863    0.025132    0.246670    
0.044431    0.053581    0.722748    0.179240    
0.543713    0.149809    0.190030    0.116447    
0.241148    0.722386    0.022547    0.013919    
0.265412    0.113032    0.270602    0.350954    
0.226186    0.143504    0.332746    0.297564    
Consensus sequence: BBGHCACGCGACDD

Reverse complement motif
0.226186    0.332746    0.143504    0.297564    
0.350954    0.113032    0.270602    0.265412    
0.241148    0.022547    0.722386    0.013919    
0.116447    0.149809    0.190030    0.543713    
0.044431    0.722748    0.053581    0.179240    
0.117335    0.025132    0.610863    0.246670    
0.046702    0.906146    0.026044    0.021107    
0.007478    0.027789    0.672138    0.292595    
0.025428    0.022113    0.027620    0.924839    
0.019306    0.015210    0.946805    0.018680    
0.196142    0.183389    0.365183    0.255286    
0.046494    0.744311    0.050598    0.158596    
0.416681    0.244015    0.182364    0.156940    
0.127991    0.399822    0.202889    0.269298    
Consensus sequence: HDGTCGCGTGDCVB

Alignment:
BBGHCACGCGACDD
--HSCACGTGGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00165        Titf1                              Reverse Complement                      Original Motif                          Backward       4              10             0.034483       

Species: Mus musculus

Original motif
0.142834    0.324493    0.147276    0.385397    
0.404842    0.233186    0.227659    0.134313    
0.677580    0.044952    0.178774    0.098695    
0.137761    0.202622    0.469728    0.189889    
0.069301    0.825888    0.093549    0.011262    
0.003882    0.876858    0.000966    0.118295    
0.904355    0.015154    0.001043    0.079449    
0.018912    0.977464    0.001207    0.002417    
0.003517    0.004393    0.002428    0.989662    
0.007151    0.162279    0.000584    0.829986    
0.192074    0.120883    0.670840    0.016203    
0.881358    0.002039    0.013253    0.103349    
0.450016    0.333144    0.184121    0.032719    
0.342018    0.321148    0.066945    0.269889    
0.209486    0.122118    0.046367    0.622029    
0.174564    0.145894    0.048004    0.631539    
Consensus sequence: BVABCCACTTGAMHTT

Reverse complement motif
0.631539    0.145894    0.048004    0.174564    
0.622029    0.122118    0.046367    0.209486    
0.269889    0.321148    0.066945    0.342018    
0.032719    0.333144    0.184121    0.450016    
0.103349    0.002039    0.013253    0.881358    
0.192074    0.670840    0.120883    0.016203    
0.829986    0.162279    0.000584    0.007151    
0.989662    0.004393    0.002428    0.003517    
0.018912    0.001207    0.977464    0.002417    
0.079449    0.015154    0.001043    0.904355    
0.003882    0.000966    0.876858    0.118295    
0.069301    0.093549    0.825888    0.011262    
0.137761    0.469728    0.202622    0.189889    
0.098695    0.044952    0.178774    0.677580    
0.134313    0.233186    0.227659    0.404842    
0.385397    0.324493    0.147276    0.142834    
Consensus sequence: AAHYTCAAGTGGBTBV

Alignment:
BVABCCACTTGAMHTT
---GCCACGTGSD---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00231        Nkx2-2                             Reverse Complement                      Original Motif                          Backward       5              10             0.035228       

Species: Mus musculus

Original motif
0.299323    0.258429    0.141957    0.300291    
0.267631    0.143882    0.146933    0.441554    
0.482614    0.212022    0.233631    0.071733    
0.430836    0.073912    0.334439    0.160813    
0.124944    0.704331    0.166815    0.003910    
0.001941    0.876479    0.000828    0.120752    
0.920202    0.005985    0.000456    0.073357    
0.023544    0.974093    0.000859    0.001505    
0.005010    0.003098    0.001328    0.990564    
0.003250    0.198149    0.000490    0.798110    
0.134659    0.104976    0.753464    0.006901    
0.932490    0.000724    0.006140    0.060646    
0.504530    0.106203    0.360995    0.028271    
0.673257    0.074893    0.106536    0.145314    
0.356324    0.097610    0.230142    0.315924    
0.129483    0.188353    0.203623    0.478542    
0.289071    0.157675    0.231909    0.321345    
Consensus sequence: HDVRCCACTTGARADBD

Reverse complement motif
0.321345    0.157675    0.231909    0.289071    
0.478542    0.188353    0.203623    0.129483    
0.315924    0.097610    0.230142    0.356324    
0.145314    0.074893    0.106536    0.673257    
0.028271    0.106203    0.360995    0.504530    
0.060646    0.000724    0.006140    0.932490    
0.134659    0.753464    0.104976    0.006901    
0.798110    0.198149    0.000490    0.003250    
0.990564    0.003098    0.001328    0.005010    
0.023544    0.000859    0.974093    0.001505    
0.073357    0.005985    0.000456    0.920202    
0.001941    0.000828    0.876479    0.120752    
0.124944    0.166815    0.704331    0.003910    
0.160813    0.073912    0.334439    0.430836    
0.071733    0.212022    0.233631    0.482614    
0.441554    0.143882    0.146933    0.267631    
0.300291    0.258429    0.141957    0.299323    
Consensus sequence: DVDTKTCAAGTGGKBDH

Alignment:
HDVRCCACTTGARADBD
---GCCACGTGSD----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00084        Gmeb1_primary                      Reverse Complement                      Reverse Complement                      Backward       4              10             0.035858       

Species: Mus musculus

Original motif
0.166569    0.264627    0.345569    0.223235    
0.335599    0.314451    0.153336    0.196615    
0.105350    0.231839    0.348018    0.314793    
0.131274    0.215623    0.291288    0.361815    
0.125570    0.072341    0.404848    0.397242    
0.049879    0.039110    0.325167    0.585844    
0.705098    0.009202    0.284757    0.000943    
0.003535    0.986983    0.004275    0.005207    
0.005207    0.004275    0.986983    0.003535    
0.000943    0.284757    0.009202    0.705098    
0.585844    0.325167    0.039110    0.049879    
0.397242    0.404848    0.072341    0.125570    
0.206857    0.234555    0.371731    0.186857    
0.435957    0.145115    0.181033    0.237896    
0.176104    0.260127    0.230770    0.333000    
0.272102    0.213365    0.312032    0.202501    
0.237402    0.250982    0.266977    0.244639    
Consensus sequence: BHBBKKACGTMMVDBVB

Reverse complement motif
0.237402    0.266977    0.250982    0.244639    
0.272102    0.312032    0.213365    0.202501    
0.333000    0.260127    0.230770    0.176104    
0.237896    0.145115    0.181033    0.435957    
0.206857    0.371731    0.234555    0.186857    
0.397242    0.072341    0.404848    0.125570    
0.049879    0.325167    0.039110    0.585844    
0.705098    0.284757    0.009202    0.000943    
0.005207    0.986983    0.004275    0.003535    
0.003535    0.004275    0.986983    0.005207    
0.000943    0.009202    0.284757    0.705098    
0.585844    0.039110    0.325167    0.049879    
0.125570    0.404848    0.072341    0.397242    
0.361815    0.215623    0.291288    0.131274    
0.105350    0.348018    0.231839    0.314793    
0.196615    0.314451    0.153336    0.335599    
0.166569    0.345569    0.264627    0.223235    
Consensus sequence: BVVDVRYACGTRYVBHB

Alignment:
BVVDVRYACGTRYVBHB
----GCCACGTGSD---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00084        Gmeb1_secondary                    Original Motif                          Reverse Complement                      Forward        4              10             0.037250       

Species: Mus musculus

Original motif
0.171801    0.139045    0.265726    0.423428    
0.146597    0.118316    0.577770    0.157317    
0.247220    0.191958    0.432935    0.127887    
0.119277    0.232191    0.394786    0.253747    
0.227546    0.664338    0.016991    0.091125    
0.271290    0.146819    0.518707    0.063184    
0.693351    0.120942    0.066863    0.118844    
0.041459    0.895990    0.042253    0.020298    
0.020298    0.042253    0.895990    0.041459    
0.118844    0.066863    0.120942    0.693351    
0.063184    0.518707    0.146819    0.271290    
0.091125    0.016991    0.664338    0.227546    
0.122589    0.186959    0.078274    0.612178    
0.103039    0.274719    0.113320    0.508922    
0.375945    0.289040    0.127861    0.207153    
0.429989    0.189120    0.110127    0.270765    
Consensus sequence: DGVBCRACGTYGTYHH

Reverse complement motif
0.270765    0.189120    0.110127    0.429989    
0.207153    0.289040    0.127861    0.375945    
0.508922    0.274719    0.113320    0.103039    
0.612178    0.186959    0.078274    0.122589    
0.091125    0.664338    0.016991    0.227546    
0.063184    0.146819    0.518707    0.271290    
0.693351    0.066863    0.120942    0.118844    
0.020298    0.895990    0.042253    0.041459    
0.041459    0.042253    0.895990    0.020298    
0.118844    0.120942    0.066863    0.693351    
0.271290    0.518707    0.146819    0.063184    
0.227546    0.016991    0.664338    0.091125    
0.119277    0.394786    0.232191    0.253747    
0.247220    0.432935    0.191958    0.127887    
0.146597    0.577770    0.118316    0.157317    
0.423428    0.139045    0.265726    0.171801    
Consensus sequence: HHMACKACGTMGBVCD

Alignment:
HHMACKACGTMGBVCD
---HSCACGTGGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Original Motif                          Original Motif                          Forward        7              10             0.038319       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
WHVBVVMACGCGCGTCDYHWDH
------HSCACGTGGC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 57		Motif name: REST

Original motif
0.132621    0.109365    0.230044    0.527970    
0.036318    0.168441    0.091421    0.703820    
0.047589    0.855354    0.031309    0.065748    
0.906367    0.018727    0.058677    0.016230    
0.021197    0.027431    0.945137    0.006234    
0.076012    0.609346    0.201246    0.113396    
0.980697    0.004359    0.007472    0.007472    
0.001868    0.987547    0.007472    0.003113    
0.021793    0.922167    0.012453    0.043587    
0.568847    0.125234    0.100935    0.204984    
0.136534    0.233791    0.077307    0.552369    
0.024314    0.004364    0.966958    0.004364    
0.012469    0.003117    0.983167    0.001247    
0.877105    0.069869    0.021210    0.031815    
0.008125    0.800000    0.145625    0.046250    
0.983750    0.005625    0.004375    0.006250    
0.026349    0.008156    0.959849    0.005646    
0.128688    0.632141    0.114878    0.124294    
0.229899    0.019472    0.432161    0.318467    
0.133962    0.586792    0.200629    0.078616    
0.112579    0.700629    0.023270    0.163522    
Consensus sequence: TTCAGCACCATGGACAGCKCC

Reserve complement motif
0.112579    0.023270    0.700629    0.163522    
0.133962    0.200629    0.586792    0.078616    
0.229899    0.432161    0.019472    0.318467    
0.128688    0.114878    0.632141    0.124294    
0.026349    0.959849    0.008156    0.005646    
0.006250    0.005625    0.004375    0.983750    
0.008125    0.145625    0.800000    0.046250    
0.031815    0.069869    0.021210    0.877105    
0.012469    0.983167    0.003117    0.001247    
0.024314    0.966958    0.004364    0.004364    
0.552369    0.233791    0.077307    0.136534    
0.204984    0.125234    0.100935    0.568847    
0.021793    0.012453    0.922167    0.043587    
0.001868    0.007472    0.987547    0.003113    
0.007472    0.004359    0.007472    0.980697    
0.076012    0.201246    0.609346    0.113396    
0.021197    0.945137    0.027431    0.006234    
0.016230    0.018727    0.058677    0.906367    
0.047589    0.031309    0.855354    0.065748    
0.703820    0.168441    0.091421    0.036318    
0.527970    0.109365    0.230044    0.132621    
Consensus sequence: GGYGCTGTCCATGGTGCTGAA


************************************************************************ Best Matches for Motif ID 57 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Original Motif                          Original Motif                          Forward        3              21             0.069918       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BBBDVVRGACCACCCAVGABBAB
--TTCAGCACCATGGACAGCKCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Reverse Complement                      Reverse Complement                      Forward        1              21             0.073468       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
GGYGCTGTCCATGGTGCTGAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Forward        2              21             0.074065       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
-TTCAGCACCATGGACAGCKCC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Original Motif                          Forward        3              21             0.075015       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
MHHHWHYTMCCHCCCACVAABVH
--TTCAGCACCATGGACAGCKCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Original Motif                          Backward       3              21             0.075145       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
GGYGCTGTCCATGGTGCTGAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Reverse Complement                      Backward       2              21             0.075832       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
-TTCAGCACCATGGACAGCKCC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Original Motif                          Original Motif                          Backward       1              21             0.077345       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
DTVBDDRGACCACCCAGDWDGBH
--TTCAGCACCATGGACAGCKCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Original Motif                          Original Motif                          Forward        3              21             0.077537       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
YDYBDHTMCACGTGGADDBMDGT
--TTCAGCACCATGGACAGCKCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Reverse Complement                      Reverse Complement                      Backward       1              21             0.077977       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
DCATDBTGHGCATKMTTBRSWR
-GGYGCTGTCCATGGTGCTGAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Reverse Complement                      Original Motif                          Backward       1              21             0.078597       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
--GGYGCTGTCCATGGTGCTGAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 58		Motif name: Myc

Original motif
0.295154    0.422907    0.158590    0.123348    
0.149780    0.233480    0.572687    0.044053    
0.035242    0.964758    0.000000    0.000000    
0.955947    0.017621    0.022026    0.004405    
0.000000    0.933921    0.013216    0.052863    
0.083700    0.008811    0.898678    0.008811    
0.039648    0.193833    0.000000    0.766520    
0.000000    0.008811    0.951542    0.039648    
0.000000    0.074890    0.806167    0.118943    
0.198238    0.471366    0.105727    0.224670    
Consensus sequence: VGCACGTGGH

Reserve complement motif
0.198238    0.105727    0.471366    0.224670    
0.000000    0.806167    0.074890    0.118943    
0.000000    0.951542    0.008811    0.039648    
0.766520    0.193833    0.000000    0.039648    
0.083700    0.898678    0.008811    0.008811    
0.000000    0.013216    0.933921    0.052863    
0.004405    0.017621    0.022026    0.955947    
0.035242    0.000000    0.964758    0.000000    
0.149780    0.572687    0.233480    0.044053    
0.295154    0.158590    0.422907    0.123348    
Consensus sequence: DCCACGTGCV


************************************************************************ Best Matches for Motif ID 58 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00060        Max_primary                        Original Motif                          Original Motif                          Backward       5              10             0.000000       

Species: Mus musculus

Original motif
0.234855    0.152539    0.301720    0.310886    
0.199226    0.147959    0.439250    0.213565    
0.582926    0.274768    0.075866    0.066440    
0.138829    0.475428    0.305884    0.079859    
0.024979    0.969691    0.001811    0.003520    
0.966345    0.003728    0.022320    0.007607    
0.000598    0.907006    0.008160    0.084236    
0.084236    0.008160    0.907006    0.000598    
0.007607    0.022320    0.003728    0.966345    
0.003520    0.001811    0.969691    0.024979    
0.149140    0.241218    0.389598    0.220044    
0.066440    0.075866    0.274768    0.582926    
0.186990    0.346199    0.250066    0.216745    
0.273437    0.225889    0.300738    0.199936    
0.160893    0.111177    0.477963    0.249968    
0.171790    0.101256    0.424580    0.302375    
Consensus sequence: DDASCACGTGBTBVDD

Reverse complement motif
0.171790    0.424580    0.101256    0.302375    
0.160893    0.477963    0.111177    0.249968    
0.273437    0.300738    0.225889    0.199936    
0.186990    0.250066    0.346199    0.216745    
0.582926    0.075866    0.274768    0.066440    
0.149140    0.389598    0.241218    0.220044    
0.003520    0.969691    0.001811    0.024979    
0.966345    0.022320    0.003728    0.007607    
0.084236    0.907006    0.008160    0.000598    
0.000598    0.008160    0.907006    0.084236    
0.007607    0.003728    0.022320    0.966345    
0.024979    0.001811    0.969691    0.003520    
0.138829    0.305884    0.475428    0.079859    
0.066440    0.274768    0.075866    0.582926    
0.199226    0.439250    0.147959    0.213565    
0.310886    0.152539    0.301720    0.234855    
Consensus sequence: HHVBABCACGTGSTHD

Alignment:
DDASCACGTGBTBVDD
--VGCACGTGGH----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Reverse Complement                      Reverse Complement                      Forward        8              10             0.006319       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
-------DCCACGTGCV------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_primary                     Reverse Complement                      Reverse Complement                      Backward       7              10             0.008217       

Species: Mus musculus

Original motif
0.347837    0.112349    0.403713    0.136102    
0.298329    0.175329    0.324534    0.201809    
0.421791    0.222553    0.113615    0.242041    
0.387506    0.130670    0.161435    0.320389    
0.197183    0.244864    0.304611    0.253342    
0.345884    0.188786    0.278290    0.187041    
0.228203    0.142148    0.408269    0.221381    
0.037126    0.006772    0.231775    0.724328    
0.055214    0.942800    0.001192    0.000794    
0.974119    0.004466    0.015535    0.005880    
0.000300    0.958145    0.007498    0.034056    
0.034056    0.007498    0.958145    0.000300    
0.005880    0.015535    0.004466    0.974119    
0.000794    0.001192    0.942800    0.055214    
0.724328    0.231775    0.006772    0.037126    
0.015720    0.466476    0.315208    0.202596    
0.173670    0.355170    0.210710    0.260449    
0.407419    0.261539    0.134430    0.196612    
0.351478    0.209698    0.262426    0.176399    
0.207869    0.284582    0.198951    0.308598    
0.434482    0.113724    0.184408    0.267386    
0.211144    0.363745    0.173978    0.251133    
Consensus sequence: RDHDBVDTCACGTGASBHVHDH

Reverse complement motif
0.211144    0.173978    0.363745    0.251133    
0.267386    0.113724    0.184408    0.434482    
0.308598    0.284582    0.198951    0.207869    
0.176399    0.209698    0.262426    0.351478    
0.196612    0.261539    0.134430    0.407419    
0.173670    0.210710    0.355170    0.260449    
0.015720    0.315208    0.466476    0.202596    
0.037126    0.231775    0.006772    0.724328    
0.000794    0.942800    0.001192    0.055214    
0.974119    0.015535    0.004466    0.005880    
0.034056    0.958145    0.007498    0.000300    
0.000300    0.007498    0.958145    0.034056    
0.005880    0.004466    0.015535    0.974119    
0.055214    0.001192    0.942800    0.000794    
0.724328    0.006772    0.231775    0.037126    
0.228203    0.408269    0.142148    0.221381    
0.187041    0.188786    0.278290    0.345884    
0.197183    0.304611    0.244864    0.253342    
0.320389    0.130670    0.161435    0.387506    
0.242041    0.222553    0.113615    0.421791    
0.298329    0.324534    0.175329    0.201809    
0.347837    0.403713    0.112349    0.136102    
Consensus sequence: DDHBHBSTCACGTGAHBBDHHM

Alignment:
DDHBHBSTCACGTGAHBBDHHM
------DCCACGTGCV------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_primary                     Original Motif                          Reverse Complement                      Backward       4              10             0.014001       

Species: Mus musculus

Original motif
0.306209    0.232705    0.244475    0.216611    
0.165668    0.171480    0.222584    0.440269    
0.213008    0.429038    0.156385    0.201569    
0.283226    0.329518    0.160795    0.226461    
0.439156    0.283517    0.251270    0.026056    
0.014994    0.980987    0.000714    0.003304    
0.975741    0.020182    0.002909    0.001168    
0.000926    0.191353    0.801648    0.006073    
0.015382    0.090853    0.893043    0.000721    
0.001549    0.005912    0.001713    0.990826    
0.004000    0.000857    0.989667    0.005475    
0.016957    0.663726    0.148127    0.171190    
0.299047    0.091156    0.448649    0.161148    
0.354701    0.214677    0.236757    0.193865    
0.399446    0.174508    0.200036    0.226009    
0.303545    0.277435    0.200094    0.218926    
0.380242    0.148876    0.163367    0.307514    
Consensus sequence: VBHHVCAGGTGCDVDHD

Reverse complement motif
0.307514    0.148876    0.163367    0.380242    
0.218926    0.277435    0.200094    0.303545    
0.226009    0.174508    0.200036    0.399446    
0.193865    0.214677    0.236757    0.354701    
0.299047    0.448649    0.091156    0.161148    
0.016957    0.148127    0.663726    0.171190    
0.004000    0.989667    0.000857    0.005475    
0.990826    0.005912    0.001713    0.001549    
0.015382    0.893043    0.090853    0.000721    
0.000926    0.801648    0.191353    0.006073    
0.001168    0.020182    0.002909    0.975741    
0.014994    0.000714    0.980987    0.003304    
0.026056    0.283517    0.251270    0.439156    
0.283226    0.160795    0.329518    0.226461    
0.213008    0.156385    0.429038    0.201569    
0.440269    0.171480    0.222584    0.165668    
0.216611    0.232705    0.244475    0.306209    
Consensus sequence: DHDBHGCACCTGBDDVB

Alignment:
DHDBHGCACCTGBDDVB
----VGCACGTGGH---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00060        Max_secondary                      Original Motif                          Original Motif                          Backward       3              10             0.030891       

Species: Mus musculus

Original motif
0.127991    0.202889    0.399822    0.269298    
0.156940    0.244015    0.182364    0.416681    
0.046494    0.050598    0.744311    0.158596    
0.196142    0.365183    0.183389    0.255286    
0.019306    0.946805    0.015210    0.018680    
0.924839    0.022113    0.027620    0.025428    
0.007478    0.672138    0.027789    0.292595    
0.046702    0.026044    0.906146    0.021107    
0.117335    0.610863    0.025132    0.246670    
0.044431    0.053581    0.722748    0.179240    
0.543713    0.149809    0.190030    0.116447    
0.241148    0.722386    0.022547    0.013919    
0.265412    0.113032    0.270602    0.350954    
0.226186    0.143504    0.332746    0.297564    
Consensus sequence: BBGHCACGCGACDD

Reverse complement motif
0.226186    0.332746    0.143504    0.297564    
0.350954    0.113032    0.270602    0.265412    
0.241148    0.022547    0.722386    0.013919    
0.116447    0.149809    0.190030    0.543713    
0.044431    0.722748    0.053581    0.179240    
0.117335    0.025132    0.610863    0.246670    
0.046702    0.906146    0.026044    0.021107    
0.007478    0.027789    0.672138    0.292595    
0.025428    0.022113    0.027620    0.924839    
0.019306    0.015210    0.946805    0.018680    
0.196142    0.183389    0.365183    0.255286    
0.046494    0.744311    0.050598    0.158596    
0.416681    0.244015    0.182364    0.156940    
0.127991    0.399822    0.202889    0.269298    
Consensus sequence: HDGTCGCGTGDCVB

Alignment:
BBGHCACGCGACDD
--VGCACGTGGH--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00165        Titf1                              Reverse Complement                      Original Motif                          Backward       4              10             0.031172       

Species: Mus musculus

Original motif
0.142834    0.324493    0.147276    0.385397    
0.404842    0.233186    0.227659    0.134313    
0.677580    0.044952    0.178774    0.098695    
0.137761    0.202622    0.469728    0.189889    
0.069301    0.825888    0.093549    0.011262    
0.003882    0.876858    0.000966    0.118295    
0.904355    0.015154    0.001043    0.079449    
0.018912    0.977464    0.001207    0.002417    
0.003517    0.004393    0.002428    0.989662    
0.007151    0.162279    0.000584    0.829986    
0.192074    0.120883    0.670840    0.016203    
0.881358    0.002039    0.013253    0.103349    
0.450016    0.333144    0.184121    0.032719    
0.342018    0.321148    0.066945    0.269889    
0.209486    0.122118    0.046367    0.622029    
0.174564    0.145894    0.048004    0.631539    
Consensus sequence: BVABCCACTTGAMHTT

Reverse complement motif
0.631539    0.145894    0.048004    0.174564    
0.622029    0.122118    0.046367    0.209486    
0.269889    0.321148    0.066945    0.342018    
0.032719    0.333144    0.184121    0.450016    
0.103349    0.002039    0.013253    0.881358    
0.192074    0.670840    0.120883    0.016203    
0.829986    0.162279    0.000584    0.007151    
0.989662    0.004393    0.002428    0.003517    
0.018912    0.001207    0.977464    0.002417    
0.079449    0.015154    0.001043    0.904355    
0.003882    0.000966    0.876858    0.118295    
0.069301    0.093549    0.825888    0.011262    
0.137761    0.469728    0.202622    0.189889    
0.098695    0.044952    0.178774    0.677580    
0.134313    0.233186    0.227659    0.404842    
0.385397    0.324493    0.147276    0.142834    
Consensus sequence: AAHYTCAAGTGGBTBV

Alignment:
BVABCCACTTGAMHTT
---DCCACGTGCV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00249        Nkx2-5                             Reverse Complement                      Original Motif                          Backward       4              10             0.031308       

Species: Mus musculus

Original motif
0.284346    0.280937    0.138180    0.296538    
0.399663    0.110464    0.327481    0.162392    
0.637560    0.029806    0.218321    0.114314    
0.184898    0.144379    0.370828    0.299895    
0.017459    0.862111    0.118223    0.002207    
0.001004    0.958164    0.000888    0.039945    
0.947796    0.011499    0.000413    0.040291    
0.024268    0.973476    0.000709    0.001546    
0.002616    0.001901    0.003337    0.992147    
0.006742    0.071290    0.000276    0.921691    
0.393078    0.093424    0.490620    0.022879    
0.870162    0.007294    0.051952    0.070591    
0.632449    0.156278    0.172644    0.038628    
0.362798    0.126579    0.085796    0.424828    
0.132810    0.206405    0.025084    0.635702    
0.094708    0.272324    0.087702    0.545267    
Consensus sequence: HDADCCACTTRAAWTT

Reverse complement motif
0.545267    0.272324    0.087702    0.094708    
0.635702    0.206405    0.025084    0.132810    
0.424828    0.126579    0.085796    0.362798    
0.038628    0.156278    0.172644    0.632449    
0.070591    0.007294    0.051952    0.870162    
0.393078    0.490620    0.093424    0.022879    
0.921691    0.071290    0.000276    0.006742    
0.992147    0.001901    0.003337    0.002616    
0.024268    0.000709    0.973476    0.001546    
0.040291    0.011499    0.000413    0.947796    
0.001004    0.000888    0.958164    0.039945    
0.017459    0.118223    0.862111    0.002207    
0.184898    0.370828    0.144379    0.299895    
0.114314    0.029806    0.218321    0.637560    
0.162392    0.110464    0.327481    0.399663    
0.296538    0.280937    0.138180    0.284346    
Consensus sequence: AAWTTMAAGTGGHTDH

Alignment:
HDADCCACTTRAAWTT
---DCCACGTGCV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00231        Nkx2-2                             Reverse Complement                      Original Motif                          Forward        4              10             0.033485       

Species: Mus musculus

Original motif
0.299323    0.258429    0.141957    0.300291    
0.267631    0.143882    0.146933    0.441554    
0.482614    0.212022    0.233631    0.071733    
0.430836    0.073912    0.334439    0.160813    
0.124944    0.704331    0.166815    0.003910    
0.001941    0.876479    0.000828    0.120752    
0.920202    0.005985    0.000456    0.073357    
0.023544    0.974093    0.000859    0.001505    
0.005010    0.003098    0.001328    0.990564    
0.003250    0.198149    0.000490    0.798110    
0.134659    0.104976    0.753464    0.006901    
0.932490    0.000724    0.006140    0.060646    
0.504530    0.106203    0.360995    0.028271    
0.673257    0.074893    0.106536    0.145314    
0.356324    0.097610    0.230142    0.315924    
0.129483    0.188353    0.203623    0.478542    
0.289071    0.157675    0.231909    0.321345    
Consensus sequence: HDVRCCACTTGARADBD

Reverse complement motif
0.321345    0.157675    0.231909    0.289071    
0.478542    0.188353    0.203623    0.129483    
0.315924    0.097610    0.230142    0.356324    
0.145314    0.074893    0.106536    0.673257    
0.028271    0.106203    0.360995    0.504530    
0.060646    0.000724    0.006140    0.932490    
0.134659    0.753464    0.104976    0.006901    
0.798110    0.198149    0.000490    0.003250    
0.990564    0.003098    0.001328    0.005010    
0.023544    0.000859    0.974093    0.001505    
0.073357    0.005985    0.000456    0.920202    
0.001941    0.000828    0.876479    0.120752    
0.124944    0.166815    0.704331    0.003910    
0.160813    0.073912    0.334439    0.430836    
0.071733    0.212022    0.233631    0.482614    
0.441554    0.143882    0.146933    0.267631    
0.300291    0.258429    0.141957    0.299323    
Consensus sequence: DVDTKTCAAGTGGKBDH

Alignment:
HDVRCCACTTGARADBD
---DCCACGTGCV----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00147        Nkx2-6                             Reverse Complement                      Original Motif                          Backward       4              10             0.034555       

Species: Mus musculus

Original motif
0.217416    0.196318    0.223786    0.362479    
0.398508    0.155537    0.270546    0.175410    
0.791392    0.022106    0.126944    0.059558    
0.211671    0.145452    0.349401    0.293476    
0.023830    0.847357    0.127125    0.001688    
0.001426    0.942475    0.000495    0.055604    
0.969354    0.001012    0.000987    0.028646    
0.017358    0.980969    0.000778    0.000894    
0.001816    0.004181    0.001573    0.992430    
0.000925    0.059099    0.000431    0.939544    
0.670672    0.011130    0.312570    0.005628    
0.757147    0.010903    0.032137    0.199813    
0.335600    0.359053    0.277277    0.028070    
0.440449    0.199116    0.111993    0.248442    
0.126577    0.210049    0.039661    0.623714    
0.088481    0.233166    0.032706    0.645647    
Consensus sequence: DDADCCACTTAAVHTT

Reverse complement motif
0.645647    0.233166    0.032706    0.088481    
0.623714    0.210049    0.039661    0.126577    
0.248442    0.199116    0.111993    0.440449    
0.335600    0.277277    0.359053    0.028070    
0.199813    0.010903    0.032137    0.757147    
0.005628    0.011130    0.312570    0.670672    
0.939544    0.059099    0.000431    0.000925    
0.992430    0.004181    0.001573    0.001816    
0.017358    0.000778    0.980969    0.000894    
0.028646    0.001012    0.000987    0.969354    
0.001426    0.000495    0.942475    0.055604    
0.023830    0.127125    0.847357    0.001688    
0.211671    0.349401    0.145452    0.293476    
0.059558    0.022106    0.126944    0.791392    
0.175410    0.155537    0.270546    0.398508    
0.362479    0.196318    0.223786    0.217416    
Consensus sequence: AAHVTTAAGTGGHTDD

Alignment:
DDADCCACTTAAVHTT
---DCCACGTGCV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Original Motif                          Forward        6              10             0.036382       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VDWDARRGACGCGGWHGGAKHV
-----VGCACGTGGH-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 59		Motif name: ESR2

Original motif
0.218487    0.450980    0.176471    0.154062    
0.442577    0.142857    0.114846    0.299720    
0.521008    0.042017    0.431373    0.005602    
0.075630    0.000000    0.770308    0.154062    
0.050420    0.056022    0.893557    0.000000    
0.036415    0.053221    0.092437    0.817927    
0.000000    1.000000    0.000000    0.000000    
0.943978    0.002801    0.000000    0.053221    
0.137255    0.344538    0.316527    0.201681    
0.179272    0.176471    0.417367    0.226891    
0.145658    0.170868    0.411765    0.271709    
0.058824    0.092437    0.067227    0.781513    
0.176471    0.070028    0.742297    0.011204    
0.498599    0.277311    0.053221    0.170868    
0.095238    0.750700    0.005602    0.148459    
0.128852    0.809524    0.000000    0.061625    
0.075630    0.252101    0.000000    0.672269    
0.168067    0.263305    0.380952    0.187675    
Consensus sequence: VHRGGTCABDBTGMCCTB

Reserve complement motif
0.168067    0.380952    0.263305    0.187675    
0.672269    0.252101    0.000000    0.075630    
0.128852    0.000000    0.809524    0.061625    
0.095238    0.005602    0.750700    0.148459    
0.170868    0.277311    0.053221    0.498599    
0.176471    0.742297    0.070028    0.011204    
0.781513    0.092437    0.067227    0.058824    
0.145658    0.411765    0.170868    0.271709    
0.179272    0.417367    0.176471    0.226891    
0.137255    0.316527    0.344538    0.201681    
0.053221    0.002801    0.000000    0.943978    
0.000000    0.000000    1.000000    0.000000    
0.817927    0.053221    0.092437    0.036415    
0.050420    0.893557    0.056022    0.000000    
0.075630    0.770308    0.000000    0.154062    
0.005602    0.042017    0.431373    0.521008    
0.299720    0.142857    0.114846    0.442577    
0.218487    0.176471    0.450980    0.154062    
Consensus sequence: BAGGYCABHBTGACCKHV


************************************************************************ Best Matches for Motif ID 59 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Original Motif                          Original Motif                          Backward       2              18             0.044389       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
---VHRGGTCABDBTGMCCTB-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Reverse Complement                      Forward        4              18             0.049219       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
---VHRGGTCABDBTGMCCTB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_primary                     Original Motif                          Reverse Complement                      Backward       3              18             0.050918       

Species: Mus musculus

Original motif
0.347837    0.112349    0.403713    0.136102    
0.298329    0.175329    0.324534    0.201809    
0.421791    0.222553    0.113615    0.242041    
0.387506    0.130670    0.161435    0.320389    
0.197183    0.244864    0.304611    0.253342    
0.345884    0.188786    0.278290    0.187041    
0.228203    0.142148    0.408269    0.221381    
0.037126    0.006772    0.231775    0.724328    
0.055214    0.942800    0.001192    0.000794    
0.974119    0.004466    0.015535    0.005880    
0.000300    0.958145    0.007498    0.034056    
0.034056    0.007498    0.958145    0.000300    
0.005880    0.015535    0.004466    0.974119    
0.000794    0.001192    0.942800    0.055214    
0.724328    0.231775    0.006772    0.037126    
0.015720    0.466476    0.315208    0.202596    
0.173670    0.355170    0.210710    0.260449    
0.407419    0.261539    0.134430    0.196612    
0.351478    0.209698    0.262426    0.176399    
0.207869    0.284582    0.198951    0.308598    
0.434482    0.113724    0.184408    0.267386    
0.211144    0.363745    0.173978    0.251133    
Consensus sequence: RDHDBVDTCACGTGASBHVHDH

Reverse complement motif
0.211144    0.173978    0.363745    0.251133    
0.267386    0.113724    0.184408    0.434482    
0.308598    0.284582    0.198951    0.207869    
0.176399    0.209698    0.262426    0.351478    
0.196612    0.261539    0.134430    0.407419    
0.173670    0.210710    0.355170    0.260449    
0.015720    0.315208    0.466476    0.202596    
0.037126    0.231775    0.006772    0.724328    
0.000794    0.942800    0.001192    0.055214    
0.974119    0.015535    0.004466    0.005880    
0.034056    0.958145    0.007498    0.000300    
0.000300    0.007498    0.958145    0.034056    
0.005880    0.004466    0.015535    0.974119    
0.055214    0.001192    0.942800    0.000794    
0.724328    0.006772    0.231775    0.037126    
0.228203    0.408269    0.142148    0.221381    
0.187041    0.188786    0.278290    0.345884    
0.197183    0.304611    0.244864    0.253342    
0.320389    0.130670    0.161435    0.387506    
0.242041    0.222553    0.113615    0.421791    
0.298329    0.324534    0.175329    0.201809    
0.347837    0.403713    0.112349    0.136102    
Consensus sequence: DDHBHBSTCACGTGAHBBDHHM

Alignment:
DDHBHBSTCACGTGAHBBDHHM
--VHRGGTCABDBTGMCCTB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Reverse Complement                      Original Motif                          Forward        2              18             0.052708       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
-BAGGYCABHBTGACCKHV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Reverse Complement                      Reverse Complement                      Forward        2              18             0.054104       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
WBHHHHHMDATTGTTHDHDVHH
-BAGGYCABHBTGACCKHV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Reverse Complement                      Original Motif                          Forward        3              18             0.054111       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
VCTBHBVCTTGGWTACVVVVVDB
--BAGGYCABHBTGACCKHV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Original Motif                          Backward       2              18             0.054373       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VDWDARRGACGCGGWHGGAKHV
---VHRGGTCABDBTGMCCTB-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Original Motif                          Backward       5              18             0.054809       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-BAGGYCABHBTGACCKHV----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Original Motif                          Reverse Complement                      Forward        5              18             0.055453       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
DCATDBTGHGCATKMTTBRSWR
----VHRGGTCABDBTGMCCTB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_secondary                    Original Motif                          Original Motif                          Backward       4              18             0.056643       

Species: Mus musculus

Original motif
0.177641    0.319872    0.115137    0.387350    
0.136644    0.182137    0.205873    0.475347    
0.254263    0.244280    0.165207    0.336250    
0.240415    0.207557    0.237497    0.314530    
0.271041    0.214702    0.364395    0.149863    
0.095475    0.320104    0.191738    0.392682    
0.500902    0.142722    0.026556    0.329820    
0.051221    0.023698    0.897245    0.027836    
0.922410    0.027509    0.024058    0.026023    
0.030735    0.070903    0.024248    0.874114    
0.242120    0.231992    0.225143    0.300745    
0.106956    0.220471    0.283490    0.389083    
0.152079    0.165830    0.135066    0.547025    
0.839205    0.051581    0.060119    0.049095    
0.041204    0.069147    0.070830    0.818819    
0.051861    0.848177    0.027599    0.072363    
0.383793    0.016807    0.397470    0.201931    
0.381899    0.215846    0.255908    0.146347    
0.094792    0.358651    0.280905    0.265652    
0.296132    0.181545    0.178433    0.343890    
0.301997    0.254722    0.108566    0.334714    
0.349481    0.270693    0.137507    0.242319    
Consensus sequence: HBHDVBWGATHBTATCRVBHHH

Reverse complement motif
0.242319    0.270693    0.137507    0.349481    
0.334714    0.254722    0.108566    0.301997    
0.343890    0.181545    0.178433    0.296132    
0.094792    0.280905    0.358651    0.265652    
0.146347    0.215846    0.255908    0.381899    
0.383793    0.397470    0.016807    0.201931    
0.051861    0.027599    0.848177    0.072363    
0.818819    0.069147    0.070830    0.041204    
0.049095    0.051581    0.060119    0.839205    
0.547025    0.165830    0.135066    0.152079    
0.389083    0.220471    0.283490    0.106956    
0.300745    0.231992    0.225143    0.242120    
0.874114    0.070903    0.024248    0.030735    
0.026023    0.027509    0.024058    0.922410    
0.051221    0.897245    0.023698    0.027836    
0.329820    0.142722    0.026556    0.500902    
0.392682    0.320104    0.191738    0.095475    
0.271041    0.364395    0.214702    0.149863    
0.314530    0.207557    0.237497    0.240415    
0.336250    0.244280    0.165207    0.254263    
0.475347    0.182137    0.205873    0.136644    
0.387350    0.319872    0.115137    0.177641    
Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Alignment:
HBHDVBWGATHBTATCRVBHHH
-VHRGGTCABDBTGMCCTB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 60		Motif name: NR1H2RXRA

Original motif
0.680000    0.200000    0.000000    0.120000    
0.680000    0.040000    0.200000    0.080000    
0.800000    0.000000    0.200000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.960000    0.040000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.960000    0.000000    0.000000    0.040000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.800000    0.040000    0.080000    0.080000    
0.000000    0.600000    0.240000    0.160000    
Consensus sequence: AAAGGTCAAAGGTCAAC

Reserve complement motif
0.000000    0.240000    0.600000    0.160000    
0.080000    0.040000    0.080000    0.800000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.040000    0.000000    0.000000    0.960000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.960000    0.000000    0.040000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.200000    0.800000    
0.080000    0.040000    0.200000    0.680000    
0.120000    0.200000    0.000000    0.680000    
Consensus sequence: GTTGACCTTTGACCTTT


************************************************************************ Best Matches for Motif ID 60 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Reverse Complement                      Reverse Complement                      Backward       1              17             0.053845       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-----GTTGACCTTTGACCTTT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Original Motif                          Original Motif                          Backward       1              17             0.054510       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
BDHDDADAGATAAGADHBDHVD
-----AAAGGTCAAAGGTCAAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Forward        2              16             0.521114       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD-
-AAAGGTCAAAGGTCAAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Reverse Complement                      Original Motif                          Backward       2              16             0.527825       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
-DDDYCCTTTGATSTDDV
GTTGACCTTTGACCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Original Motif                          Forward        2              16             0.531154       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH-
-AAAGGTCAAAGGTCAAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Original Motif                          Backward       2              16             0.531876       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
-HHHASATCAAAGVRHHH
AAAGGTCAAAGGTCAAC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Original Motif                          Forward        2              16             0.544403       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HBDDRAACAAAGRABHH-
-AAAGGTCAAAGGTCAAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Reverse Complement                      Reverse Complement                      Backward       2              16             0.544565       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
-HHBBMCTTTGTTHDDBH
GTTGACCTTTGACCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00019        Zbtb12_primary                     Reverse Complement                      Reverse Complement                      Backward       2              16             0.550511       

Species: Mus musculus

Original motif
0.163348    0.349811    0.273573    0.213268    
0.212612    0.211975    0.220400    0.355012    
0.325879    0.220972    0.186720    0.266430    
0.510632    0.041115    0.419323    0.028930    
0.067550    0.203499    0.411224    0.317727    
0.023546    0.002038    0.972278    0.002138    
0.017818    0.006841    0.006478    0.968864    
0.019791    0.001443    0.009338    0.969428    
0.003084    0.992130    0.002654    0.002131    
0.001031    0.039768    0.003588    0.955613    
0.980811    0.006260    0.008964    0.003965    
0.013624    0.002796    0.979716    0.003863    
0.841198    0.016422    0.129217    0.013163    
0.169265    0.145424    0.085753    0.599558    
0.068235    0.584950    0.065758    0.281057    
0.378189    0.252218    0.209355    0.160238    
0.167389    0.305726    0.229730    0.297156    
Consensus sequence: BDHRBGTTCTAGATCVB

Reverse complement motif
0.167389    0.229730    0.305726    0.297156    
0.160238    0.252218    0.209355    0.378189    
0.068235    0.065758    0.584950    0.281057    
0.599558    0.145424    0.085753    0.169265    
0.013163    0.016422    0.129217    0.841198    
0.013624    0.979716    0.002796    0.003863    
0.003965    0.006260    0.008964    0.980811    
0.955613    0.039768    0.003588    0.001031    
0.003084    0.002654    0.992130    0.002131    
0.969428    0.001443    0.009338    0.019791    
0.968864    0.006841    0.006478    0.017818    
0.023546    0.972278    0.002038    0.002138    
0.067550    0.411224    0.203499    0.317727    
0.028930    0.041115    0.419323    0.510632    
0.266430    0.220972    0.186720    0.325879    
0.355012    0.211975    0.220400    0.212612    
0.163348    0.273573    0.349811    0.213268    
Consensus sequence: BBGATCTAGAACBKHDB

Alignment:
-BBGATCTAGAACBKHDB
GTTGACCTTTGACCTTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_secondary                   Original Motif                          Original Motif                          Forward        2              16             0.552064       

Species: Mus musculus

Original motif
0.296417    0.247522    0.206749    0.249312    
0.410113    0.201959    0.303149    0.084779    
0.267313    0.132645    0.452057    0.147985    
0.187929    0.136827    0.427628    0.247616    
0.198671    0.425254    0.234160    0.141915    
0.029244    0.953929    0.004092    0.012734    
0.954570    0.014314    0.018695    0.012421    
0.010025    0.055055    0.845504    0.089415    
0.874802    0.040849    0.069178    0.015172    
0.015084    0.010551    0.008736    0.965628    
0.012981    0.007192    0.965036    0.014791    
0.037724    0.016891    0.495632    0.449753    
0.021685    0.438927    0.056118    0.483270    
0.209872    0.365671    0.139706    0.284751    
0.151815    0.336912    0.289382    0.221891    
0.152995    0.262354    0.416434    0.168217    
0.227567    0.187603    0.447892    0.136938    
Consensus sequence: HVDDVCAGATGKYHBBV

Reverse complement motif
0.227567    0.447892    0.187603    0.136938    
0.152995    0.416434    0.262354    0.168217    
0.151815    0.289382    0.336912    0.221891    
0.209872    0.139706    0.365671    0.284751    
0.483270    0.438927    0.056118    0.021685    
0.037724    0.495632    0.016891    0.449753    
0.012981    0.965036    0.007192    0.014791    
0.965628    0.010551    0.008736    0.015084    
0.015172    0.040849    0.069178    0.874802    
0.010025    0.845504    0.055055    0.089415    
0.012421    0.014314    0.018695    0.954570    
0.029244    0.004092    0.953929    0.012734    
0.198671    0.234160    0.425254    0.141915    
0.187929    0.427628    0.136827    0.247616    
0.267313    0.452057    0.132645    0.147985    
0.084779    0.201959    0.303149    0.410113    
0.249312    0.247522    0.206749    0.296417    
Consensus sequence: VBBDMYCATCTGVHHBH

Alignment:
HVDDVCAGATGKYHBBV-
-AAAGGTCAAAGGTCAAC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 61		Motif name: NR4A2

Original motif
0.615385    0.076923    0.230769    0.076923    
0.928571    0.000000    0.071429    0.000000    
0.000000    0.000000    0.928571    0.071429    
0.214286    0.000000    0.785714    0.000000    
0.142857    0.142857    0.000000    0.714286    
0.000000    0.928571    0.000000    0.071429    
1.000000    0.000000    0.000000    0.000000    
0.230769    0.615385    0.153846    0.000000    
Consensus sequence: AAGGTCAC

Reserve complement motif
0.230769    0.153846    0.615385    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.928571    0.071429    
0.714286    0.142857    0.000000    0.142857    
0.214286    0.785714    0.000000    0.000000    
0.000000    0.928571    0.000000    0.071429    
0.000000    0.000000    0.071429    0.928571    
0.076923    0.076923    0.230769    0.615385    
Consensus sequence: GTGACCTT


************************************************************************ Best Matches for Motif ID 61 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Original Motif                          Original Motif                          Backward       4              8              0.000000       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
-----AAGGTCAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Original Motif                          Original Motif                          Backward       4              8              0.007453       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
DHBHAAAGGTCAHVHB
-----AAGGTCAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Original Motif                          Backward       5              8              0.015420       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
-----AAGGTCAC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_secondary                    Original Motif                          Original Motif                          Forward        6              8              0.039564       

Species: Mus musculus

Original motif
0.195749    0.435700    0.196915    0.171636    
0.131070    0.131912    0.417834    0.319184    
0.238959    0.441529    0.174973    0.144539    
0.187749    0.189727    0.405849    0.216675    
0.006751    0.541370    0.182092    0.269787    
0.005388    0.590608    0.339869    0.064135    
0.088153    0.004666    0.902351    0.004830    
0.002459    0.004278    0.982637    0.010626    
0.003618    0.002504    0.985275    0.008602    
0.003325    0.004017    0.009244    0.983414    
0.002547    0.972864    0.005345    0.019244    
0.940260    0.002927    0.053632    0.003181    
0.222459    0.390569    0.251497    0.135475    
0.151824    0.258444    0.332866    0.256865    
0.175811    0.290583    0.232086    0.301520    
0.356690    0.198973    0.136050    0.308287    
Consensus sequence: VBVBCSGGGTCAVBBH

Reverse complement motif
0.308287    0.198973    0.136050    0.356690    
0.301520    0.290583    0.232086    0.175811    
0.151824    0.332866    0.258444    0.256865    
0.222459    0.251497    0.390569    0.135475    
0.003181    0.002927    0.053632    0.940260    
0.002547    0.005345    0.972864    0.019244    
0.983414    0.004017    0.009244    0.003325    
0.003618    0.985275    0.002504    0.008602    
0.002459    0.982637    0.004278    0.010626    
0.088153    0.902351    0.004666    0.004830    
0.005388    0.339869    0.590608    0.064135    
0.006751    0.182092    0.541370    0.269787    
0.187749    0.405849    0.189727    0.216675    
0.238959    0.174973    0.441529    0.144539    
0.131070    0.417834    0.131912    0.319184    
0.195749    0.196915    0.435700    0.171636    
Consensus sequence: HVBVTGACCCSGBVBV

Alignment:
VBVBCSGGGTCAVBBH
-----AAGGTCAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_secondary                   Reverse Complement                      Original Motif                          Backward       9              8              0.040787       

Species: Mus musculus

Original motif
0.173063    0.169680    0.440836    0.216421    
0.353277    0.179996    0.249403    0.217325    
0.307337    0.038055    0.616380    0.038228    
0.316636    0.564670    0.023732    0.094962    
0.015484    0.923764    0.019439    0.041313    
0.011243    0.956300    0.009443    0.023014    
0.062273    0.107531    0.010739    0.819456    
0.126670    0.201521    0.192005    0.479803    
0.093090    0.045924    0.835792    0.025194    
0.020165    0.015483    0.009567    0.954786    
0.010873    0.672448    0.004559    0.312121    
0.018002    0.846860    0.017605    0.117533    
0.335703    0.408170    0.104095    0.152031    
0.150308    0.362296    0.067408    0.419988    
0.286490    0.242211    0.176532    0.294767    
0.265022    0.249655    0.272219    0.213104    
Consensus sequence: DDGMCCTBGTCCHYHV

Reverse complement motif
0.265022    0.272219    0.249655    0.213104    
0.294767    0.242211    0.176532    0.286490    
0.419988    0.362296    0.067408    0.150308    
0.335703    0.104095    0.408170    0.152031    
0.018002    0.017605    0.846860    0.117533    
0.010873    0.004559    0.672448    0.312121    
0.954786    0.015483    0.009567    0.020165    
0.093090    0.835792    0.045924    0.025194    
0.479803    0.201521    0.192005    0.126670    
0.819456    0.107531    0.010739    0.062273    
0.011243    0.009443    0.956300    0.023014    
0.015484    0.019439    0.923764    0.041313    
0.316636    0.023732    0.564670    0.094962    
0.307337    0.616380    0.038055    0.038228    
0.217325    0.179996    0.249403    0.353277    
0.173063    0.440836    0.169680    0.216421    
Consensus sequence: VHMDGGACVAGGRCDH

Alignment:
DDGMCCTBGTCCHYHV
GTGACCTT--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Reverse Complement                      Original Motif                          Backward       6              8              0.042293       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
DBHBDTGACCCCDHVHB
----GTGACCTT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_secondary                    Original Motif                          Original Motif                          Backward       5              8              0.044744       

Species: Mus musculus

Original motif
0.252126    0.268706    0.351590    0.127578    
0.158171    0.083434    0.389646    0.368749    
0.180010    0.290882    0.279192    0.249916    
0.206905    0.249360    0.275438    0.268296    
0.756588    0.046202    0.023921    0.173289    
0.018262    0.022596    0.949143    0.010000    
0.206468    0.046491    0.745475    0.001566    
0.005511    0.001141    0.983152    0.010196    
0.004791    0.001893    0.985951    0.007365    
0.027643    0.001133    0.008565    0.962659    
0.002459    0.970934    0.007826    0.018780    
0.924387    0.003164    0.071225    0.001224    
0.419387    0.230189    0.111588    0.238836    
0.290954    0.163823    0.341233    0.203991    
0.196768    0.281307    0.313868    0.208056    
0.128428    0.260428    0.378607    0.232537    
0.269305    0.378895    0.123480    0.228320    
Consensus sequence: VKBBAGGGGTCAHDBBH

Reverse complement motif
0.269305    0.123480    0.378895    0.228320    
0.128428    0.378607    0.260428    0.232537    
0.196768    0.313868    0.281307    0.208056    
0.290954    0.341233    0.163823    0.203991    
0.238836    0.230189    0.111588    0.419387    
0.001224    0.003164    0.071225    0.924387    
0.002459    0.007826    0.970934    0.018780    
0.962659    0.001133    0.008565    0.027643    
0.004791    0.985951    0.001893    0.007365    
0.005511    0.983152    0.001141    0.010196    
0.206468    0.745475    0.046491    0.001566    
0.018262    0.949143    0.022596    0.010000    
0.173289    0.046202    0.023921    0.756588    
0.206905    0.275438    0.249360    0.268296    
0.180010    0.279192    0.290882    0.249916    
0.158171    0.389646    0.083434    0.368749    
0.252126    0.351590    0.268706    0.127578    
Consensus sequence: DBBHHTGACCCCTBBYV

Alignment:
VKBBAGGGGTCAHDBBH
-----AAGGTCAC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Original Motif                          Original Motif                          Forward        6              8              0.048142       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
BBHHAAAGTCCAMTHH
-----AAGGTCAC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00197        Hoxc9                              Reverse Complement                      Reverse Complement                      Forward        8              8              0.049768       

Species: Mus musculus

Original motif
0.279588    0.205946    0.337877    0.176588    
0.212819    0.121136    0.376165    0.289881    
0.371836    0.224291    0.240111    0.163762    
0.200999    0.056254    0.589311    0.153436    
0.141203    0.048864    0.796449    0.013484    
0.026376    0.197045    0.009146    0.767433    
0.286968    0.688278    0.011985    0.012769    
0.890619    0.006181    0.098071    0.005129    
0.019680    0.011114    0.002539    0.966668    
0.287238    0.007432    0.002166    0.703164    
0.975510    0.006204    0.005667    0.012620    
0.949137    0.017111    0.006224    0.027528    
0.241729    0.296577    0.052768    0.408926    
0.212400    0.269675    0.090007    0.427918    
0.333376    0.091783    0.259582    0.315259    
0.182024    0.203528    0.245531    0.368917    
Consensus sequence: VDVGGTCATTAAHHDB

Reverse complement motif
0.368917    0.203528    0.245531    0.182024    
0.315259    0.091783    0.259582    0.333376    
0.427918    0.269675    0.090007    0.212400    
0.408926    0.296577    0.052768    0.241729    
0.027528    0.017111    0.006224    0.949137    
0.012620    0.006204    0.005667    0.975510    
0.703164    0.007432    0.002166    0.287238    
0.966668    0.011114    0.002539    0.019680    
0.005129    0.006181    0.098071    0.890619    
0.286968    0.011985    0.688278    0.012769    
0.767433    0.197045    0.009146    0.026376    
0.141203    0.796449    0.048864    0.013484    
0.200999    0.589311    0.056254    0.153436    
0.163762    0.224291    0.240111    0.371836    
0.212819    0.376165    0.121136    0.289881    
0.279588    0.337877    0.205946    0.176588    
Consensus sequence: VDHHTTAATGACCBHV

Alignment:
VDHHTTAATGACCBHV
-------GTGACCTT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_secondary                     Reverse Complement                      Original Motif                          Forward        5              8              0.050006       

Species: Mus musculus

Original motif
0.204898    0.149951    0.363373    0.281778    
0.112946    0.243700    0.437938    0.205417    
0.205232    0.182319    0.383143    0.229305    
0.242063    0.152491    0.296426    0.309020    
0.312922    0.028523    0.585026    0.073529    
0.006754    0.011178    0.005346    0.976723    
0.127589    0.005562    0.859436    0.007414    
0.010046    0.974694    0.007001    0.008259    
0.010262    0.974769    0.006069    0.008899    
0.015122    0.966101    0.007970    0.010807    
0.556511    0.167389    0.114635    0.161465    
0.586459    0.044786    0.073450    0.295305    
0.297710    0.194666    0.223655    0.283969    
0.303202    0.250809    0.206475    0.239514    
0.279338    0.160655    0.314457    0.245550    
0.266477    0.266890    0.299970    0.166662    
Consensus sequence: DBDDRTGCCCAWDHDV

Reverse complement motif
0.266477    0.299970    0.266890    0.166662    
0.279338    0.314457    0.160655    0.245550    
0.239514    0.250809    0.206475    0.303202    
0.283969    0.194666    0.223655    0.297710    
0.295305    0.044786    0.073450    0.586459    
0.161465    0.167389    0.114635    0.556511    
0.015122    0.007970    0.966101    0.010807    
0.010262    0.006069    0.974769    0.008899    
0.010046    0.007001    0.974694    0.008259    
0.127589    0.859436    0.005562    0.007414    
0.976723    0.011178    0.005346    0.006754    
0.312922    0.585026    0.028523    0.073529    
0.309020    0.152491    0.296426    0.242063    
0.205232    0.383143    0.182319    0.229305    
0.112946    0.437938    0.243700    0.205417    
0.204898    0.363373    0.149951    0.281778    
Consensus sequence: VHHDWTGGGCAMDHBH

Alignment:
DBDDRTGCCCAWDHDV
----GTGACCTT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 62		Motif name: RORA_1

Original motif
0.600000    0.040000    0.080000    0.280000    
0.360000    0.040000    0.000000    0.600000    
0.240000    0.480000    0.160000    0.120000    
0.440000    0.080000    0.200000    0.280000    
0.840000    0.000000    0.160000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: AWVDAGGTCA

Reserve complement motif
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.160000    0.840000    
0.280000    0.080000    0.200000    0.440000    
0.240000    0.160000    0.480000    0.120000    
0.600000    0.040000    0.000000    0.360000    
0.280000    0.040000    0.080000    0.600000    
Consensus sequence: TGACCTDVWT


************************************************************************ Best Matches for Motif ID 62 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_primary                      Original Motif                          Original Motif                          Backward       5              10             0.015475       

Species: Mus musculus

Original motif
0.253408    0.181904    0.273186    0.291502    
0.262827    0.381870    0.153734    0.201569    
0.143383    0.243233    0.242562    0.370823    
0.247498    0.336892    0.176114    0.239496    
0.856654    0.037068    0.049492    0.056786    
0.797369    0.012935    0.176463    0.013233    
0.808222    0.001309    0.189796    0.000674    
0.002583    0.000536    0.989167    0.007714    
0.002421    0.000283    0.972777    0.024519    
0.000270    0.003650    0.019038    0.977041    
0.000184    0.956654    0.005329    0.037833    
0.925587    0.000706    0.072434    0.001273    
0.307028    0.327297    0.079126    0.286549    
0.238576    0.245847    0.384025    0.131552    
0.281599    0.234987    0.226211    0.257204    
0.211511    0.212695    0.363980    0.211815    
Consensus sequence: DHBHAAAGGTCAHVHB

Reverse complement motif
0.211511    0.363980    0.212695    0.211815    
0.257204    0.234987    0.226211    0.281599    
0.238576    0.384025    0.245847    0.131552    
0.307028    0.079126    0.327297    0.286549    
0.001273    0.000706    0.072434    0.925587    
0.000184    0.005329    0.956654    0.037833    
0.977041    0.003650    0.019038    0.000270    
0.002421    0.972777    0.000283    0.024519    
0.002583    0.989167    0.000536    0.007714    
0.000674    0.001309    0.189796    0.808222    
0.013233    0.012935    0.176463    0.797369    
0.056786    0.037068    0.049492    0.856654    
0.247498    0.176114    0.336892    0.239496    
0.370823    0.243233    0.242562    0.143383    
0.262827    0.153734    0.381870    0.201569    
0.291502    0.181904    0.273186    0.253408    
Consensus sequence: BHVDTGACCTTTDVDD

Alignment:
DHBHAAAGGTCAHVHB
--AWVDAGGTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Reverse Complement                      Reverse Complement                      Forward        6              10             0.017666       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
HHBVHTGACCTTGVDHD
-----TGACCTDVWT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00048        Rara                               Original Motif                          Original Motif                          Backward       5              10             0.018960       

Species: Mus musculus

Original motif
0.222478    0.177331    0.266395    0.333797    
0.276222    0.360097    0.118354    0.245327    
0.106047    0.268455    0.234217    0.391281    
0.244163    0.407141    0.146864    0.201832    
0.852083    0.050643    0.039941    0.057332    
0.814108    0.012894    0.165984    0.007015    
0.905198    0.005648    0.088378    0.000776    
0.002783    0.000555    0.988205    0.008457    
0.001289    0.000626    0.898209    0.099877    
0.002878    0.001631    0.008910    0.986582    
0.000499    0.975550    0.005264    0.018687    
0.963627    0.000883    0.034432    0.001058    
0.181490    0.517766    0.077094    0.223650    
0.183789    0.384790    0.308350    0.123071    
0.229801    0.228801    0.224468    0.316930    
0.218244    0.170273    0.366746    0.244736    
Consensus sequence: DHBHAAAGGTCACVHD

Reverse complement motif
0.218244    0.366746    0.170273    0.244736    
0.316930    0.228801    0.224468    0.229801    
0.183789    0.308350    0.384790    0.123071    
0.181490    0.077094    0.517766    0.223650    
0.001058    0.000883    0.034432    0.963627    
0.000499    0.005264    0.975550    0.018687    
0.986582    0.001631    0.008910    0.002878    
0.001289    0.898209    0.000626    0.099877    
0.002783    0.988205    0.000555    0.008457    
0.000776    0.005648    0.088378    0.905198    
0.007015    0.012894    0.165984    0.814108    
0.057332    0.050643    0.039941    0.852083    
0.244163    0.146864    0.407141    0.201832    
0.391281    0.268455    0.234217    0.106047    
0.276222    0.118354    0.360097    0.245327    
0.333797    0.177331    0.266395    0.222478    
Consensus sequence: HHVGTGACCTTTDVDD

Alignment:
DHBHAAAGGTCACVHD
--AWVDAGGTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00009        Nr2f2_secondary                    Original Motif                          Original Motif                          Backward       5              10             0.033200       

Species: Mus musculus

Original motif
0.195749    0.435700    0.196915    0.171636    
0.131070    0.131912    0.417834    0.319184    
0.238959    0.441529    0.174973    0.144539    
0.187749    0.189727    0.405849    0.216675    
0.006751    0.541370    0.182092    0.269787    
0.005388    0.590608    0.339869    0.064135    
0.088153    0.004666    0.902351    0.004830    
0.002459    0.004278    0.982637    0.010626    
0.003618    0.002504    0.985275    0.008602    
0.003325    0.004017    0.009244    0.983414    
0.002547    0.972864    0.005345    0.019244    
0.940260    0.002927    0.053632    0.003181    
0.222459    0.390569    0.251497    0.135475    
0.151824    0.258444    0.332866    0.256865    
0.175811    0.290583    0.232086    0.301520    
0.356690    0.198973    0.136050    0.308287    
Consensus sequence: VBVBCSGGGTCAVBBH

Reverse complement motif
0.308287    0.198973    0.136050    0.356690    
0.301520    0.290583    0.232086    0.175811    
0.151824    0.332866    0.258444    0.256865    
0.222459    0.251497    0.390569    0.135475    
0.003181    0.002927    0.053632    0.940260    
0.002547    0.005345    0.972864    0.019244    
0.983414    0.004017    0.009244    0.003325    
0.003618    0.985275    0.002504    0.008602    
0.002459    0.982637    0.004278    0.010626    
0.088153    0.902351    0.004666    0.004830    
0.005388    0.339869    0.590608    0.064135    
0.006751    0.182092    0.541370    0.269787    
0.187749    0.405849    0.189727    0.216675    
0.238959    0.174973    0.441529    0.144539    
0.131070    0.417834    0.131912    0.319184    
0.195749    0.196915    0.435700    0.171636    
Consensus sequence: HVBVTGACCCSGBVBV

Alignment:
VBVBCSGGGTCAVBBH
--AWVDAGGTCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_primary                      Original Motif                          Original Motif                          Forward        3              10             0.034177       

Species: Mus musculus

Original motif
0.223704    0.280688    0.251889    0.243719    
0.198683    0.190981    0.267970    0.342366    
0.150012    0.319579    0.206063    0.324347    
0.274896    0.302572    0.238597    0.183935    
0.438853    0.331148    0.021186    0.208812    
0.133937    0.027342    0.832490    0.006231    
0.141462    0.002336    0.854359    0.001843    
0.003464    0.000753    0.987433    0.008349    
0.004388    0.000692    0.884494    0.110426    
0.003808    0.001605    0.016793    0.977794    
0.001992    0.976605    0.003739    0.017664    
0.881237    0.089981    0.026017    0.002764    
0.735041    0.106592    0.083260    0.075107    
0.164419    0.315518    0.181031    0.339032    
0.228285    0.176364    0.157583    0.437768    
0.233407    0.193567    0.327076    0.245951    
0.320479    0.312566    0.195701    0.171254    
Consensus sequence: BDBVMGGGGTCAABHDV

Reverse complement motif
0.171254    0.312566    0.195701    0.320479    
0.233407    0.327076    0.193567    0.245951    
0.437768    0.176364    0.157583    0.228285    
0.339032    0.315518    0.181031    0.164419    
0.075107    0.106592    0.083260    0.735041    
0.002764    0.089981    0.026017    0.881237    
0.001992    0.003739    0.976605    0.017664    
0.977794    0.001605    0.016793    0.003808    
0.004388    0.884494    0.000692    0.110426    
0.003464    0.987433    0.000753    0.008349    
0.141462    0.854359    0.002336    0.001843    
0.133937    0.832490    0.027342    0.006231    
0.208812    0.331148    0.021186    0.438853    
0.274896    0.238597    0.302572    0.183935    
0.324347    0.319579    0.206063    0.150012    
0.342366    0.190981    0.267970    0.198683    
0.223704    0.251889    0.280688    0.243719    
Consensus sequence: BHHVTTGACCCCYVVDB

Alignment:
BDBVMGGGGTCAABHDV
--AWVDAGGTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Reverse Complement                      Original Motif                          Forward        6              10             0.036357       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
DBHBDTGACCCCDHVHB
-----TGACCTDVWT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_secondary                    Original Motif                          Original Motif                          Backward       6              10             0.039128       

Species: Mus musculus

Original motif
0.252126    0.268706    0.351590    0.127578    
0.158171    0.083434    0.389646    0.368749    
0.180010    0.290882    0.279192    0.249916    
0.206905    0.249360    0.275438    0.268296    
0.756588    0.046202    0.023921    0.173289    
0.018262    0.022596    0.949143    0.010000    
0.206468    0.046491    0.745475    0.001566    
0.005511    0.001141    0.983152    0.010196    
0.004791    0.001893    0.985951    0.007365    
0.027643    0.001133    0.008565    0.962659    
0.002459    0.970934    0.007826    0.018780    
0.924387    0.003164    0.071225    0.001224    
0.419387    0.230189    0.111588    0.238836    
0.290954    0.163823    0.341233    0.203991    
0.196768    0.281307    0.313868    0.208056    
0.128428    0.260428    0.378607    0.232537    
0.269305    0.378895    0.123480    0.228320    
Consensus sequence: VKBBAGGGGTCAHDBBH

Reverse complement motif
0.269305    0.123480    0.378895    0.228320    
0.128428    0.378607    0.260428    0.232537    
0.196768    0.313868    0.281307    0.208056    
0.290954    0.341233    0.163823    0.203991    
0.238836    0.230189    0.111588    0.419387    
0.001224    0.003164    0.071225    0.924387    
0.002459    0.007826    0.970934    0.018780    
0.962659    0.001133    0.008565    0.027643    
0.004791    0.985951    0.001893    0.007365    
0.005511    0.983152    0.001141    0.010196    
0.206468    0.745475    0.046491    0.001566    
0.018262    0.949143    0.022596    0.010000    
0.173289    0.046202    0.023921    0.756588    
0.206905    0.275438    0.249360    0.268296    
0.180010    0.279192    0.290882    0.249916    
0.158171    0.389646    0.083434    0.368749    
0.252126    0.351590    0.268706    0.127578    
Consensus sequence: DBBHHTGACCCCTBBYV

Alignment:
VKBBAGGGGTCAHDBBH
--AWVDAGGTCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_secondary                     Reverse Complement                      Original Motif                          Backward       2              10             0.044421       

Species: Mus musculus

Original motif
0.204898    0.149951    0.363373    0.281778    
0.112946    0.243700    0.437938    0.205417    
0.205232    0.182319    0.383143    0.229305    
0.242063    0.152491    0.296426    0.309020    
0.312922    0.028523    0.585026    0.073529    
0.006754    0.011178    0.005346    0.976723    
0.127589    0.005562    0.859436    0.007414    
0.010046    0.974694    0.007001    0.008259    
0.010262    0.974769    0.006069    0.008899    
0.015122    0.966101    0.007970    0.010807    
0.556511    0.167389    0.114635    0.161465    
0.586459    0.044786    0.073450    0.295305    
0.297710    0.194666    0.223655    0.283969    
0.303202    0.250809    0.206475    0.239514    
0.279338    0.160655    0.314457    0.245550    
0.266477    0.266890    0.299970    0.166662    
Consensus sequence: DBDDRTGCCCAWDHDV

Reverse complement motif
0.266477    0.299970    0.266890    0.166662    
0.279338    0.314457    0.160655    0.245550    
0.239514    0.250809    0.206475    0.303202    
0.283969    0.194666    0.223655    0.297710    
0.295305    0.044786    0.073450    0.586459    
0.161465    0.167389    0.114635    0.556511    
0.015122    0.007970    0.966101    0.010807    
0.010262    0.006069    0.974769    0.008899    
0.010046    0.007001    0.974694    0.008259    
0.127589    0.859436    0.005562    0.007414    
0.976723    0.011178    0.005346    0.006754    
0.312922    0.585026    0.028523    0.073529    
0.309020    0.152491    0.296426    0.242063    
0.205232    0.383143    0.182319    0.229305    
0.112946    0.437938    0.243700    0.205417    
0.204898    0.363373    0.149951    0.281778    
Consensus sequence: VHHDWTGGGCAMDHBH

Alignment:
DBDDRTGCCCAWDHDV
-----TGACCTDVWT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_primary                     Original Motif                          Reverse Complement                      Forward        1              10             0.046143       

Species: Mus musculus

Original motif
0.347837    0.112349    0.403713    0.136102    
0.298329    0.175329    0.324534    0.201809    
0.421791    0.222553    0.113615    0.242041    
0.387506    0.130670    0.161435    0.320389    
0.197183    0.244864    0.304611    0.253342    
0.345884    0.188786    0.278290    0.187041    
0.228203    0.142148    0.408269    0.221381    
0.037126    0.006772    0.231775    0.724328    
0.055214    0.942800    0.001192    0.000794    
0.974119    0.004466    0.015535    0.005880    
0.000300    0.958145    0.007498    0.034056    
0.034056    0.007498    0.958145    0.000300    
0.005880    0.015535    0.004466    0.974119    
0.000794    0.001192    0.942800    0.055214    
0.724328    0.231775    0.006772    0.037126    
0.015720    0.466476    0.315208    0.202596    
0.173670    0.355170    0.210710    0.260449    
0.407419    0.261539    0.134430    0.196612    
0.351478    0.209698    0.262426    0.176399    
0.207869    0.284582    0.198951    0.308598    
0.434482    0.113724    0.184408    0.267386    
0.211144    0.363745    0.173978    0.251133    
Consensus sequence: RDHDBVDTCACGTGASBHVHDH

Reverse complement motif
0.211144    0.173978    0.363745    0.251133    
0.267386    0.113724    0.184408    0.434482    
0.308598    0.284582    0.198951    0.207869    
0.176399    0.209698    0.262426    0.351478    
0.196612    0.261539    0.134430    0.407419    
0.173670    0.210710    0.355170    0.260449    
0.015720    0.315208    0.466476    0.202596    
0.037126    0.231775    0.006772    0.724328    
0.000794    0.942800    0.001192    0.055214    
0.974119    0.015535    0.004466    0.005880    
0.034056    0.958145    0.007498    0.000300    
0.000300    0.007498    0.958145    0.034056    
0.005880    0.004466    0.015535    0.974119    
0.055214    0.001192    0.942800    0.000794    
0.724328    0.006772    0.231775    0.037126    
0.228203    0.408269    0.142148    0.221381    
0.187041    0.188786    0.278290    0.345884    
0.197183    0.304611    0.244864    0.253342    
0.320389    0.130670    0.161435    0.387506    
0.242041    0.222553    0.113615    0.421791    
0.298329    0.324534    0.175329    0.201809    
0.347837    0.403713    0.112349    0.136102    
Consensus sequence: DDHBHBSTCACGTGAHBBDHHM

Alignment:
DDHBHBSTCACGTGAHBBDHHM
AWVDAGGTCA------------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Original Motif                          Backward       3              10             0.048957       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-----------TGACCTDVWT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 63		Motif name: MIZF

Original motif
0.100000    0.300000    0.250000    0.350000    
0.650000    0.050000    0.000000    0.300000    
1.000000    0.000000    0.000000    0.000000    
0.100000    0.850000    0.050000    0.000000    
0.000000    0.000000    0.950000    0.050000    
0.000000    0.050000    0.000000    0.950000    
0.000000    0.950000    0.000000    0.050000    
0.000000    0.900000    0.100000    0.000000    
0.000000    0.000000    0.950000    0.050000    
0.100000    0.650000    0.050000    0.200000    
Consensus sequence: BAACGTCCGC

Reserve complement motif
0.100000    0.050000    0.650000    0.200000    
0.000000    0.950000    0.000000    0.050000    
0.000000    0.100000    0.900000    0.000000    
0.000000    0.000000    0.950000    0.050000    
0.950000    0.050000    0.000000    0.000000    
0.000000    0.950000    0.000000    0.050000    
0.100000    0.050000    0.850000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.300000    0.050000    0.000000    0.650000    
0.350000    0.300000    0.250000    0.100000    
Consensus sequence: GCGGACGTTV


************************************************************************ Best Matches for Motif ID 63 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00419        Spic                               Original Motif                          Reverse Complement                      Forward        1              10             0.000000       

Species: Mus musculus

Original motif
0.372554    0.181557    0.296001    0.149888    
0.734552    0.057250    0.044752    0.163446    
0.707604    0.045049    0.110341    0.137006    
0.637848    0.057252    0.071934    0.232966    
0.125449    0.108933    0.689441    0.076176    
0.266215    0.517339    0.207018    0.009428    
0.015016    0.002582    0.979670    0.002732    
0.004303    0.002322    0.989973    0.003401    
0.982327    0.003552    0.003393    0.010727    
0.974155    0.001662    0.003294    0.020889    
0.040023    0.128522    0.821560    0.009894    
0.027635    0.045828    0.016297    0.910239    
0.317500    0.045635    0.172234    0.464631    
0.342838    0.107812    0.284775    0.264576    
Consensus sequence: VAAAGMGGAAGTWD

Reverse complement motif
0.264576    0.107812    0.284775    0.342838    
0.464631    0.045635    0.172234    0.317500    
0.910239    0.045828    0.016297    0.027635    
0.040023    0.821560    0.128522    0.009894    
0.020889    0.001662    0.003294    0.974155    
0.010727    0.003552    0.003393    0.982327    
0.004303    0.989973    0.002322    0.003401    
0.015016    0.979670    0.002582    0.002732    
0.266215    0.207018    0.517339    0.009428    
0.125449    0.689441    0.108933    0.076176    
0.232966    0.057252    0.071934    0.637848    
0.137006    0.045049    0.110341    0.707604    
0.163446    0.057250    0.044752    0.734552    
0.149888    0.181557    0.296001    0.372554    
Consensus sequence: DWACTTCCRCTTTB

Alignment:
VAAAGMGGAAGTWD
BAACGTCCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00409        Elf5                               Original Motif                          Reverse Complement                      Forward        1              10             0.003800       

Species: Mus musculus

Original motif
0.179167    0.229135    0.279326    0.312372    
0.421239    0.102900    0.145609    0.330252    
0.791978    0.009721    0.028951    0.169350    
0.237609    0.375543    0.161526    0.225321    
0.145845    0.325411    0.516045    0.012699    
0.431007    0.516333    0.051679    0.000982    
0.005750    0.001408    0.990928    0.001915    
0.002025    0.001886    0.992021    0.004068    
0.986405    0.001705    0.001039    0.010851    
0.950652    0.003619    0.000482    0.045248    
0.165221    0.013897    0.819076    0.001805    
0.032042    0.049374    0.014632    0.903953    
0.285325    0.108010    0.127373    0.479292    
0.366131    0.141246    0.290661    0.201963    
Consensus sequence: BWAHSMGGAAGTWD

Reverse complement motif
0.201963    0.141246    0.290661    0.366131    
0.479292    0.108010    0.127373    0.285325    
0.903953    0.049374    0.014632    0.032042    
0.165221    0.819076    0.013897    0.001805    
0.045248    0.003619    0.000482    0.950652    
0.010851    0.001705    0.001039    0.986405    
0.002025    0.992021    0.001886    0.004068    
0.005750    0.990928    0.001408    0.001915    
0.431007    0.051679    0.516333    0.000982    
0.145845    0.516045    0.325411    0.012699    
0.237609    0.161526    0.375543    0.225321    
0.169350    0.009721    0.028951    0.791978    
0.330252    0.102900    0.145609    0.421239    
0.312372    0.229135    0.279326    0.179167    
Consensus sequence: DWACTTCCRSDTWV

Alignment:
DWACTTCCRSDTWV
BAACGTCCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00413        Elf4                               Original Motif                          Original Motif                          Backward       5              10             0.012410       

Species: Mus musculus

Original motif
0.349744    0.139466    0.209326    0.301464    
0.080478    0.359482    0.307083    0.252956    
0.145756    0.213763    0.350557    0.289924    
0.317307    0.199359    0.096089    0.387245    
0.868576    0.009724    0.088821    0.032878    
0.001975    0.827004    0.014159    0.156862    
0.045494    0.000985    0.001907    0.951615    
0.011012    0.001203    0.002186    0.985599    
0.002743    0.992908    0.002226    0.002123    
0.001498    0.990840    0.001556    0.006106    
0.000951    0.005138    0.880591    0.113319    
0.003127    0.107962    0.867980    0.020930    
0.156602    0.055355    0.396563    0.391480    
0.421246    0.049379    0.084495    0.444880    
0.223879    0.068063    0.203809    0.504249    
0.144100    0.323579    0.131544    0.400777    
Consensus sequence: DBBHACTTCCGGKWTH

Reverse complement motif
0.400777    0.323579    0.131544    0.144100    
0.504249    0.068063    0.203809    0.223879    
0.444880    0.049379    0.084495    0.421246    
0.156602    0.396563    0.055355    0.391480    
0.003127    0.867980    0.107962    0.020930    
0.000951    0.880591    0.005138    0.113319    
0.001498    0.001556    0.990840    0.006106    
0.002743    0.002226    0.992908    0.002123    
0.985599    0.001203    0.002186    0.011012    
0.951615    0.000985    0.001907    0.045494    
0.001975    0.014159    0.827004    0.156862    
0.032878    0.009724    0.088821    0.868576    
0.387245    0.199359    0.096089    0.317307    
0.145756    0.350557    0.213763    0.289924    
0.080478    0.307083    0.359482    0.252956    
0.301464    0.139466    0.209326    0.349744    
Consensus sequence: HAWYCCGGAAGTHBBD

Alignment:
DBBHACTTCCGGKWTH
--BAACGTCCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00404        Elf2                               Original Motif                          Original Motif                          Forward        3              10             0.012835       

Species: Mus musculus

Original motif
0.381592    0.198656    0.201326    0.218426    
0.091509    0.331644    0.302830    0.274017    
0.165404    0.272650    0.352528    0.209418    
0.322145    0.255685    0.129399    0.292771    
0.853490    0.012857    0.078563    0.055090    
0.002655    0.792907    0.026436    0.178002    
0.058923    0.001063    0.002976    0.937038    
0.014944    0.001369    0.002865    0.980822    
0.003786    0.992305    0.002102    0.001807    
0.001365    0.988969    0.001554    0.008111    
0.001527    0.009592    0.891056    0.097824    
0.003671    0.143708    0.836117    0.016503    
0.242982    0.061527    0.305342    0.390148    
0.426709    0.117673    0.096260    0.359357    
0.202520    0.113885    0.262005    0.421589    
0.137957    0.359367    0.163919    0.338758    
Consensus sequence: DBBHACTTCCGGDWDB

Reverse complement motif
0.137957    0.163919    0.359367    0.338758    
0.421589    0.113885    0.262005    0.202520    
0.359357    0.117673    0.096260    0.426709    
0.390148    0.061527    0.305342    0.242982    
0.003671    0.836117    0.143708    0.016503    
0.001527    0.891056    0.009592    0.097824    
0.001365    0.001554    0.988969    0.008111    
0.003786    0.002102    0.992305    0.001807    
0.980822    0.001369    0.002865    0.014944    
0.937038    0.001063    0.002976    0.058923    
0.002655    0.026436    0.792907    0.178002    
0.055090    0.012857    0.078563    0.853490    
0.292771    0.255685    0.129399    0.322145    
0.165404    0.352528    0.272650    0.209418    
0.091509    0.302830    0.331644    0.274017    
0.218426    0.198656    0.201326    0.381592    
Consensus sequence: BDWDCCGGAAGTHBBD

Alignment:
DBBHACTTCCGGDWDB
--BAACGTCCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00085        Sfpi1_primary                      Original Motif                          Reverse Complement                      Backward       5              10             0.014152       

Species: Mus musculus

Original motif
0.211586    0.273653    0.234763    0.279998    
0.298032    0.104818    0.290385    0.306764    
0.593467    0.048056    0.154602    0.203875    
0.459746    0.052697    0.169949    0.317608    
0.188623    0.155357    0.591543    0.064477    
0.402746    0.286227    0.290285    0.020742    
0.048569    0.001240    0.946397    0.003793    
0.004354    0.001387    0.990819    0.003441    
0.974272    0.001416    0.001466    0.022847    
0.938748    0.003090    0.000833    0.057329    
0.045831    0.270321    0.674644    0.009204    
0.055664    0.092552    0.026061    0.825722    
0.301235    0.122653    0.267039    0.309073    
0.278680    0.276099    0.219159    0.226061    
Consensus sequence: BDAWGVGGAAGTDH

Reverse complement motif
0.226061    0.276099    0.219159    0.278680    
0.309073    0.122653    0.267039    0.301235    
0.825722    0.092552    0.026061    0.055664    
0.045831    0.674644    0.270321    0.009204    
0.057329    0.003090    0.000833    0.938748    
0.022847    0.001416    0.001466    0.974272    
0.004354    0.990819    0.001387    0.003441    
0.048569    0.946397    0.001240    0.003793    
0.020742    0.286227    0.290285    0.402746    
0.188623    0.591543    0.155357    0.064477    
0.317608    0.052697    0.169949    0.459746    
0.203875    0.048056    0.154602    0.593467    
0.306764    0.104818    0.290385    0.298032    
0.279998    0.273653    0.234763    0.211586    
Consensus sequence: HDACTTCCBCWTDV

Alignment:
HDACTTCCBCWTDV
BAACGTCCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00423        Gm5454                             Reverse Complement                      Reverse Complement                      Forward        5              10             0.014467       

Species: Mus musculus

Original motif
0.189373    0.396200    0.238705    0.175722    
0.271321    0.176458    0.265627    0.286594    
0.266229    0.324575    0.201073    0.208123    
0.468162    0.220280    0.143160    0.168399    
0.828556    0.009006    0.155963    0.006475    
0.000965    0.820477    0.022769    0.155789    
0.259255    0.001186    0.002221    0.737339    
0.006364    0.001548    0.002346    0.989741    
0.002267    0.993010    0.002221    0.002502    
0.002365    0.993176    0.001987    0.002473    
0.000528    0.001790    0.953300    0.044382    
0.002238    0.032836    0.958384    0.006542    
0.230236    0.143256    0.029199    0.597309    
0.285226    0.282789    0.207699    0.224286    
0.271642    0.251065    0.289590    0.187703    
0.219881    0.390525    0.157704    0.231890    
Consensus sequence: VDHHACTTCCGGTHVH

Reverse complement motif
0.219881    0.157704    0.390525    0.231890    
0.271642    0.289590    0.251065    0.187703    
0.224286    0.282789    0.207699    0.285226    
0.597309    0.143256    0.029199    0.230236    
0.002238    0.958384    0.032836    0.006542    
0.000528    0.953300    0.001790    0.044382    
0.002365    0.001987    0.993176    0.002473    
0.002267    0.002221    0.993010    0.002502    
0.989741    0.001548    0.002346    0.006364    
0.737339    0.001186    0.002221    0.259255    
0.000965    0.022769    0.820477    0.155789    
0.006475    0.009006    0.155963    0.828556    
0.168399    0.220280    0.143160    0.468162    
0.266229    0.201073    0.324575    0.208123    
0.286594    0.176458    0.265627    0.271321    
0.189373    0.238705    0.396200    0.175722    
Consensus sequence: DVHACCGGAAGTHDDV

Alignment:
DVHACCGGAAGTHDDV
----GCGGACGTTV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00412        Etv5                               Reverse Complement                      Reverse Complement                      Backward       3              10             0.015583       

Species: Mus musculus

Original motif
0.163863    0.478739    0.234818    0.122579    
0.298203    0.128058    0.250907    0.322832    
0.304907    0.352627    0.141386    0.201081    
0.505689    0.209260    0.108917    0.176133    
0.755659    0.019470    0.214957    0.009914    
0.001392    0.808267    0.034638    0.155703    
0.341720    0.002244    0.003969    0.652068    
0.011512    0.000955    0.002369    0.985163    
0.003522    0.992404    0.002813    0.001261    
0.002303    0.993216    0.002157    0.002324    
0.000502    0.002139    0.938005    0.059354    
0.004246    0.041666    0.947484    0.006604    
0.177758    0.143265    0.023436    0.655542    
0.278473    0.235398    0.218872    0.267257    
0.225212    0.275898    0.211908    0.286982    
0.193184    0.385135    0.190634    0.231048    
Consensus sequence: VDHAACWTCCGGTHHH

Reverse complement motif
0.193184    0.190634    0.385135    0.231048    
0.286982    0.275898    0.211908    0.225212    
0.267257    0.235398    0.218872    0.278473    
0.655542    0.143265    0.023436    0.177758    
0.004246    0.947484    0.041666    0.006604    
0.000502    0.938005    0.002139    0.059354    
0.002303    0.002157    0.993216    0.002324    
0.003522    0.002813    0.992404    0.001261    
0.985163    0.000955    0.002369    0.011512    
0.652068    0.002244    0.003969    0.341720    
0.001392    0.034638    0.808267    0.155703    
0.009914    0.019470    0.214957    0.755659    
0.176133    0.209260    0.108917    0.505689    
0.304907    0.141386    0.352627    0.201081    
0.322832    0.128058    0.250907    0.298203    
0.163863    0.234818    0.478739    0.122579    
Consensus sequence: DHHACCGGAWGTTDDV

Alignment:
DHHACCGGAWGTTDDV
----GCGGACGTTV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00015        Ehf_primary                        Reverse Complement                      Original Motif                          Forward        6              10             0.016202       

Species: Mus musculus

Original motif
0.327238    0.304037    0.232174    0.136551    
0.198306    0.222758    0.316421    0.262515    
0.252373    0.217079    0.267210    0.263337    
0.633781    0.039800    0.036914    0.289504    
0.160405    0.384709    0.220671    0.234215    
0.134205    0.590541    0.266074    0.009179    
0.210933    0.755978    0.030378    0.002710    
0.011856    0.001472    0.984138    0.002533    
0.003235    0.001605    0.989465    0.005695    
0.984189    0.002418    0.002842    0.010551    
0.884492    0.002651    0.002095    0.110762    
0.249047    0.054607    0.690939    0.005407    
0.124602    0.154669    0.047597    0.673132    
0.375217    0.110561    0.230374    0.283848    
0.402951    0.186789    0.219551    0.190710    
Consensus sequence: VBDABCCGGAAGTDD

Reverse complement motif
0.190710    0.186789    0.219551    0.402951    
0.283848    0.110561    0.230374    0.375217    
0.673132    0.154669    0.047597    0.124602    
0.249047    0.690939    0.054607    0.005407    
0.110762    0.002651    0.002095    0.884492    
0.010551    0.002418    0.002842    0.984189    
0.003235    0.989465    0.001605    0.005695    
0.011856    0.984138    0.001472    0.002533    
0.210933    0.030378    0.755978    0.002710    
0.134205    0.266074    0.590541    0.009179    
0.160405    0.220671    0.384709    0.234215    
0.289504    0.039800    0.036914    0.633781    
0.252373    0.267210    0.217079    0.263337    
0.198306    0.316421    0.222758    0.262515    
0.136551    0.304037    0.232174    0.327238    
Consensus sequence: DDACTTCCGGBTHBB

Alignment:
VBDABCCGGAAGTDD
-----GCGGACGTTV

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00418        Etv6                               Original Motif                          Original Motif                          Forward        4              10             0.017123       

Species: Mus musculus

Original motif
0.354972    0.069107    0.299350    0.276571    
0.209701    0.408003    0.227382    0.154914    
0.284336    0.375266    0.162604    0.177794    
0.176569    0.181438    0.342172    0.299820    
0.106551    0.204378    0.060299    0.628772    
0.884088    0.003252    0.103113    0.009546    
0.001110    0.704391    0.006294    0.288205    
0.014992    0.000892    0.001401    0.982714    
0.004842    0.001887    0.002470    0.990801    
0.002724    0.992864    0.002206    0.002206    
0.001792    0.991200    0.001615    0.005393    
0.005151    0.010157    0.940259    0.044433    
0.017780    0.199839    0.761921    0.020459    
0.230834    0.269936    0.119652    0.379577    
0.233019    0.093692    0.034743    0.638546    
0.194739    0.181763    0.175340    0.448159    
0.145452    0.293709    0.335917    0.224922    
Consensus sequence: DVHBTACTTCCGGHTHB

Reverse complement motif
0.145452    0.335917    0.293709    0.224922    
0.448159    0.181763    0.175340    0.194739    
0.638546    0.093692    0.034743    0.233019    
0.379577    0.269936    0.119652    0.230834    
0.017780    0.761921    0.199839    0.020459    
0.005151    0.940259    0.010157    0.044433    
0.001792    0.001615    0.991200    0.005393    
0.002724    0.002206    0.992864    0.002206    
0.990801    0.001887    0.002470    0.004842    
0.982714    0.000892    0.001401    0.014992    
0.001110    0.006294    0.704391    0.288205    
0.009546    0.003252    0.103113    0.884088    
0.628772    0.204378    0.060299    0.106551    
0.176569    0.342172    0.181438    0.299820    
0.284336    0.162604    0.375266    0.177794    
0.209701    0.227382    0.408003    0.154914    
0.276571    0.069107    0.299350    0.354972    
Consensus sequence: BHAHCCGGAAGTABDVD

Alignment:
DVHBTACTTCCGGHTHB
---BAACGTCCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00421        Etv1                               Reverse Complement                      Original Motif                          Forward        6              10             0.018415       

Species: Mus musculus

Original motif
0.481848    0.274378    0.165047    0.078727    
0.153123    0.322109    0.385794    0.138974    
0.257711    0.198309    0.118559    0.425422    
0.102329    0.255032    0.373097    0.269542    
0.655995    0.027594    0.168796    0.147615    
0.012836    0.906067    0.077134    0.003962    
0.079806    0.917232    0.002438    0.000524    
0.005217    0.001765    0.991859    0.001159    
0.001691    0.002097    0.993588    0.002624    
0.991087    0.001016    0.001937    0.005961    
0.751484    0.005147    0.002324    0.241044    
0.112494    0.076460    0.805095    0.005951    
0.012019    0.198497    0.022413    0.767071    
0.482843    0.140306    0.249898    0.126953    
0.298792    0.191769    0.286874    0.222565    
0.395216    0.302575    0.172247    0.129961    
0.364642    0.219734    0.190320    0.225304    
Consensus sequence: MVHBACCGGAAGTVDVH

Reverse complement motif
0.225304    0.219734    0.190320    0.364642    
0.129961    0.302575    0.172247    0.395216    
0.222565    0.191769    0.286874    0.298792    
0.126953    0.140306    0.249898    0.482843    
0.767071    0.198497    0.022413    0.012019    
0.112494    0.805095    0.076460    0.005951    
0.241044    0.005147    0.002324    0.751484    
0.005961    0.001016    0.001937    0.991087    
0.001691    0.993588    0.002097    0.002624    
0.005217    0.991859    0.001765    0.001159    
0.079806    0.002438    0.917232    0.000524    
0.012836    0.077134    0.906067    0.003962    
0.147615    0.027594    0.168796    0.655995    
0.102329    0.373097    0.255032    0.269542    
0.425422    0.198309    0.118559    0.257711    
0.153123    0.385794    0.322109    0.138974    
0.078727    0.274378    0.165047    0.481848    
Consensus sequence: HBDBACTTCCGGTBHVY

Alignment:
MVHBACCGGAAGTVDVH
-----GCGGACGTTV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 64		Motif name: PPARGRXRA

Original motif
0.109685    0.369895    0.373396    0.147025    
0.117716    0.193473    0.148019    0.540793    
0.453488    0.026744    0.427907    0.091860    
0.116144    0.003484    0.779326    0.101045    
0.161253    0.017401    0.781903    0.039443    
0.168213    0.149652    0.458237    0.223898    
0.082271    0.633835    0.207416    0.076477    
0.949015    0.024334    0.017381    0.009270    
0.604867    0.055620    0.312862    0.026651    
0.825231    0.005787    0.158565    0.010417    
0.095017    0.002317    0.888760    0.013905    
0.047509    0.010429    0.803013    0.139050    
0.025492    0.114716    0.304751    0.555041    
0.062645    0.643852    0.167053    0.126450    
0.784223    0.067285    0.054524    0.093968    
Consensus sequence: BTRGGDCARAGGKCA

Reserve complement motif
0.093968    0.067285    0.054524    0.784223    
0.062645    0.167053    0.643852    0.126450    
0.555041    0.114716    0.304751    0.025492    
0.047509    0.803013    0.010429    0.139050    
0.095017    0.888760    0.002317    0.013905    
0.010417    0.005787    0.158565    0.825231    
0.026651    0.055620    0.312862    0.604867    
0.009270    0.024334    0.017381    0.949015    
0.082271    0.207416    0.633835    0.076477    
0.168213    0.458237    0.149652    0.223898    
0.161253    0.781903    0.017401    0.039443    
0.116144    0.779326    0.003484    0.101045    
0.091860    0.026744    0.427907    0.453488    
0.540793    0.193473    0.148019    0.117716    
0.109685    0.373396    0.369895    0.147025    
Consensus sequence: TGRCCTKTGHCCKAB


************************************************************************ Best Matches for Motif ID 64 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Backward       2              15             0.030495       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
-BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Original Motif                          Forward        2              15             0.031947       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHASATCAAAGVRHHH
-BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Original Motif                          Backward       2              15             0.032779       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH
-BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00082        Zfp187_secondary                   Original Motif                          Reverse Complement                      Backward       2              15             0.033418       

Species: Mus musculus

Original motif
0.173063    0.169680    0.440836    0.216421    
0.353277    0.179996    0.249403    0.217325    
0.307337    0.038055    0.616380    0.038228    
0.316636    0.564670    0.023732    0.094962    
0.015484    0.923764    0.019439    0.041313    
0.011243    0.956300    0.009443    0.023014    
0.062273    0.107531    0.010739    0.819456    
0.126670    0.201521    0.192005    0.479803    
0.093090    0.045924    0.835792    0.025194    
0.020165    0.015483    0.009567    0.954786    
0.010873    0.672448    0.004559    0.312121    
0.018002    0.846860    0.017605    0.117533    
0.335703    0.408170    0.104095    0.152031    
0.150308    0.362296    0.067408    0.419988    
0.286490    0.242211    0.176532    0.294767    
0.265022    0.249655    0.272219    0.213104    
Consensus sequence: DDGMCCTBGTCCHYHV

Reverse complement motif
0.265022    0.272219    0.249655    0.213104    
0.294767    0.242211    0.176532    0.286490    
0.419988    0.362296    0.067408    0.150308    
0.335703    0.104095    0.408170    0.152031    
0.018002    0.017605    0.846860    0.117533    
0.010873    0.004559    0.672448    0.312121    
0.954786    0.015483    0.009567    0.020165    
0.093090    0.835792    0.045924    0.025194    
0.479803    0.201521    0.192005    0.126670    
0.819456    0.107531    0.010739    0.062273    
0.011243    0.009443    0.956300    0.023014    
0.015484    0.019439    0.923764    0.041313    
0.316636    0.023732    0.564670    0.094962    
0.307337    0.616380    0.038055    0.038228    
0.217325    0.179996    0.249403    0.353277    
0.173063    0.440836    0.169680    0.216421    
Consensus sequence: VHMDGGACVAGGRCDH

Alignment:
VHMDGGACVAGGRCDH
BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Original Motif                          Backward       2              15             0.035254       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HBDDDAACAAAGRVBHH
-BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Original Motif                          Backward       2              15             0.035878       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HBDDRAACAAAGRABHH
-BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00101        Sox12_secondary                    Reverse Complement                      Reverse Complement                      Backward       2              15             0.037473       

Species: Mus musculus

Original motif
0.378898    0.318901    0.205859    0.096341    
0.352524    0.321236    0.224504    0.101736    
0.323551    0.182056    0.210897    0.283496    
0.135539    0.325230    0.208031    0.331200    
0.663106    0.055471    0.154459    0.126963    
0.051748    0.292567    0.537307    0.118378    
0.886489    0.042361    0.035742    0.035408    
0.043647    0.688744    0.094358    0.173252    
0.882052    0.039818    0.018899    0.059231    
0.864171    0.036011    0.068363    0.031455    
0.790158    0.046868    0.041594    0.121379    
0.087447    0.143905    0.707798    0.060849    
0.295919    0.132479    0.485703    0.085899    
0.653156    0.133004    0.110012    0.103828    
0.351764    0.131771    0.217730    0.298736    
0.203977    0.196773    0.099958    0.499292    
Consensus sequence: VVDBASACAAAGRADH

Reverse complement motif
0.499292    0.196773    0.099958    0.203977    
0.298736    0.131771    0.217730    0.351764    
0.103828    0.133004    0.110012    0.653156    
0.295919    0.485703    0.132479    0.085899    
0.087447    0.707798    0.143905    0.060849    
0.121379    0.046868    0.041594    0.790158    
0.031455    0.036011    0.068363    0.864171    
0.059231    0.039818    0.018899    0.882052    
0.043647    0.094358    0.688744    0.173252    
0.035408    0.042361    0.035742    0.886489    
0.051748    0.537307    0.292567    0.118378    
0.126963    0.055471    0.154459    0.663106    
0.331200    0.325230    0.208031    0.135539    
0.283496    0.182056    0.210897    0.323551    
0.101736    0.321236    0.224504    0.352524    
0.096341    0.318901    0.205859    0.378898    
Consensus sequence: HDTMCTTTGTSTVDBB

Alignment:
HDTMCTTTGTSTVDBB
TGRCCTKTGHCCKAB-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Original Motif                          Reverse Complement                      Backward       2              15             0.037976       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
BDDASATCAAAGGMDDD
-BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00093        Klf7_primary                       Original Motif                          Reverse Complement                      Backward       2              15             0.038273       

Species: Mus musculus

Original motif
0.204514    0.198353    0.171218    0.425915    
0.167188    0.296785    0.246082    0.289946    
0.267330    0.148001    0.398674    0.185994    
0.549386    0.060167    0.337100    0.053347    
0.050746    0.900013    0.022169    0.027073    
0.037905    0.920332    0.008360    0.033403    
0.410356    0.566702    0.016267    0.006675    
0.009526    0.982354    0.001060    0.007060    
0.204292    0.001084    0.748567    0.046056    
0.003955    0.988490    0.002821    0.004735    
0.004264    0.988826    0.004311    0.002598    
0.002758    0.929549    0.001244    0.066448    
0.260332    0.421683    0.024720    0.293265    
0.184798    0.247697    0.085237    0.482268    
0.347537    0.197344    0.139961    0.315159    
0.255281    0.166620    0.242297    0.335802    
Consensus sequence: HBDRCCMCGCCCHHHD

Reverse complement motif
0.335802    0.166620    0.242297    0.255281    
0.315159    0.197344    0.139961    0.347537    
0.482268    0.247697    0.085237    0.184798    
0.260332    0.024720    0.421683    0.293265    
0.002758    0.001244    0.929549    0.066448    
0.004264    0.004311    0.988826    0.002598    
0.003955    0.002821    0.988490    0.004735    
0.204292    0.748567    0.001084    0.046056    
0.009526    0.001060    0.982354    0.007060    
0.410356    0.016267    0.566702    0.006675    
0.037905    0.008360    0.920332    0.033403    
0.050746    0.022169    0.900013    0.027073    
0.053347    0.060167    0.337100    0.549386    
0.267330    0.398674    0.148001    0.185994    
0.167188    0.246082    0.296785    0.289946    
0.425915    0.198353    0.171218    0.204514    
Consensus sequence: DHHDGGGCGRGGKHBH

Alignment:
DHHDGGGCGRGGKHBH
BTRGGDCARAGGKCA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_secondary                     Original Motif                          Reverse Complement                      Forward        1              15             0.039717       

Species: Mus musculus

Original motif
0.313621    0.149049    0.200899    0.336432    
0.262644    0.147616    0.334882    0.254859    
0.175848    0.137857    0.292272    0.394023    
0.045910    0.364107    0.180535    0.409448    
0.093235    0.718630    0.093516    0.094619    
0.095552    0.724866    0.044589    0.134993    
0.058227    0.785149    0.029814    0.126810    
0.897368    0.023735    0.019064    0.059832    
0.043826    0.041750    0.020731    0.893692    
0.044268    0.013557    0.014689    0.927487    
0.102208    0.026005    0.709573    0.162214    
0.058404    0.046118    0.135257    0.760221    
0.303689    0.280676    0.320259    0.095375    
0.258633    0.262177    0.197029    0.282161    
0.564761    0.122466    0.194691    0.118082    
0.104738    0.358061    0.310533    0.226668    
0.267450    0.230099    0.197859    0.304593    
Consensus sequence: DDDYCCCATTGTVHABH

Reverse complement motif
0.304593    0.230099    0.197859    0.267450    
0.104738    0.310533    0.358061    0.226668    
0.118082    0.122466    0.194691    0.564761    
0.282161    0.262177    0.197029    0.258633    
0.303689    0.320259    0.280676    0.095375    
0.760221    0.046118    0.135257    0.058404    
0.102208    0.709573    0.026005    0.162214    
0.927487    0.013557    0.014689    0.044268    
0.893692    0.041750    0.020731    0.043826    
0.059832    0.023735    0.019064    0.897368    
0.058227    0.029814    0.785149    0.126810    
0.095552    0.044589    0.724866    0.134993    
0.093235    0.093516    0.718630    0.094619    
0.409448    0.364107    0.180535    0.045910    
0.394023    0.137857    0.292272    0.175848    
0.262644    0.334882    0.147616    0.254859    
0.336432    0.149049    0.200899    0.313621    
Consensus sequence: HBTHVACAATGGGMDHD

Alignment:
DDDYCCCATTGTVHABH
BTRGGDCARAGGKCA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 65		Motif name: Tcfcp2l1

Original motif
0.001968    0.925480    0.062715    0.009838    
0.069973    0.807513    0.005401    0.117113    
0.594508    0.005148    0.275803    0.124540    
0.005884    0.023780    0.967149    0.003187    
0.175477    0.336270    0.025698    0.462555    
0.098385    0.289280    0.062163    0.550171    
0.173924    0.397260    0.151174    0.277642    
0.357213    0.224939    0.252323    0.165526    
0.631540    0.069682    0.190954    0.107824    
0.394421    0.051382    0.310497    0.243700    
0.003669    0.933219    0.054795    0.008317    
0.061719    0.812148    0.002939    0.123194    
0.536555    0.007360    0.305937    0.150147    
0.012039    0.028993    0.954791    0.004177    
Consensus sequence: CCAGYYHVADCCRG

Reserve complement motif
0.012039    0.954791    0.028993    0.004177    
0.150147    0.007360    0.305937    0.536555    
0.061719    0.002939    0.812148    0.123194    
0.003669    0.054795    0.933219    0.008317    
0.243700    0.051382    0.310497    0.394421    
0.107824    0.069682    0.190954    0.631540    
0.165526    0.224939    0.252323    0.357213    
0.173924    0.151174    0.397260    0.277642    
0.550171    0.289280    0.062163    0.098385    
0.462555    0.336270    0.025698    0.175477    
0.005884    0.967149    0.023780    0.003187    
0.124540    0.005148    0.275803    0.594508    
0.069973    0.005401    0.807513    0.117113    
0.001968    0.062715    0.925480    0.009838    
Consensus sequence: CKGGDTBDMMCTGG


************************************************************************ Best Matches for Motif ID 65 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_secondary                    Original Motif                          Original Motif                          Backward       5              14             0.052725       

Species: Mus musculus

Original motif
0.177641    0.319872    0.115137    0.387350    
0.136644    0.182137    0.205873    0.475347    
0.254263    0.244280    0.165207    0.336250    
0.240415    0.207557    0.237497    0.314530    
0.271041    0.214702    0.364395    0.149863    
0.095475    0.320104    0.191738    0.392682    
0.500902    0.142722    0.026556    0.329820    
0.051221    0.023698    0.897245    0.027836    
0.922410    0.027509    0.024058    0.026023    
0.030735    0.070903    0.024248    0.874114    
0.242120    0.231992    0.225143    0.300745    
0.106956    0.220471    0.283490    0.389083    
0.152079    0.165830    0.135066    0.547025    
0.839205    0.051581    0.060119    0.049095    
0.041204    0.069147    0.070830    0.818819    
0.051861    0.848177    0.027599    0.072363    
0.383793    0.016807    0.397470    0.201931    
0.381899    0.215846    0.255908    0.146347    
0.094792    0.358651    0.280905    0.265652    
0.296132    0.181545    0.178433    0.343890    
0.301997    0.254722    0.108566    0.334714    
0.349481    0.270693    0.137507    0.242319    
Consensus sequence: HBHDVBWGATHBTATCRVBHHH

Reverse complement motif
0.242319    0.270693    0.137507    0.349481    
0.334714    0.254722    0.108566    0.301997    
0.343890    0.181545    0.178433    0.296132    
0.094792    0.280905    0.358651    0.265652    
0.146347    0.215846    0.255908    0.381899    
0.383793    0.397470    0.016807    0.201931    
0.051861    0.027599    0.848177    0.072363    
0.818819    0.069147    0.070830    0.041204    
0.049095    0.051581    0.060119    0.839205    
0.547025    0.165830    0.135066    0.152079    
0.389083    0.220471    0.283490    0.106956    
0.300745    0.231992    0.225143    0.242120    
0.874114    0.070903    0.024248    0.030735    
0.026023    0.027509    0.024058    0.922410    
0.051221    0.897245    0.023698    0.027836    
0.329820    0.142722    0.026556    0.500902    
0.392682    0.320104    0.191738    0.095475    
0.271041    0.364395    0.214702    0.149863    
0.314530    0.207557    0.237497    0.240415    
0.336250    0.244280    0.165207    0.254263    
0.475347    0.182137    0.205873    0.136644    
0.387350    0.319872    0.115137    0.177641    
Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Alignment:
HBHDVBWGATHBTATCRVBHHH
----CCAGYYHVADCCRG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Original Motif                          Original Motif                          Backward       1              14             0.055169       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
--------CCAGYYHVADCCRG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00005        Tcfap2a_secondary                  Original Motif                          Original Motif                          Forward        1              14             0.056098       

Species: Mus musculus

Original motif
0.198427    0.243196    0.159241    0.399136    
0.267754    0.388187    0.116811    0.227248    
0.448284    0.056403    0.414623    0.080691    
0.031469    0.826323    0.055436    0.086772    
0.035527    0.756642    0.022985    0.184845    
0.127338    0.316078    0.155806    0.400778    
0.135021    0.313650    0.287760    0.263570    
0.418892    0.082297    0.068352    0.430460    
0.201062    0.044735    0.711358    0.042845    
0.038934    0.022320    0.903763    0.034982    
0.201790    0.065554    0.460526    0.272130    
0.006890    0.786923    0.061853    0.144334    
0.460666    0.103658    0.196452    0.239224    
0.092272    0.204611    0.390375    0.312742    
Consensus sequence: HHRCCBBWGGDCDB

Reverse complement motif
0.092272    0.390375    0.204611    0.312742    
0.239224    0.103658    0.196452    0.460666    
0.006890    0.061853    0.786923    0.144334    
0.201790    0.460526    0.065554    0.272130    
0.038934    0.903763    0.022320    0.034982    
0.201062    0.711358    0.044735    0.042845    
0.430460    0.082297    0.068352    0.418892    
0.135021    0.287760    0.313650    0.263570    
0.400778    0.316078    0.155806    0.127338    
0.035527    0.022985    0.756642    0.184845    
0.031469    0.055436    0.826323    0.086772    
0.080691    0.056403    0.414623    0.448284    
0.267754    0.116811    0.388187    0.227248    
0.399136    0.243196    0.159241    0.198427    
Consensus sequence: BDGHCCWBVGGKDH

Alignment:
HHRCCBBWGGDCDB
CCAGYYHVADCCRG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00013        Gabpa_secondary                    Original Motif                          Original Motif                          Backward       3              14             0.056647       

Species: Mus musculus

Original motif
0.233133    0.551828    0.139009    0.076030    
0.100085    0.525562    0.101688    0.272665    
0.252996    0.198121    0.299171    0.249711    
0.141471    0.195290    0.234560    0.428679    
0.160993    0.442765    0.082653    0.313590    
0.307890    0.127950    0.071713    0.492448    
0.093453    0.148935    0.080288    0.677324    
0.083535    0.634212    0.074652    0.207601    
0.098119    0.639328    0.099957    0.162596    
0.067430    0.451776    0.357188    0.123606    
0.286259    0.466975    0.063013    0.183753    
0.203211    0.422637    0.133368    0.240783    
0.111206    0.315595    0.192833    0.380366    
0.199462    0.324652    0.305491    0.170395    
0.347919    0.292387    0.230724    0.128970    
0.254648    0.294196    0.194942    0.256214    
Consensus sequence: CYDBYWTCCSMHBVVH

Reverse complement motif
0.254648    0.194942    0.294196    0.256214    
0.128970    0.292387    0.230724    0.347919    
0.199462    0.305491    0.324652    0.170395    
0.380366    0.315595    0.192833    0.111206    
0.203211    0.133368    0.422637    0.240783    
0.286259    0.063013    0.466975    0.183753    
0.067430    0.357188    0.451776    0.123606    
0.098119    0.099957    0.639328    0.162596    
0.083535    0.074652    0.634212    0.207601    
0.677324    0.148935    0.080288    0.093453    
0.492448    0.127950    0.071713    0.307890    
0.160993    0.082653    0.442765    0.313590    
0.428679    0.195290    0.234560    0.141471    
0.252996    0.299171    0.198121    0.249711    
0.100085    0.101688    0.525562    0.272665    
0.233133    0.139009    0.551828    0.076030    
Consensus sequence: DBVVDRSGGAWKVHKG

Alignment:
CYDBYWTCCSMHBVVH
CCAGYYHVADCCRG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00075        Sox15_secondary                    Original Motif                          Reverse Complement                      Backward       1              14             0.057764       

Species: Mus musculus

Original motif
0.110714    0.252497    0.291511    0.345278    
0.164622    0.184062    0.190197    0.461119    
0.287350    0.199874    0.330362    0.182414    
0.616693    0.089218    0.166132    0.127957    
0.525717    0.258234    0.059744    0.156305    
0.083274    0.096411    0.076805    0.743510    
0.049512    0.096815    0.691840    0.161833    
0.410479    0.121470    0.156168    0.311883    
0.522715    0.308171    0.070073    0.099041    
0.708200    0.050818    0.138346    0.102635    
0.095092    0.056144    0.158664    0.690100    
0.126419    0.145616    0.080224    0.647741    
0.167179    0.424187    0.154592    0.254042    
0.222121    0.318065    0.377920    0.081893    
0.532720    0.168320    0.257188    0.041771    
Consensus sequence: BBVAATGDMATTHVA

Reverse complement motif
0.041771    0.168320    0.257188    0.532720    
0.222121    0.377920    0.318065    0.081893    
0.167179    0.154592    0.424187    0.254042    
0.647741    0.145616    0.080224    0.126419    
0.690100    0.056144    0.158664    0.095092    
0.102635    0.050818    0.138346    0.708200    
0.099041    0.308171    0.070073    0.522715    
0.311883    0.121470    0.156168    0.410479    
0.049512    0.691840    0.096815    0.161833    
0.743510    0.096411    0.076805    0.083274    
0.156305    0.258234    0.059744    0.525717    
0.127957    0.089218    0.166132    0.616693    
0.287350    0.330362    0.199874    0.182414    
0.461119    0.184062    0.190197    0.164622    
0.345278    0.252497    0.291511    0.110714    
Consensus sequence: TVDAATYDCATTVVV

Alignment:
BBVAATGDMATTHVA
-CCAGYYHVADCCRG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00096        Sox13_secondary                    Reverse Complement                      Original Motif                          Forward        4              14             0.058789       

Species: Mus musculus

Original motif
0.262581    0.115233    0.405525    0.216661    
0.246681    0.142854    0.145056    0.465409    
0.341041    0.154355    0.306628    0.197976    
0.242211    0.263918    0.113187    0.380684    
0.119326    0.241913    0.117198    0.521563    
0.054120    0.036135    0.784219    0.125525    
0.076634    0.048399    0.788586    0.086381    
0.215316    0.044119    0.663927    0.076638    
0.248538    0.159141    0.015452    0.576869    
0.047049    0.083570    0.788798    0.080583    
0.071948    0.035098    0.768849    0.124105    
0.123777    0.030383    0.713425    0.132415    
0.294760    0.182119    0.181553    0.341567    
0.516589    0.129377    0.116698    0.237336    
0.350326    0.186505    0.112598    0.350571    
0.311469    0.198085    0.147986    0.342460    
0.185126    0.130721    0.242572    0.441582    
Consensus sequence: DDDHTGGGTGGGHAHHD

Reverse complement motif
0.441582    0.130721    0.242572    0.185126    
0.342460    0.198085    0.147986    0.311469    
0.350571    0.186505    0.112598    0.350326    
0.237336    0.129377    0.116698    0.516589    
0.341567    0.182119    0.181553    0.294760    
0.123777    0.713425    0.030383    0.132415    
0.071948    0.768849    0.035098    0.124105    
0.047049    0.788798    0.083570    0.080583    
0.576869    0.159141    0.015452    0.248538    
0.215316    0.663927    0.044119    0.076638    
0.076634    0.788586    0.048399    0.086381    
0.054120    0.784219    0.036135    0.125525    
0.521563    0.241913    0.117198    0.119326    
0.380684    0.263918    0.113187    0.242211    
0.197976    0.154355    0.306628    0.341041    
0.465409    0.142854    0.145056    0.246681    
0.262581    0.405525    0.115233    0.216661    
Consensus sequence: DHHTHCCCACCCAHDDH

Alignment:
DDDHTGGGTGGGHAHHD
---CKGGDTBDMMCTGG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Original Motif                          Reverse Complement                      Forward        3              14             0.059024       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
VVYDDDCHCAVACAATTDBVAC
--CCAGYYHVADCCRG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Forward        9              14             0.059690       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
--------CCAGYYHVADCCRG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Original Motif                          Original Motif                          Backward       1              14             0.059769       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BBBDVVRGACCACCCAVGABBAB
---------CCAGYYHVADCCRG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Reverse Complement                      Original Motif                          Backward       2              14             0.059836       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
HVGVSAGGAGGGTCYHHHHYVH
-------CKGGDTBDMMCTGG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 3		Motif ID: 66		Motif name: CTCF

Original motif
0.095290    0.318729    0.083242    0.502738    
0.182913    0.158817    0.453450    0.204819    
0.307777    0.053669    0.491785    0.146769    
0.061336    0.876232    0.023001    0.039430    
0.008762    0.989047    0.000000    0.002191    
0.814896    0.014239    0.071194    0.099671    
0.043812    0.578313    0.365827    0.012048    
0.117325    0.474781    0.052632    0.355263    
0.933114    0.012061    0.035088    0.019737    
0.005488    0.000000    0.991218    0.003293    
0.365532    0.003293    0.621295    0.009879    
0.059276    0.013172    0.553238    0.374314    
0.013187    0.000000    0.978022    0.008791    
0.061538    0.008791    0.851648    0.078022    
0.114411    0.806381    0.005501    0.073707    
0.409241    0.014301    0.557756    0.018702    
0.090308    0.530837    0.338106    0.040749    
0.128855    0.354626    0.080396    0.436123    
0.442731    0.199339    0.292952    0.064978    
Consensus sequence: YDRCCASYAGRKGGCRSYV

Reserve complement motif
0.064978    0.199339    0.292952    0.442731    
0.436123    0.354626    0.080396    0.128855    
0.090308    0.338106    0.530837    0.040749    
0.409241    0.557756    0.014301    0.018702    
0.114411    0.005501    0.806381    0.073707    
0.061538    0.851648    0.008791    0.078022    
0.013187    0.978022    0.000000    0.008791    
0.059276    0.553238    0.013172    0.374314    
0.365532    0.621295    0.003293    0.009879    
0.005488    0.991218    0.000000    0.003293    
0.019737    0.012061    0.035088    0.933114    
0.117325    0.052632    0.474781    0.355263    
0.043812    0.365827    0.578313    0.012048    
0.099671    0.014239    0.071194    0.814896    
0.008762    0.000000    0.989047    0.002191    
0.061336    0.023001    0.876232    0.039430    
0.307777    0.491785    0.053669    0.146769    
0.182913    0.453450    0.158817    0.204819    
0.502738    0.318729    0.083242    0.095290    
Consensus sequence: BMSMGCCYMCTKSTGGMHM


************************************************************************ Best Matches for Motif ID 66 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Reverse Complement                      Original Motif                          Backward       1              19             0.040937       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
----BMSMGCCYMCTKSTGGMHM

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Original Motif                          Backward       4              19             0.040982       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB
-YDRCCASYAGRKGGCRSYV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Reverse Complement                      Reverse Complement                      Backward       1              19             0.043195       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
---BMSMGCCYMCTKSTGGMHM

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Reverse Complement                      Original Motif                          Forward        4              19             0.046979       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
---BMSMGCCYMCTKSTGGMHM

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Original Motif                          Original Motif                          Backward       5              19             0.048220       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
YDRCCASYAGRKGGCRSYV----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Reverse Complement                      Backward       4              19             0.049160       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
-YDRCCASYAGRKGGCRSYV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Reverse Complement                      Original Motif                          Backward       2              19             0.051154       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BBBDVVRGACCACCCAVGABBAB
---BMSMGCCYMCTKSTGGMHM-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Original Motif                          Original Motif                          Forward        1              19             0.052074       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
HVGVSAGGAGGGTCYHHHHYVH
YDRCCASYAGRKGGCRSYV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Reverse Complement                      Backward       5              19             0.053233       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
DVVTTVGTGGGHGGYAMHWHHHY
YDRCCASYAGRKGGCRSYV----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Reverse Complement                      Reverse Complement                      Forward        3              19             0.053568       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
--BMSMGCCYMCTKSTGGMHM--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 67		Motif name: TgTGgTGTCACAGTGCTCC

Original motif
0.111111    0.083333    0.055556    0.750000    
0.125000    0.097222    0.652778    0.125000    
0.041667    0.097222    0.027778    0.833333    
0.027778    0.027778    0.791667    0.152778    
0.055556    0.166667    0.652778    0.125000    
0.000000    0.041667    0.013889    0.944444    
0.041667    0.000000    0.888889    0.069444    
0.027778    0.027778    0.000000    0.944444    
0.041667    0.944444    0.013889    0.000000    
0.916667    0.027778    0.000000    0.055556    
0.069444    0.875000    0.000000    0.055556    
0.833333    0.013889    0.013889    0.138889    
0.041667    0.069444    0.819444    0.069444    
0.027778    0.027778    0.027778    0.916667    
0.069444    0.013889    0.847222    0.069444    
0.069444    0.777778    0.027778    0.125000    
0.055556    0.041667    0.027778    0.875000    
0.041667    0.708333    0.125000    0.125000    
0.111111    0.819444    0.055556    0.013889    
Consensus sequence: TGTGGTGTCACAGTGCTCC

Reserve complement motif
0.111111    0.055556    0.819444    0.013889    
0.041667    0.125000    0.708333    0.125000    
0.875000    0.041667    0.027778    0.055556    
0.069444    0.027778    0.777778    0.125000    
0.069444    0.847222    0.013889    0.069444    
0.916667    0.027778    0.027778    0.027778    
0.041667    0.819444    0.069444    0.069444    
0.138889    0.013889    0.013889    0.833333    
0.069444    0.000000    0.875000    0.055556    
0.055556    0.027778    0.000000    0.916667    
0.041667    0.013889    0.944444    0.000000    
0.944444    0.027778    0.000000    0.027778    
0.041667    0.888889    0.000000    0.069444    
0.944444    0.041667    0.013889    0.000000    
0.055556    0.652778    0.166667    0.125000    
0.027778    0.791667    0.027778    0.152778    
0.833333    0.097222    0.027778    0.041667    
0.125000    0.652778    0.097222    0.125000    
0.750000    0.083333    0.055556    0.111111    
Consensus sequence: GGAGCACTGTGACACCACA


************************************************************************ Best Matches for Motif ID 67 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Original Motif                          Reverse Complement                      Backward       2              19             0.043204       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
---TGTGGTGTCACAGTGCTCC-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Original Motif                          Forward        6              18             0.553914       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB-
-----TGTGGTGTCACAGTGCTCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00192        Six1                               Reverse Complement                      Reverse Complement                      Backward       1              17             1.045284       

Species: Mus musculus

Original motif
0.319306    0.130147    0.399309    0.151238    
0.482636    0.211172    0.085871    0.220321    
0.214292    0.085504    0.207353    0.492851    
0.392819    0.136859    0.403883    0.066438    
0.215886    0.049341    0.685932    0.048842    
0.039793    0.053756    0.870240    0.036211    
0.202525    0.005026    0.791396    0.001053    
0.001092    0.001021    0.052968    0.944919    
0.963185    0.001738    0.033596    0.001480    
0.002017    0.001886    0.002847    0.993250    
0.009914    0.974962    0.001987    0.013137    
0.909252    0.021586    0.037899    0.031263    
0.177851    0.274190    0.117998    0.429961    
0.228906    0.159459    0.303955    0.307681    
0.330938    0.158106    0.118706    0.392251    
0.160453    0.267920    0.280244    0.291383    
0.176707    0.068175    0.229538    0.525580    
Consensus sequence: DHDRGGGTATCAHDHBT

Reverse complement motif
0.525580    0.068175    0.229538    0.176707    
0.291383    0.267920    0.280244    0.160453    
0.392251    0.158106    0.118706    0.330938    
0.307681    0.159459    0.303955    0.228906    
0.429961    0.274190    0.117998    0.177851    
0.031263    0.021586    0.037899    0.909252    
0.009914    0.001987    0.974962    0.013137    
0.993250    0.001886    0.002847    0.002017    
0.001480    0.001738    0.033596    0.963185    
0.944919    0.001021    0.052968    0.001092    
0.202525    0.791396    0.005026    0.001053    
0.039793    0.870240    0.053756    0.036211    
0.215886    0.685932    0.049341    0.048842    
0.392819    0.403883    0.136859    0.066438    
0.492851    0.085504    0.207353    0.214292    
0.220321    0.211172    0.085871    0.482636    
0.319306    0.399309    0.130147    0.151238    
Consensus sequence: AVHDHTGATACCCMDHH

Alignment:
--AVHDHTGATACCCMDHH
GGAGCACTGTGACACCACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_2205.1                      Original Motif                          Reverse Complement                      Backward       1              17             1.045899       

Species: Mus musculus

Original motif
0.504898    0.140204    0.135418    0.219480    
0.282348    0.244881    0.300572    0.172199    
0.183939    0.100670    0.384783    0.330608    
0.326709    0.269523    0.194043    0.209724    
0.142989    0.557393    0.066826    0.232792    
0.038356    0.014052    0.932450    0.015142    
0.092102    0.778844    0.125082    0.003972    
0.010254    0.001252    0.005231    0.983263    
0.033486    0.000891    0.947486    0.018137    
0.005360    0.007407    0.003729    0.983504    
0.603485    0.007179    0.003482    0.385853    
0.798026    0.029788    0.032370    0.139816    
0.529622    0.100632    0.016507    0.353238    
0.243581    0.126094    0.401402    0.228923    
0.207484    0.285456    0.353715    0.153346    
0.282413    0.188410    0.441463    0.087715    
0.422774    0.152965    0.094106    0.330155    
Consensus sequence: AVDHCGCTGTWAWDVVW

Reverse complement motif
0.330155    0.152965    0.094106    0.422774    
0.282413    0.441463    0.188410    0.087715    
0.207484    0.353715    0.285456    0.153346    
0.243581    0.401402    0.126094    0.228923    
0.353238    0.100632    0.016507    0.529622    
0.139816    0.029788    0.032370    0.798026    
0.385853    0.007179    0.003482    0.603485    
0.983504    0.007407    0.003729    0.005360    
0.033486    0.947486    0.000891    0.018137    
0.983263    0.001252    0.005231    0.010254    
0.092102    0.125082    0.778844    0.003972    
0.038356    0.932450    0.014052    0.015142    
0.142989    0.066826    0.557393    0.232792    
0.209724    0.269523    0.194043    0.326709    
0.183939    0.384783    0.100670    0.330608    
0.282348    0.300572    0.244881    0.172199    
0.219480    0.140204    0.135418    0.504898    
Consensus sequence: WVVHWTWACAGCGHHVT

Alignment:
--AVDHCGCTGTWAWDVVW
TGTGGTGTCACAGTGCTCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_1765.2                      Original Motif                          Reverse Complement                      Backward       1              17             1.046201       

Species: Mus musculus

Original motif
0.538735    0.129821    0.147336    0.184107    
0.331267    0.275123    0.227609    0.166001    
0.174654    0.113319    0.383610    0.328417    
0.296734    0.281670    0.230068    0.191527    
0.128222    0.561296    0.062928    0.247554    
0.027028    0.014676    0.949335    0.008962    
0.087209    0.761581    0.147964    0.003246    
0.006796    0.000741    0.006037    0.986427    
0.039496    0.000533    0.943453    0.016517    
0.005541    0.005164    0.002805    0.986489    
0.561957    0.002761    0.004207    0.431075    
0.780197    0.037155    0.031222    0.151425    
0.518642    0.104220    0.012670    0.364468    
0.314451    0.111366    0.333508    0.240676    
0.236936    0.357992    0.280813    0.124259    
0.314846    0.163774    0.426195    0.095185    
0.408340    0.134111    0.102987    0.354562    
Consensus sequence: AVDVCGCTGTWAWDVVW

Reverse complement motif
0.354562    0.134111    0.102987    0.408340    
0.314846    0.426195    0.163774    0.095185    
0.236936    0.280813    0.357992    0.124259    
0.314451    0.333508    0.111366    0.240676    
0.364468    0.104220    0.012670    0.518642    
0.151425    0.037155    0.031222    0.780197    
0.431075    0.002761    0.004207    0.561957    
0.986489    0.005164    0.002805    0.005541    
0.039496    0.943453    0.000533    0.016517    
0.986427    0.000741    0.006037    0.006796    
0.087209    0.147964    0.761581    0.003246    
0.027028    0.949335    0.014676    0.008962    
0.128222    0.062928    0.561296    0.247554    
0.191527    0.281670    0.230068    0.296734    
0.174654    0.383610    0.113319    0.328417    
0.166001    0.275123    0.227609    0.331267    
0.184107    0.129821    0.147336    0.538735    
Consensus sequence: WVVHWTWACAGCGBHBT

Alignment:
--WVVHWTWACAGCGBHBT
TGTGGTGTCACAGTGCTCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00068        Eomes_primary                      Reverse Complement                      Original Motif                          Forward        1              17             1.046309       

Species: Mus musculus

Original motif
0.186316    0.215541    0.297644    0.300499    
0.300381    0.234276    0.266283    0.199061    
0.317841    0.211418    0.183235    0.287507    
0.482598    0.095323    0.245062    0.177017    
0.654197    0.008988    0.261951    0.074864    
0.095656    0.022883    0.843364    0.038097    
0.002655    0.008355    0.976390    0.012600    
0.003287    0.080755    0.001057    0.914900    
0.006753    0.001517    0.989917    0.001813    
0.039940    0.098800    0.003305    0.857955    
0.009015    0.039036    0.844029    0.107921    
0.984070    0.002369    0.008852    0.004709    
0.789505    0.101528    0.029294    0.079672    
0.649685    0.139882    0.090466    0.119966    
0.421759    0.205595    0.073074    0.299573    
0.214779    0.290522    0.134050    0.360649    
0.202141    0.270323    0.176798    0.350738    
Consensus sequence: BVHDAGGTGTGAAAHHH

Reverse complement motif
0.350738    0.270323    0.176798    0.202141    
0.360649    0.290522    0.134050    0.214779    
0.299573    0.205595    0.073074    0.421759    
0.119966    0.139882    0.090466    0.649685    
0.079672    0.101528    0.029294    0.789505    
0.004709    0.002369    0.008852    0.984070    
0.009015    0.844029    0.039036    0.107921    
0.857955    0.098800    0.003305    0.039940    
0.006753    0.989917    0.001517    0.001813    
0.914900    0.080755    0.001057    0.003287    
0.002655    0.976390    0.008355    0.012600    
0.095656    0.843364    0.022883    0.038097    
0.074864    0.008988    0.261951    0.654197    
0.177017    0.095323    0.245062    0.482598    
0.287507    0.211418    0.183235    0.317841    
0.199061    0.234276    0.266283    0.300381    
0.300499    0.215541    0.297644    0.186316    
Consensus sequence: HHHTTTCACACCTDHBV

Alignment:
HHHTTTCACACCTDHBV--
GGAGCACTGTGACACCACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Reverse Complement                      Original Motif                          Backward       2              17             1.048067       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
--VDDAGATCAAAGGKDDD
GGAGCACTGTGACACCACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_primary               Reverse Complement                      Original Motif                          Forward        3              17             1.048311       

Species: Mus musculus

Original motif
0.641428    0.180211    0.044767    0.133594    
0.171696    0.262981    0.334148    0.231174    
0.129726    0.322735    0.243462    0.304077    
0.165713    0.175735    0.256108    0.402445    
0.146090    0.171890    0.412753    0.269266    
0.212837    0.439192    0.280990    0.066980    
0.251088    0.275516    0.374380    0.099015    
0.575438    0.079656    0.338201    0.006704    
0.005634    0.003422    0.972597    0.018348    
0.890447    0.077034    0.031851    0.000668    
0.007128    0.986862    0.000496    0.005515    
0.001445    0.991564    0.001925    0.005066    
0.738761    0.190157    0.026399    0.044684    
0.013384    0.983783    0.000896    0.001937    
0.068077    0.929549    0.000773    0.001602    
0.040830    0.933742    0.005283    0.020145    
0.730274    0.029225    0.145689    0.094812    
0.165032    0.572838    0.162001    0.100129    
0.383584    0.129942    0.429497    0.056977    
0.455959    0.071959    0.208204    0.263878    
0.134271    0.262985    0.222626    0.380117    
0.071193    0.346594    0.346081    0.236132    
0.445661    0.405278    0.053901    0.095160    
Consensus sequence: ABBBBVVRGACCACCCACRDBBM

Reverse complement motif
0.095160    0.405278    0.053901    0.445661    
0.071193    0.346081    0.346594    0.236132    
0.380117    0.262985    0.222626    0.134271    
0.263878    0.071959    0.208204    0.455959    
0.383584    0.429497    0.129942    0.056977    
0.165032    0.162001    0.572838    0.100129    
0.094812    0.029225    0.145689    0.730274    
0.040830    0.005283    0.933742    0.020145    
0.068077    0.000773    0.929549    0.001602    
0.013384    0.000896    0.983783    0.001937    
0.044684    0.190157    0.026399    0.738761    
0.001445    0.001925    0.991564    0.005066    
0.007128    0.000496    0.986862    0.005515    
0.000668    0.077034    0.031851    0.890447    
0.005634    0.972597    0.003422    0.018348    
0.006704    0.079656    0.338201    0.575438    
0.251088    0.374380    0.275516    0.099015    
0.212837    0.280990    0.439192    0.066980    
0.146090    0.412753    0.171890    0.269266    
0.402445    0.175735    0.256108    0.165713    
0.129726    0.243462    0.322735    0.304077    
0.171696    0.334148    0.262981    0.231174    
0.133594    0.180211    0.044767    0.641428    
Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Alignment:
YBVDMGTGGGTGGTCKVVBVBBT--
--GGAGCACTGTGACACCACA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Original Motif                          Original Motif                          Backward       3              17             1.048667       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
--DBHBDTGACCCCDHVHB
TGTGGTGTCACAGTGCTCC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00388        Six6_2267.4                        Reverse Complement                      Reverse Complement                      Forward        3              17             1.049102       

Species: Mus musculus

Original motif
0.330559    0.118371    0.278738    0.272331    
0.605486    0.104492    0.066247    0.223775    
0.180170    0.051522    0.131669    0.636639    
0.431457    0.173748    0.323416    0.071378    
0.131729    0.037944    0.812991    0.017337    
0.022726    0.033975    0.914981    0.028317    
0.138556    0.012597    0.847660    0.001188    
0.001916    0.001156    0.046653    0.950276    
0.965626    0.001518    0.031319    0.001536    
0.003782    0.001412    0.002175    0.992631    
0.006601    0.979412    0.002328    0.011660    
0.947233    0.007670    0.017734    0.027363    
0.374066    0.305253    0.063914    0.256767    
0.267070    0.210201    0.216997    0.305732    
0.294988    0.127424    0.094154    0.483434    
0.354130    0.195592    0.176636    0.273642    
0.094874    0.110275    0.192261    0.602591    
Consensus sequence: DATRGGGTATCAHDWHT

Reverse complement motif
0.602591    0.110275    0.192261    0.094874    
0.273642    0.195592    0.176636    0.354130    
0.483434    0.127424    0.094154    0.294988    
0.305732    0.210201    0.216997    0.267070    
0.256767    0.305253    0.063914    0.374066    
0.027363    0.007670    0.017734    0.947233    
0.006601    0.002328    0.979412    0.011660    
0.992631    0.001412    0.002175    0.003782    
0.001536    0.001518    0.031319    0.965626    
0.950276    0.001156    0.046653    0.001916    
0.138556    0.847660    0.012597    0.001188    
0.022726    0.914981    0.033975    0.028317    
0.131729    0.812991    0.037944    0.017337    
0.071378    0.173748    0.323416    0.431457    
0.636639    0.051522    0.131669    0.180170    
0.223775    0.104492    0.066247    0.605486    
0.272331    0.118371    0.278738    0.330559    
Consensus sequence: AHWDHTGATACCCKATD

Alignment:
AHWDHTGATACCCKATD--
--GGAGCACTGTGACACCACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 68		Motif name: sscCCCGCGcs

Original motif
0.147059    0.441176    0.264706    0.147059    
0.117647    0.529412    0.294118    0.058824    
0.000000    0.676471    0.235294    0.088235    
0.029412    0.852941    0.117647    0.000000    
0.000000    0.823529    0.176471    0.000000    
0.000000    0.794118    0.205882    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.058824    0.941176    0.000000    
0.117647    0.470588    0.235294    0.176471    
0.000000    0.323529    0.529412    0.147059    
Consensus sequence: BSCCCCGCGBS

Reserve complement motif
0.000000    0.529412    0.323529    0.147059    
0.117647    0.235294    0.470588    0.176471    
0.000000    0.941176    0.058824    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.205882    0.794118    0.000000    
0.000000    0.176471    0.823529    0.000000    
0.029412    0.117647    0.852941    0.000000    
0.000000    0.235294    0.676471    0.088235    
0.117647    0.294118    0.529412    0.058824    
0.147059    0.264706    0.441176    0.147059    
Consensus sequence: SBCGCGGGGSB


************************************************************************ Best Matches for Motif ID 68 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00000        Smad3_secondary                    Reverse Complement                      Reverse Complement                      Forward        5              11             0.009342       

Species: Mus musculus

Original motif
0.150668    0.131779    0.245665    0.471887    
0.316817    0.287314    0.150829    0.245040    
0.256473    0.409066    0.109700    0.224761    
0.210646    0.220222    0.345010    0.224122    
0.166679    0.508939    0.081676    0.242705    
0.049351    0.759380    0.088489    0.102780    
0.047598    0.785546    0.121957    0.044898    
0.004606    0.944933    0.034696    0.015764    
0.040252    0.050652    0.890382    0.018713    
0.003038    0.913699    0.022449    0.060814    
0.028672    0.941477    0.012276    0.017575    
0.635243    0.139731    0.110495    0.114531    
0.240016    0.385948    0.182848    0.191188    
0.210430    0.274127    0.085171    0.430272    
0.088118    0.454598    0.208989    0.248295    
0.181269    0.265028    0.149023    0.404680    
0.101070    0.252682    0.368542    0.277706    
Consensus sequence: DHHBCCCCGCCAHHBHB

Reverse complement motif
0.101070    0.368542    0.252682    0.277706    
0.404680    0.265028    0.149023    0.181269    
0.088118    0.208989    0.454598    0.248295    
0.430272    0.274127    0.085171    0.210430    
0.240016    0.182848    0.385948    0.191188    
0.114531    0.139731    0.110495    0.635243    
0.028672    0.012276    0.941477    0.017575    
0.003038    0.022449    0.913699    0.060814    
0.040252    0.890382    0.050652    0.018713    
0.004606    0.034696    0.944933    0.015764    
0.047598    0.121957    0.785546    0.044898    
0.049351    0.088489    0.759380    0.102780    
0.166679    0.081676    0.508939    0.242705    
0.210646    0.345010    0.220222    0.224122    
0.256473    0.109700    0.409066    0.224761    
0.245040    0.287314    0.150829    0.316817    
0.471887    0.131779    0.245665    0.150668    
Consensus sequence: BHBHDTGGCGGGGBDHD

Alignment:
BHBHDTGGCGGGGBDHD
----SBCGCGGGGSB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00006        Zic3_primary                       Original Motif                          Original Motif                          Forward        2              11             0.010579       

Species: Mus musculus

Original motif
0.133123    0.374622    0.252864    0.239392    
0.305344    0.451195    0.093638    0.149822    
0.125347    0.723516    0.027695    0.123442    
0.129457    0.754873    0.045215    0.070455    
0.117681    0.809987    0.036742    0.035590    
0.046565    0.817263    0.077300    0.058872    
0.047132    0.790594    0.143506    0.018768    
0.059681    0.087688    0.665195    0.187436    
0.058872    0.077300    0.817263    0.046565    
0.035590    0.036742    0.809987    0.117681    
0.070455    0.045215    0.754873    0.129457    
0.123442    0.027695    0.723516    0.125347    
0.104029    0.069439    0.636026    0.190506    
0.070968    0.197801    0.581172    0.150060    
0.147077    0.235294    0.230097    0.387531    
Consensus sequence: BMCCCCCGGGGGGGB

Reverse complement motif
0.387531    0.235294    0.230097    0.147077    
0.070968    0.581172    0.197801    0.150060    
0.104029    0.636026    0.069439    0.190506    
0.123442    0.723516    0.027695    0.125347    
0.070455    0.754873    0.045215    0.129457    
0.035590    0.809987    0.036742    0.117681    
0.058872    0.817263    0.077300    0.046565    
0.059681    0.665195    0.087688    0.187436    
0.047132    0.143506    0.790594    0.018768    
0.046565    0.077300    0.817263    0.058872    
0.117681    0.036742    0.809987    0.035590    
0.129457    0.045215    0.754873    0.070455    
0.125347    0.027695    0.723516    0.123442    
0.305344    0.093638    0.451195    0.149822    
0.133123    0.252864    0.374622    0.239392    
Consensus sequence: VCCCCCCCGGGGGRB

Alignment:
BMCCCCCGGGGGGGB
-BSCCCCGCGBS---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00057        Zic2_primary                       Original Motif                          Original Motif                          Backward       4              11             0.011249       

Species: Mus musculus

Original motif
0.171475    0.300729    0.275648    0.252148    
0.274948    0.494479    0.090926    0.139646    
0.136266    0.716563    0.033328    0.113843    
0.116272    0.772964    0.046083    0.064680    
0.103529    0.835329    0.032215    0.028927    
0.057023    0.813129    0.071277    0.058571    
0.057483    0.766273    0.157290    0.018955    
0.071535    0.110226    0.631760    0.186479    
0.058571    0.071277    0.813129    0.057023    
0.028927    0.032215    0.835329    0.103529    
0.064680    0.046083    0.772964    0.116272    
0.113843    0.033328    0.716563    0.136266    
0.119744    0.068294    0.609218    0.202743    
0.065793    0.215443    0.562951    0.155813    
0.178819    0.196535    0.205955    0.418691    
Consensus sequence: BMCCCCCGGGGGGGB

Reverse complement motif
0.418691    0.196535    0.205955    0.178819    
0.065793    0.562951    0.215443    0.155813    
0.119744    0.609218    0.068294    0.202743    
0.113843    0.716563    0.033328    0.136266    
0.064680    0.772964    0.046083    0.116272    
0.028927    0.835329    0.032215    0.103529    
0.058571    0.813129    0.071277    0.057023    
0.071535    0.631760    0.110226    0.186479    
0.057483    0.157290    0.766273    0.018955    
0.057023    0.071277    0.813129    0.058571    
0.103529    0.032215    0.835329    0.028927    
0.116272    0.046083    0.772964    0.064680    
0.136266    0.033328    0.716563    0.113843    
0.274948    0.090926    0.494479    0.139646    
0.171475    0.275648    0.300729    0.252148    
Consensus sequence: VCCCCCCCGGGGGRB

Alignment:
BMCCCCCGGGGGGGB
-BSCCCCGCGBS---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Reverse Complement                      Reverse Complement                      Backward       7              11             0.014467       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
------SBCGCGGGGSB------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Reverse Complement                      Reverse Complement                      Backward       4              11             0.015056       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
HDWHMHGACGCGCGTRBVVBHW
--------SBCGCGGGGSB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00065        Zfp161_primary                     Original Motif                          Reverse Complement                      Backward       4              11             0.016905       

Species: Mus musculus

Original motif
0.142624    0.111294    0.283688    0.462394    
0.221170    0.081404    0.499138    0.198288    
0.290070    0.042114    0.604904    0.062912    
0.109755    0.559510    0.215454    0.115281    
0.111745    0.022727    0.850580    0.014948    
0.015907    0.942291    0.005561    0.036241    
0.088509    0.003729    0.902805    0.004957    
0.004957    0.902805    0.003729    0.088509    
0.036241    0.005561    0.942291    0.015907    
0.014948    0.850580    0.022727    0.111745    
0.325358    0.049424    0.519652    0.105566    
0.062912    0.604904    0.042114    0.290070    
0.214335    0.388248    0.125912    0.271505    
0.128984    0.372787    0.092390    0.405839    
0.269058    0.098422    0.484016    0.148504    
0.362176    0.156050    0.188642    0.293132    
Consensus sequence: DDGCGCGCGCRCHYRD

Reverse complement motif
0.293132    0.156050    0.188642    0.362176    
0.269058    0.484016    0.098422    0.148504    
0.405839    0.372787    0.092390    0.128984    
0.214335    0.125912    0.388248    0.271505    
0.062912    0.042114    0.604904    0.290070    
0.325358    0.519652    0.049424    0.105566    
0.014948    0.022727    0.850580    0.111745    
0.036241    0.942291    0.005561    0.015907    
0.004957    0.003729    0.902805    0.088509    
0.088509    0.902805    0.003729    0.004957    
0.015907    0.005561    0.942291    0.036241    
0.111745    0.850580    0.022727    0.014948    
0.109755    0.215454    0.559510    0.115281    
0.290070    0.604904    0.042114    0.062912    
0.221170    0.499138    0.081404    0.198288    
0.462394    0.111294    0.283688    0.142624    
Consensus sequence: DMMDGMGCGCGCGCHD

Alignment:
DMMDGMGCGCGCGCHD
--BSCCCCGCGBS---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00102        Zic1_primary                       Original Motif                          Original Motif                          Backward       3              11             0.018611       

Species: Mus musculus

Original motif
0.174040    0.367918    0.270176    0.187866    
0.359560    0.309872    0.111047    0.219520    
0.094468    0.790352    0.026034    0.089145    
0.114860    0.779490    0.050895    0.054755    
0.105195    0.837712    0.031857    0.025237    
0.045234    0.825039    0.073990    0.055737    
0.145555    0.592986    0.228415    0.033044    
0.045273    0.175001    0.607615    0.172111    
0.055737    0.073990    0.825039    0.045234    
0.025237    0.031857    0.837712    0.105195    
0.054755    0.050895    0.779490    0.114860    
0.089145    0.026034    0.790352    0.094468    
0.060833    0.067787    0.717352    0.154028    
0.097742    0.194545    0.591608    0.116104    
Consensus sequence: BHCCCCCGGGGGGG

Reverse complement motif
0.097742    0.591608    0.194545    0.116104    
0.060833    0.717352    0.067787    0.154028    
0.089145    0.790352    0.026034    0.094468    
0.054755    0.779490    0.050895    0.114860    
0.025237    0.837712    0.031857    0.105195    
0.055737    0.825039    0.073990    0.045234    
0.045273    0.607615    0.175001    0.172111    
0.145555    0.228415    0.592986    0.033044    
0.045234    0.073990    0.825039    0.055737    
0.105195    0.031857    0.837712    0.025237    
0.114860    0.050895    0.779490    0.054755    
0.094468    0.026034    0.790352    0.089145    
0.219520    0.309872    0.111047    0.359560    
0.174040    0.270176    0.367918    0.187866    
Consensus sequence: CCCCCCCGGGGGHB

Alignment:
BHCCCCCGGGGGGG
-BSCCCCGCGBS--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Reverse Complement                      Backward       8              11             0.019240       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
----BSCCCCGCGBS-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00022        Zfp740_primary                     Reverse Complement                      Reverse Complement                      Forward        3              11             0.020460       

Species: Mus musculus

Original motif
0.136946    0.396508    0.135309    0.331236    
0.185528    0.417538    0.215409    0.181525    
0.171276    0.341901    0.172832    0.313991    
0.145641    0.590572    0.146376    0.117412    
0.138035    0.660416    0.114016    0.087533    
0.222728    0.750532    0.007528    0.019212    
0.024633    0.963314    0.001894    0.010159    
0.009557    0.979956    0.000642    0.009844    
0.010416    0.977424    0.000541    0.011619    
0.026401    0.956740    0.001544    0.015314    
0.195502    0.755959    0.011060    0.037480    
0.491291    0.364785    0.025613    0.118311    
0.305153    0.398160    0.071680    0.225008    
0.253497    0.232647    0.213246    0.300610    
0.156964    0.297876    0.144683    0.400477    
0.179549    0.292514    0.319462    0.208475    
Consensus sequence: HVBCCCCCCCCMHHHB

Reverse complement motif
0.179549    0.319462    0.292514    0.208475    
0.400477    0.297876    0.144683    0.156964    
0.300610    0.232647    0.213246    0.253497    
0.305153    0.071680    0.398160    0.225008    
0.118311    0.364785    0.025613    0.491291    
0.195502    0.011060    0.755959    0.037480    
0.026401    0.001544    0.956740    0.015314    
0.010416    0.000541    0.977424    0.011619    
0.009557    0.000642    0.979956    0.009844    
0.024633    0.001894    0.963314    0.010159    
0.222728    0.007528    0.750532    0.019212    
0.138035    0.114016    0.660416    0.087533    
0.145641    0.146376    0.590572    0.117412    
0.171276    0.172832    0.341901    0.313991    
0.185528    0.215409    0.417538    0.181525    
0.136946    0.135309    0.396508    0.331236    
Consensus sequence: BHHDYGGGGGGGGBVD

Alignment:
BHHDYGGGGGGGGBVD
--SBCGCGGGGSB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_secondary                    Reverse Complement                      Original Motif                          Backward       5              11             0.023211       

Species: Mus musculus

Original motif
0.477863    0.106306    0.184102    0.231729    
0.304951    0.149020    0.361418    0.184612    
0.548996    0.056128    0.348902    0.045974    
0.385727    0.477782    0.086218    0.050273    
0.409556    0.232265    0.173851    0.184328    
0.174550    0.312880    0.307123    0.205448    
0.850398    0.047204    0.041665    0.060734    
0.141234    0.548534    0.142230    0.168002    
0.059462    0.026354    0.892948    0.021236    
0.053714    0.870297    0.028935    0.047055    
0.086273    0.069147    0.805284    0.039296    
0.033781    0.573881    0.034115    0.358223    
0.035191    0.079663    0.824970    0.060176    
0.051830    0.862631    0.019359    0.066180    
0.178685    0.015738    0.762485    0.043092    
0.058988    0.042615    0.017608    0.880789    
0.202382    0.173360    0.284095    0.340163    
0.098493    0.234651    0.506524    0.160333    
0.109087    0.336204    0.250510    0.304198    
0.130945    0.250843    0.177122    0.441090    
0.353830    0.138838    0.162784    0.344548    
0.114290    0.417163    0.160662    0.307885    
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB

Reverse complement motif
0.114290    0.160662    0.417163    0.307885    
0.344548    0.138838    0.162784    0.353830    
0.441090    0.250843    0.177122    0.130945    
0.109087    0.250510    0.336204    0.304198    
0.098493    0.506524    0.234651    0.160333    
0.340163    0.173360    0.284095    0.202382    
0.880789    0.042615    0.017608    0.058988    
0.178685    0.762485    0.015738    0.043092    
0.051830    0.019359    0.862631    0.066180    
0.035191    0.824970    0.079663    0.060176    
0.033781    0.034115    0.573881    0.358223    
0.086273    0.805284    0.069147    0.039296    
0.053714    0.028935    0.870297    0.047055    
0.059462    0.892948    0.026354    0.021236    
0.141234    0.142230    0.548534    0.168002    
0.060734    0.047204    0.041665    0.850398    
0.174550    0.307123    0.312880    0.205448    
0.184328    0.232265    0.173851    0.409556    
0.385727    0.086218    0.477782    0.050273    
0.045974    0.056128    0.348902    0.548996    
0.304951    0.361418    0.149020    0.184612    
0.231729    0.106306    0.184102    0.477863    
Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Alignment:
DDRMHBACGCGYGCGTDGBBDB
-------SBCGCGGGGSB----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 69		Motif name: atactttggc

Original motif
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: ATACTTTGGC

Reserve complement motif
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
Consensus sequence: GCCAAAGTAT


************************************************************************ Best Matches for Motif ID 69 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00156        Msx2                               Original Motif                          Reverse Complement                      Backward       4              10             0.022158       

Species: Mus musculus

Original motif
0.275513    0.256811    0.311675    0.156002    
0.383321    0.282527    0.177970    0.156182    
0.442557    0.124681    0.236862    0.195901    
0.139318    0.227241    0.544119    0.089322    
0.700103    0.083893    0.130336    0.085668    
0.022691    0.796940    0.114830    0.065539    
0.009654    0.562163    0.000715    0.427467    
0.990884    0.001732    0.002330    0.005053    
0.985387    0.012176    0.000854    0.001584    
0.005044    0.003260    0.000977    0.990719    
0.005122    0.009507    0.000372    0.984999    
0.957648    0.000380    0.035397    0.006575    
0.147183    0.050632    0.560835    0.241350    
0.114465    0.415702    0.084791    0.385042    
0.157227    0.095566    0.474272    0.272935    
0.245081    0.362599    0.108499    0.283820    
0.092460    0.210730    0.114248    0.582562    
Consensus sequence: VVDGACYAATTAGYDHT

Reverse complement motif
0.582562    0.210730    0.114248    0.092460    
0.245081    0.108499    0.362599    0.283820    
0.157227    0.474272    0.095566    0.272935    
0.114465    0.084791    0.415702    0.385042    
0.147183    0.560835    0.050632    0.241350    
0.006575    0.000380    0.035397    0.957648    
0.984999    0.009507    0.000372    0.005122    
0.990719    0.003260    0.000977    0.005044    
0.001584    0.012176    0.000854    0.985387    
0.005053    0.001732    0.002330    0.990884    
0.009654    0.000715    0.562163    0.427467    
0.022691    0.114830    0.796940    0.065539    
0.085668    0.083893    0.130336    0.700103    
0.139318    0.544119    0.227241    0.089322    
0.195901    0.124681    0.236862    0.442557    
0.156182    0.282527    0.177970    0.383321    
0.275513    0.311675    0.256811    0.156002    
Consensus sequence: ADHKCTAATTKGTCDBV

Alignment:
ADHKCTAATTKGTCDBV
----ATACTTTGGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00101        Sox12_secondary                    Original Motif                          Reverse Complement                      Backward       6              10             0.027519       

Species: Mus musculus

Original motif
0.378898    0.318901    0.205859    0.096341    
0.352524    0.321236    0.224504    0.101736    
0.323551    0.182056    0.210897    0.283496    
0.135539    0.325230    0.208031    0.331200    
0.663106    0.055471    0.154459    0.126963    
0.051748    0.292567    0.537307    0.118378    
0.886489    0.042361    0.035742    0.035408    
0.043647    0.688744    0.094358    0.173252    
0.882052    0.039818    0.018899    0.059231    
0.864171    0.036011    0.068363    0.031455    
0.790158    0.046868    0.041594    0.121379    
0.087447    0.143905    0.707798    0.060849    
0.295919    0.132479    0.485703    0.085899    
0.653156    0.133004    0.110012    0.103828    
0.351764    0.131771    0.217730    0.298736    
0.203977    0.196773    0.099958    0.499292    
Consensus sequence: VVDBASACAAAGRADH

Reverse complement motif
0.499292    0.196773    0.099958    0.203977    
0.298736    0.131771    0.217730    0.351764    
0.103828    0.133004    0.110012    0.653156    
0.295919    0.485703    0.132479    0.085899    
0.087447    0.707798    0.143905    0.060849    
0.121379    0.046868    0.041594    0.790158    
0.031455    0.036011    0.068363    0.864171    
0.059231    0.039818    0.018899    0.882052    
0.043647    0.094358    0.688744    0.173252    
0.035408    0.042361    0.035742    0.886489    
0.051748    0.537307    0.292567    0.118378    
0.126963    0.055471    0.154459    0.663106    
0.331200    0.325230    0.208031    0.135539    
0.283496    0.182056    0.210897    0.323551    
0.101736    0.321236    0.224504    0.352524    
0.096341    0.318901    0.205859    0.378898    
Consensus sequence: HDTMCTTTGTSTVDBB

Alignment:
HDTMCTTTGTSTVDBB
-ATACTTTGGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Reverse Complement                      Original Motif                          Backward       6              10             0.028579       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
BBHHAAAGTCCAMTHH
-GCCAAAGTAT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00418        Etv6                               Reverse Complement                      Reverse Complement                      Forward        5              10             0.030488       

Species: Mus musculus

Original motif
0.354972    0.069107    0.299350    0.276571    
0.209701    0.408003    0.227382    0.154914    
0.284336    0.375266    0.162604    0.177794    
0.176569    0.181438    0.342172    0.299820    
0.106551    0.204378    0.060299    0.628772    
0.884088    0.003252    0.103113    0.009546    
0.001110    0.704391    0.006294    0.288205    
0.014992    0.000892    0.001401    0.982714    
0.004842    0.001887    0.002470    0.990801    
0.002724    0.992864    0.002206    0.002206    
0.001792    0.991200    0.001615    0.005393    
0.005151    0.010157    0.940259    0.044433    
0.017780    0.199839    0.761921    0.020459    
0.230834    0.269936    0.119652    0.379577    
0.233019    0.093692    0.034743    0.638546    
0.194739    0.181763    0.175340    0.448159    
0.145452    0.293709    0.335917    0.224922    
Consensus sequence: DVHBTACTTCCGGHTHB

Reverse complement motif
0.145452    0.335917    0.293709    0.224922    
0.448159    0.181763    0.175340    0.194739    
0.638546    0.093692    0.034743    0.233019    
0.379577    0.269936    0.119652    0.230834    
0.017780    0.761921    0.199839    0.020459    
0.005151    0.940259    0.010157    0.044433    
0.001792    0.001615    0.991200    0.005393    
0.002724    0.002206    0.992864    0.002206    
0.990801    0.001887    0.002470    0.004842    
0.982714    0.000892    0.001401    0.014992    
0.001110    0.006294    0.704391    0.288205    
0.009546    0.003252    0.103113    0.884088    
0.628772    0.204378    0.060299    0.106551    
0.176569    0.342172    0.181438    0.299820    
0.284336    0.162604    0.375266    0.177794    
0.209701    0.227382    0.408003    0.154914    
0.276571    0.069107    0.299350    0.354972    
Consensus sequence: BHAHCCGGAAGTABDVD

Alignment:
BHAHCCGGAAGTABDVD
----GCCAAAGTAT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Reverse Complement                      Reverse Complement                      Backward       3              10             0.031469       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
BDDASATCAAAGGMDDD
-----GCCAAAGTAT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Reverse Complement                      Forward        3              10             0.031729       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HHBTMCTTTGTTMDDVH
--ATACTTTGGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Reverse Complement                      Forward        3              10             0.031914       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HHBBMCTTTGTTHDDBH
--ATACTTTGGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_primary                       Reverse Complement                      Original Motif                          Forward        6              10             0.032301       

Species: Mus musculus

Original motif
0.275207    0.211375    0.250277    0.263141    
0.135064    0.327571    0.217556    0.319808    
0.145659    0.242586    0.267179    0.344576    
0.656519    0.009712    0.315174    0.018595    
0.002265    0.004755    0.001656    0.991325    
0.041873    0.001128    0.955340    0.001659    
0.001306    0.974834    0.022215    0.001645    
0.001978    0.992066    0.002638    0.003317    
0.921032    0.072388    0.001237    0.005344    
0.582027    0.211694    0.115736    0.090542    
0.005990    0.927450    0.028306    0.038254    
0.027374    0.799879    0.053667    0.119080    
0.203510    0.191263    0.168997    0.436229    
0.402253    0.154087    0.291346    0.152314    
0.201201    0.414412    0.145330    0.239056    
0.241094    0.332661    0.143464    0.282781    
Consensus sequence: DBBATGCCAACCHVHH

Reverse complement motif
0.241094    0.143464    0.332661    0.282781    
0.201201    0.145330    0.414412    0.239056    
0.152314    0.154087    0.291346    0.402253    
0.436229    0.191263    0.168997    0.203510    
0.027374    0.053667    0.799879    0.119080    
0.005990    0.028306    0.927450    0.038254    
0.090542    0.211694    0.115736    0.582027    
0.005344    0.072388    0.001237    0.921032    
0.001978    0.002638    0.992066    0.003317    
0.001306    0.022215    0.974834    0.001645    
0.041873    0.955340    0.001128    0.001659    
0.991325    0.004755    0.001656    0.002265    
0.018595    0.009712    0.315174    0.656519    
0.344576    0.242586    0.267179    0.145659    
0.135064    0.217556    0.327571    0.319808    
0.263141    0.211375    0.250277    0.275207    
Consensus sequence: DDBHGGTTGGCATVBD

Alignment:
DBBATGCCAACCHVHH
-----GCCAAAGTAT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00146        Pou6f1_3733.1                      Original Motif                          Original Motif                          Backward       4              10             0.032571       

Species: Mus musculus

Original motif
0.380020    0.211224    0.295981    0.112776    
0.349734    0.309602    0.075135    0.265530    
0.356459    0.226592    0.169646    0.247302    
0.229673    0.350174    0.311906    0.108247    
0.757838    0.046686    0.016036    0.179440    
0.014478    0.002669    0.000464    0.982389    
0.984156    0.000563    0.002241    0.013039    
0.992195    0.001470    0.001823    0.004511    
0.001610    0.002156    0.003120    0.993114    
0.008328    0.001327    0.802239    0.188106    
0.990155    0.004149    0.002815    0.002881    
0.004992    0.004117    0.965215    0.025676    
0.091361    0.290495    0.533319    0.084826    
0.164763    0.143217    0.028702    0.663317    
0.164550    0.118473    0.276288    0.440689    
0.152985    0.151847    0.413228    0.281941    
0.241185    0.447249    0.135344    0.176222    
Consensus sequence: VHHVATAATGAGSTDDH

Reverse complement motif
0.241185    0.135344    0.447249    0.176222    
0.152985    0.413228    0.151847    0.281941    
0.440689    0.118473    0.276288    0.164550    
0.663317    0.143217    0.028702    0.164763    
0.091361    0.533319    0.290495    0.084826    
0.004992    0.965215    0.004117    0.025676    
0.002881    0.004149    0.002815    0.990155    
0.008328    0.802239    0.001327    0.188106    
0.993114    0.002156    0.003120    0.001610    
0.004511    0.001470    0.001823    0.992195    
0.013039    0.000563    0.002241    0.984156    
0.982389    0.002669    0.000464    0.014478    
0.179440    0.046686    0.016036    0.757838    
0.229673    0.311906    0.350174    0.108247    
0.247302    0.226592    0.169646    0.356459    
0.265530    0.309602    0.075135    0.349734    
0.112776    0.211224    0.295981    0.380020    
Consensus sequence: DHDASCTCATTATVHHB

Alignment:
VHHVATAATGAGSTDDH
----ATACTTTGGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Original Motif                          Backward       6              10             0.033022       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
DDDYCCTTTGATCTDDV
--ATACTTTGGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 70		Motif name: CagTGCTCCACTGTGgT

Original motif
0.150000    0.700000    0.016667    0.133333    
0.650000    0.150000    0.050000    0.150000    
0.166667    0.116667    0.633333    0.083333    
0.050000    0.033333    0.066667    0.850000    
0.050000    0.000000    0.833333    0.116667    
0.016667    0.966667    0.000000    0.016667    
0.050000    0.016667    0.000000    0.933333    
0.066667    0.833333    0.066667    0.033333    
0.033333    0.966667    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.050000    0.916667    0.016667    0.016667    
0.166667    0.000000    0.000000    0.833333    
0.083333    0.016667    0.900000    0.000000    
0.000000    0.016667    0.016667    0.966667    
0.000000    0.016667    0.966667    0.016667    
0.116667    0.166667    0.483333    0.233333    
0.066667    0.083333    0.050000    0.800000    
Consensus sequence: CAGTGCTCCACTGTGBT

Reserve complement motif
0.800000    0.083333    0.050000    0.066667    
0.116667    0.483333    0.166667    0.233333    
0.000000    0.966667    0.016667    0.016667    
0.966667    0.016667    0.016667    0.000000    
0.083333    0.900000    0.016667    0.000000    
0.833333    0.000000    0.000000    0.166667    
0.050000    0.016667    0.916667    0.016667    
0.000000    0.000000    0.000000    1.000000    
0.033333    0.000000    0.966667    0.000000    
0.066667    0.066667    0.833333    0.033333    
0.933333    0.016667    0.000000    0.050000    
0.016667    0.000000    0.966667    0.016667    
0.050000    0.833333    0.000000    0.116667    
0.850000    0.033333    0.066667    0.050000    
0.166667    0.633333    0.116667    0.083333    
0.150000    0.150000    0.050000    0.650000    
0.150000    0.016667    0.700000    0.133333    
Consensus sequence: ABCACAGTGGAGCACTG


************************************************************************ Best Matches for Motif ID 70 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Reverse Complement                      Reverse Complement                      Backward       4              17             0.041931       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
--ABCACAGTGGAGCACTG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Reverse Complement                      Original Motif                          Backward       1              17             0.050190       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
HHBDHDDAACAATDRHHHHHBW
-----ABCACAGTGGAGCACTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Original Motif                          Reverse Complement                      Forward        3              17             0.050478       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
HGDHVHKGACCACCCGGBGBGDB
--CAGTGCTCCACTGTGBT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00022        Zfp740_secondary                   Original Motif                          Original Motif                          Forward        1              17             0.051309       

Species: Mus musculus

Original motif
0.398967    0.071604    0.323957    0.205472    
0.457709    0.058192    0.267218    0.216881    
0.393346    0.032365    0.329533    0.244756    
0.119528    0.091191    0.190078    0.599202    
0.273933    0.123548    0.073075    0.529444    
0.068935    0.812883    0.015245    0.102937    
0.029664    0.907790    0.024804    0.037742    
0.020725    0.933422    0.016796    0.029057    
0.015086    0.948448    0.018030    0.018436    
0.015628    0.884941    0.061172    0.038259    
0.067508    0.744063    0.107305    0.081125    
0.108097    0.140614    0.650174    0.101115    
0.065696    0.247239    0.506149    0.180916    
0.395005    0.077185    0.345914    0.181895    
0.527081    0.093650    0.281853    0.097416    
0.289378    0.245159    0.348803    0.116660    
0.147136    0.260117    0.145993    0.446754    
Consensus sequence: DDDTWCCCCCCGGDRVH

Reverse complement motif
0.446754    0.260117    0.145993    0.147136    
0.289378    0.348803    0.245159    0.116660    
0.097416    0.093650    0.281853    0.527081    
0.181895    0.077185    0.345914    0.395005    
0.065696    0.506149    0.247239    0.180916    
0.108097    0.650174    0.140614    0.101115    
0.067508    0.107305    0.744063    0.081125    
0.015628    0.061172    0.884941    0.038259    
0.015086    0.018030    0.948448    0.018436    
0.020725    0.016796    0.933422    0.029057    
0.029664    0.024804    0.907790    0.037742    
0.068935    0.015245    0.812883    0.102937    
0.529444    0.123548    0.073075    0.273933    
0.599202    0.091191    0.190078    0.119528    
0.244756    0.032365    0.329533    0.393346    
0.216881    0.058192    0.267218    0.457709    
0.205472    0.071604    0.323957    0.398967    
Consensus sequence: HVKDCCGGGGGGWADDD

Alignment:
DDDTWCCCCCCGGDRVH
CAGTGCTCCACTGTGBT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Original Motif                          Reverse Complement                      Forward        2              17             0.051651       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
-CAGTGCTCCACTGTGBT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_primary                      Reverse Complement                      Reverse Complement                      Forward        3              17             0.052352       

Species: Mus musculus

Original motif
0.402634    0.249702    0.143705    0.203959    
0.709619    0.108953    0.130781    0.050647    
0.334232    0.077498    0.228818    0.359452    
0.131721    0.094794    0.234481    0.539005    
0.170102    0.237609    0.252464    0.339824    
0.244961    0.347304    0.228129    0.179606    
0.612141    0.132244    0.180110    0.075504    
0.472236    0.042388    0.234419    0.250957    
0.125213    0.007413    0.849788    0.017587    
0.702068    0.064216    0.141992    0.091724    
0.008657    0.038238    0.002959    0.950145    
0.007170    0.002244    0.986824    0.003763    
0.002862    0.979956    0.000711    0.016471    
0.971196    0.001954    0.011441    0.015409    
0.105575    0.031482    0.022836    0.840107    
0.031534    0.736742    0.032785    0.198939    
0.479153    0.347558    0.031799    0.141490    
0.056405    0.123140    0.023989    0.796466    
0.111194    0.195344    0.501360    0.192102    
0.376359    0.416820    0.072818    0.134004    
0.225111    0.249460    0.306563    0.218866    
0.405251    0.168478    0.108618    0.317653    
0.165386    0.191749    0.268604    0.374261    
Consensus sequence: HADTBVADGATGCATCMTGMVHB

Reverse complement motif
0.374261    0.191749    0.268604    0.165386    
0.317653    0.168478    0.108618    0.405251    
0.225111    0.306563    0.249460    0.218866    
0.376359    0.072818    0.416820    0.134004    
0.111194    0.501360    0.195344    0.192102    
0.796466    0.123140    0.023989    0.056405    
0.141490    0.347558    0.031799    0.479153    
0.031534    0.032785    0.736742    0.198939    
0.840107    0.031482    0.022836    0.105575    
0.015409    0.001954    0.011441    0.971196    
0.002862    0.000711    0.979956    0.016471    
0.007170    0.986824    0.002244    0.003763    
0.950145    0.038238    0.002959    0.008657    
0.091724    0.064216    0.141992    0.702068    
0.125213    0.849788    0.007413    0.017587    
0.250957    0.042388    0.234419    0.472236    
0.075504    0.132244    0.180110    0.612141    
0.244961    0.228129    0.347304    0.179606    
0.339824    0.237609    0.252464    0.170102    
0.539005    0.094794    0.234481    0.131721    
0.359452    0.077498    0.228818    0.334232    
0.050647    0.108953    0.130781    0.709619    
0.203959    0.249702    0.143705    0.402634    
Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Alignment:
VHVRCAYGATGCATCDTVVADTH
--ABCACAGTGGAGCACTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Reverse Complement                      Reverse Complement                      Forward        3              17             0.053668       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
--ABCACAGTGGAGCACTG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Reverse Complement                      Original Motif                          Forward        6              17             0.053902       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
YDYBDHTMCACGTGGADDBMDGT
-----ABCACAGTGGAGCACTG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00042        Gm397_primary                      Reverse Complement                      Reverse Complement                      Backward       1              17             0.055821       

Species: Mus musculus

Original motif
0.248614    0.321010    0.201723    0.228654    
0.332381    0.190810    0.184854    0.291955    
0.253802    0.119338    0.331394    0.295466    
0.577827    0.100884    0.130066    0.191223    
0.180374    0.011174    0.042942    0.765510    
0.009131    0.024996    0.962422    0.003450    
0.003308    0.034731    0.002930    0.959032    
0.063907    0.001099    0.933714    0.001280    
0.001280    0.933714    0.001099    0.063907    
0.959032    0.002930    0.034731    0.003308    
0.003450    0.962422    0.024996    0.009131    
0.765510    0.042942    0.011174    0.180374    
0.026456    0.256356    0.130672    0.586516    
0.589555    0.285548    0.036864    0.088034    
0.265828    0.529813    0.031915    0.172445    
0.209015    0.104817    0.374275    0.311892    
0.224283    0.292805    0.144270    0.338642    
Consensus sequence: HHDATGTGCACATAMDH

Reverse complement motif
0.338642    0.292805    0.144270    0.224283    
0.209015    0.374275    0.104817    0.311892    
0.265828    0.031915    0.529813    0.172445    
0.088034    0.285548    0.036864    0.589555    
0.586516    0.256356    0.130672    0.026456    
0.180374    0.042942    0.011174    0.765510    
0.003450    0.024996    0.962422    0.009131    
0.003308    0.002930    0.034731    0.959032    
0.001280    0.001099    0.933714    0.063907    
0.063907    0.933714    0.001099    0.001280    
0.959032    0.034731    0.002930    0.003308    
0.009131    0.962422    0.024996    0.003450    
0.765510    0.011174    0.042942    0.180374    
0.191223    0.100884    0.130066    0.577827    
0.253802    0.331394    0.119338    0.295466    
0.291955    0.190810    0.184854    0.332381    
0.248614    0.201723    0.321010    0.228654    
Consensus sequence: HHRTATGTGCACATHHD

Alignment:
HHRTATGTGCACATHHD
ABCACAGTGGAGCACTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_secondary                    Original Motif                          Reverse Complement                      Forward        5              17             0.055867       

Species: Mus musculus

Original motif
0.477863    0.106306    0.184102    0.231729    
0.304951    0.149020    0.361418    0.184612    
0.548996    0.056128    0.348902    0.045974    
0.385727    0.477782    0.086218    0.050273    
0.409556    0.232265    0.173851    0.184328    
0.174550    0.312880    0.307123    0.205448    
0.850398    0.047204    0.041665    0.060734    
0.141234    0.548534    0.142230    0.168002    
0.059462    0.026354    0.892948    0.021236    
0.053714    0.870297    0.028935    0.047055    
0.086273    0.069147    0.805284    0.039296    
0.033781    0.573881    0.034115    0.358223    
0.035191    0.079663    0.824970    0.060176    
0.051830    0.862631    0.019359    0.066180    
0.178685    0.015738    0.762485    0.043092    
0.058988    0.042615    0.017608    0.880789    
0.202382    0.173360    0.284095    0.340163    
0.098493    0.234651    0.506524    0.160333    
0.109087    0.336204    0.250510    0.304198    
0.130945    0.250843    0.177122    0.441090    
0.353830    0.138838    0.162784    0.344548    
0.114290    0.417163    0.160662    0.307885    
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB

Reverse complement motif
0.114290    0.160662    0.417163    0.307885    
0.344548    0.138838    0.162784    0.353830    
0.441090    0.250843    0.177122    0.130945    
0.109087    0.250510    0.336204    0.304198    
0.098493    0.506524    0.234651    0.160333    
0.340163    0.173360    0.284095    0.202382    
0.880789    0.042615    0.017608    0.058988    
0.178685    0.762485    0.015738    0.043092    
0.051830    0.019359    0.862631    0.066180    
0.035191    0.824970    0.079663    0.060176    
0.033781    0.034115    0.573881    0.358223    
0.086273    0.805284    0.069147    0.039296    
0.053714    0.028935    0.870297    0.047055    
0.059462    0.892948    0.026354    0.021236    
0.141234    0.142230    0.548534    0.168002    
0.060734    0.047204    0.041665    0.850398    
0.174550    0.307123    0.312880    0.205448    
0.184328    0.232265    0.173851    0.409556    
0.385727    0.086218    0.477782    0.050273    
0.045974    0.056128    0.348902    0.548996    
0.304951    0.361418    0.149020    0.184612    
0.231729    0.106306    0.184102    0.477863    
Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Alignment:
BDVBCDACGCKCGCGTBHRKHD
----CAGTGCTCCACTGTGBT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 71		Motif name: AmTGTGACACCACAGT

Original motif
0.703125    0.187500    0.015625    0.093750    
0.265625    0.500000    0.125000    0.109375    
0.015625    0.046875    0.031250    0.906250    
0.078125    0.015625    0.890625    0.015625    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.031250    0.906250    0.062500    
0.953125    0.000000    0.015625    0.031250    
0.046875    0.890625    0.000000    0.062500    
0.968750    0.000000    0.015625    0.015625    
0.109375    0.781250    0.062500    0.046875    
0.062500    0.890625    0.000000    0.046875    
0.953125    0.000000    0.031250    0.015625    
0.031250    0.781250    0.046875    0.140625    
0.937500    0.015625    0.031250    0.015625    
0.093750    0.078125    0.734375    0.093750    
0.031250    0.078125    0.000000    0.890625    
Consensus sequence: AMTGTGACACCACAGT

Reserve complement motif
0.890625    0.078125    0.000000    0.031250    
0.093750    0.734375    0.078125    0.093750    
0.015625    0.015625    0.031250    0.937500    
0.031250    0.046875    0.781250    0.140625    
0.015625    0.000000    0.031250    0.953125    
0.062500    0.000000    0.890625    0.046875    
0.109375    0.062500    0.781250    0.046875    
0.015625    0.000000    0.015625    0.968750    
0.046875    0.000000    0.890625    0.062500    
0.031250    0.000000    0.015625    0.953125    
0.000000    0.906250    0.031250    0.062500    
1.000000    0.000000    0.000000    0.000000    
0.078125    0.890625    0.015625    0.015625    
0.906250    0.046875    0.031250    0.015625    
0.265625    0.125000    0.500000    0.109375    
0.093750    0.187500    0.015625    0.703125    
Consensus sequence: ACTGTGGTGTCACART


************************************************************************ Best Matches for Motif ID 71 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00020        Atf1_primary                       Original Motif                          Original Motif                          Forward        1              16             0.027393       

Species: Mus musculus

Original motif
0.381335    0.135129    0.244887    0.238648    
0.139538    0.419619    0.195665    0.245178    
0.158070    0.098493    0.409974    0.333462    
0.472756    0.096594    0.388246    0.042403    
0.008868    0.028811    0.005332    0.956990    
0.014102    0.014269    0.863476    0.108153    
0.962594    0.004653    0.011816    0.020937    
0.003091    0.949099    0.003165    0.044646    
0.044646    0.003165    0.949099    0.003091    
0.020937    0.011816    0.004653    0.962594    
0.108153    0.863476    0.014269    0.014102    
0.956990    0.005332    0.028811    0.008868    
0.049761    0.357863    0.144826    0.447550    
0.225769    0.448432    0.142340    0.183460    
0.264766    0.097627    0.493031    0.144576    
0.352319    0.180279    0.236767    0.230635    
Consensus sequence: DBDRTGACGTCAYHRD

Reverse complement motif
0.230635    0.180279    0.236767    0.352319    
0.264766    0.493031    0.097627    0.144576    
0.225769    0.142340    0.448432    0.183460    
0.447550    0.357863    0.144826    0.049761    
0.008868    0.005332    0.028811    0.956990    
0.108153    0.014269    0.863476    0.014102    
0.962594    0.011816    0.004653    0.020937    
0.044646    0.949099    0.003165    0.003091    
0.003091    0.003165    0.949099    0.044646    
0.020937    0.004653    0.011816    0.962594    
0.014102    0.863476    0.014269    0.108153    
0.956990    0.028811    0.005332    0.008868    
0.042403    0.096594    0.388246    0.472756    
0.158070    0.409974    0.098493    0.333462    
0.139538    0.195665    0.419619    0.245178    
0.238648    0.135129    0.244887    0.381335    
Consensus sequence: DMDMTGACGTCAKHBD

Alignment:
DBDRTGACGTCAYHRD
AMTGTGACACCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00159        Six2                               Original Motif                          Reverse Complement                      Forward        2              16             0.030325       

Species: Mus musculus

Original motif
0.452545    0.099192    0.290852    0.157411    
0.587199    0.117373    0.086707    0.208721    
0.191837    0.044362    0.256539    0.507262    
0.299111    0.107464    0.518651    0.074774    
0.118226    0.040974    0.797168    0.043631    
0.010113    0.030311    0.923661    0.035916    
0.126925    0.002828    0.869144    0.001103    
0.001338    0.000719    0.046297    0.951646    
0.958864    0.001525    0.038365    0.001246    
0.003353    0.001741    0.001927    0.992979    
0.007665    0.981087    0.001717    0.009531    
0.903866    0.022768    0.054074    0.019292    
0.165996    0.505327    0.077238    0.251439    
0.252666    0.168847    0.288545    0.289942    
0.336830    0.080857    0.058862    0.523451    
0.234102    0.268721    0.215252    0.281925    
0.172036    0.083695    0.223889    0.520379    
Consensus sequence: DAKRGGGTATCACDWHT

Reverse complement motif
0.520379    0.083695    0.223889    0.172036    
0.281925    0.268721    0.215252    0.234102    
0.523451    0.080857    0.058862    0.336830    
0.289942    0.168847    0.288545    0.252666    
0.165996    0.077238    0.505327    0.251439    
0.019292    0.022768    0.054074    0.903866    
0.007665    0.001717    0.981087    0.009531    
0.992979    0.001741    0.001927    0.003353    
0.001246    0.001525    0.038365    0.958864    
0.951646    0.000719    0.046297    0.001338    
0.126925    0.869144    0.002828    0.001103    
0.010113    0.923661    0.030311    0.035916    
0.118226    0.797168    0.040974    0.043631    
0.299111    0.518651    0.107464    0.074774    
0.507262    0.044362    0.256539    0.191837    
0.208721    0.117373    0.086707    0.587199    
0.157411    0.099192    0.290852    0.452545    
Consensus sequence: AHWDGTGATACCCMRTD

Alignment:
AHWDGTGATACCCMRTD
-AMTGTGACACCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00103        Jundm2_primary                     Original Motif                          Original Motif                          Backward       1              16             0.034493       

Species: Mus musculus

Original motif
0.213023    0.312553    0.241727    0.232696    
0.126878    0.453780    0.251405    0.167937    
0.127927    0.138541    0.528637    0.204895    
0.572671    0.136079    0.242107    0.049142    
0.004569    0.015235    0.003215    0.976981    
0.004594    0.008024    0.836426    0.150956    
0.966548    0.003255    0.009947    0.020250    
0.001636    0.899650    0.004880    0.093834    
0.093834    0.004880    0.899650    0.001636    
0.020250    0.009947    0.003255    0.966548    
0.150956    0.836426    0.008024    0.004594    
0.976981    0.003215    0.015235    0.004569    
0.006508    0.324308    0.040126    0.629058    
0.170728    0.554933    0.116757    0.157582    
0.255966    0.170983    0.430910    0.142142    
0.228601    0.267456    0.166199    0.337744    
Consensus sequence: BBGATGACGTCAYCVH

Reverse complement motif
0.337744    0.267456    0.166199    0.228601    
0.255966    0.430910    0.170983    0.142142    
0.170728    0.116757    0.554933    0.157582    
0.629058    0.324308    0.040126    0.006508    
0.004569    0.003215    0.015235    0.976981    
0.150956    0.008024    0.836426    0.004594    
0.966548    0.009947    0.003255    0.020250    
0.093834    0.899650    0.004880    0.001636    
0.001636    0.004880    0.899650    0.093834    
0.020250    0.003255    0.009947    0.966548    
0.004594    0.836426    0.008024    0.150956    
0.976981    0.015235    0.003215    0.004569    
0.049142    0.136079    0.242107    0.572671    
0.127927    0.528637    0.138541    0.204895    
0.126878    0.251405    0.453780    0.167937    
0.213023    0.241727    0.312553    0.232696    
Consensus sequence: HVGMTGACGTCATCBB

Alignment:
BBGATGACGTCAYCVH
AMTGTGACACCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Reverse Complement                      Reverse Complement                      Forward        1              16             0.034837       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DBVVAGCTGTCAWWVTH
ACTGTGGTGTCACART-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00195        Six3                               Reverse Complement                      Original Motif                          Backward       2              16             0.034908       

Species: Mus musculus

Original motif
0.333695    0.093488    0.364569    0.208248    
0.720387    0.079055    0.078819    0.121739    
0.228565    0.054353    0.169178    0.547904    
0.473776    0.098972    0.322497    0.104754    
0.072282    0.069213    0.818062    0.040444    
0.015799    0.021866    0.895094    0.067240    
0.162037    0.008758    0.827015    0.002191    
0.001775    0.000990    0.043426    0.953808    
0.965015    0.002030    0.031105    0.001850    
0.003203    0.001736    0.003784    0.991277    
0.012698    0.972998    0.004011    0.010293    
0.917291    0.027214    0.032991    0.022504    
0.185849    0.445801    0.093804    0.274545    
0.248167    0.232363    0.199701    0.319769    
0.402850    0.084312    0.108918    0.403921    
0.335914    0.216832    0.177371    0.269883    
0.075023    0.107186    0.239759    0.578031    
Consensus sequence: DATRGGGTATCAHHWHT

Reverse complement motif
0.578031    0.107186    0.239759    0.075023    
0.269883    0.216832    0.177371    0.335914    
0.403921    0.084312    0.108918    0.402850    
0.319769    0.232363    0.199701    0.248167    
0.185849    0.093804    0.445801    0.274545    
0.022504    0.027214    0.032991    0.917291    
0.012698    0.004011    0.972998    0.010293    
0.991277    0.001736    0.003784    0.003203    
0.001850    0.002030    0.031105    0.965015    
0.953808    0.000990    0.043426    0.001775    
0.162037    0.827015    0.008758    0.002191    
0.015799    0.895094    0.021866    0.067240    
0.072282    0.818062    0.069213    0.040444    
0.104754    0.098972    0.322497    0.473776    
0.547904    0.054353    0.169178    0.228565    
0.121739    0.079055    0.078819    0.720387    
0.333695    0.364569    0.093488    0.208248    
Consensus sequence: AHWHDTGATACCCKATH

Alignment:
DATRGGGTATCAHHWHT
ACTGTGGTGTCACART-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00388        Six6_2267.4                        Reverse Complement                      Original Motif                          Backward       2              16             0.035409       

Species: Mus musculus

Original motif
0.330559    0.118371    0.278738    0.272331    
0.605486    0.104492    0.066247    0.223775    
0.180170    0.051522    0.131669    0.636639    
0.431457    0.173748    0.323416    0.071378    
0.131729    0.037944    0.812991    0.017337    
0.022726    0.033975    0.914981    0.028317    
0.138556    0.012597    0.847660    0.001188    
0.001916    0.001156    0.046653    0.950276    
0.965626    0.001518    0.031319    0.001536    
0.003782    0.001412    0.002175    0.992631    
0.006601    0.979412    0.002328    0.011660    
0.947233    0.007670    0.017734    0.027363    
0.374066    0.305253    0.063914    0.256767    
0.267070    0.210201    0.216997    0.305732    
0.294988    0.127424    0.094154    0.483434    
0.354130    0.195592    0.176636    0.273642    
0.094874    0.110275    0.192261    0.602591    
Consensus sequence: DATRGGGTATCAHDWHT

Reverse complement motif
0.602591    0.110275    0.192261    0.094874    
0.273642    0.195592    0.176636    0.354130    
0.483434    0.127424    0.094154    0.294988    
0.305732    0.210201    0.216997    0.267070    
0.256767    0.305253    0.063914    0.374066    
0.027363    0.007670    0.017734    0.947233    
0.006601    0.002328    0.979412    0.011660    
0.992631    0.001412    0.002175    0.003782    
0.001536    0.001518    0.031319    0.965626    
0.950276    0.001156    0.046653    0.001916    
0.138556    0.847660    0.012597    0.001188    
0.022726    0.914981    0.033975    0.028317    
0.131729    0.812991    0.037944    0.017337    
0.071378    0.173748    0.323416    0.431457    
0.636639    0.051522    0.131669    0.180170    
0.223775    0.104492    0.066247    0.605486    
0.272331    0.118371    0.278738    0.330559    
Consensus sequence: AHWDHTGATACCCKATD

Alignment:
DATRGGGTATCAHDWHT
ACTGTGGTGTCACART-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00192        Six1                               Reverse Complement                      Original Motif                          Forward        1              16             0.035431       

Species: Mus musculus

Original motif
0.319306    0.130147    0.399309    0.151238    
0.482636    0.211172    0.085871    0.220321    
0.214292    0.085504    0.207353    0.492851    
0.392819    0.136859    0.403883    0.066438    
0.215886    0.049341    0.685932    0.048842    
0.039793    0.053756    0.870240    0.036211    
0.202525    0.005026    0.791396    0.001053    
0.001092    0.001021    0.052968    0.944919    
0.963185    0.001738    0.033596    0.001480    
0.002017    0.001886    0.002847    0.993250    
0.009914    0.974962    0.001987    0.013137    
0.909252    0.021586    0.037899    0.031263    
0.177851    0.274190    0.117998    0.429961    
0.228906    0.159459    0.303955    0.307681    
0.330938    0.158106    0.118706    0.392251    
0.160453    0.267920    0.280244    0.291383    
0.176707    0.068175    0.229538    0.525580    
Consensus sequence: DHDRGGGTATCAHDHBT

Reverse complement motif
0.525580    0.068175    0.229538    0.176707    
0.291383    0.267920    0.280244    0.160453    
0.392251    0.158106    0.118706    0.330938    
0.307681    0.159459    0.303955    0.228906    
0.429961    0.274190    0.117998    0.177851    
0.031263    0.021586    0.037899    0.909252    
0.009914    0.001987    0.974962    0.013137    
0.993250    0.001886    0.002847    0.002017    
0.001480    0.001738    0.033596    0.963185    
0.944919    0.001021    0.052968    0.001092    
0.202525    0.791396    0.005026    0.001053    
0.039793    0.870240    0.053756    0.036211    
0.215886    0.685932    0.049341    0.048842    
0.392819    0.403883    0.136859    0.066438    
0.492851    0.085504    0.207353    0.214292    
0.220321    0.211172    0.085871    0.482636    
0.319306    0.399309    0.130147    0.151238    
Consensus sequence: AVHDHTGATACCCMDHH

Alignment:
AVHDHTGATACCCMDHH
ACTGTGGTGTCACART-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00199        Six4                               Original Motif                          Original Motif                          Forward        2              16             0.035515       

Species: Mus musculus

Original motif
0.523054    0.168817    0.140331    0.167798    
0.187385    0.177009    0.246164    0.389442    
0.414492    0.118547    0.308876    0.158085    
0.345234    0.289795    0.130249    0.234723    
0.611522    0.116948    0.098944    0.172586    
0.016342    0.029436    0.015062    0.939161    
0.014351    0.004796    0.962435    0.018418    
0.987454    0.005228    0.002590    0.004727    
0.007431    0.812214    0.005849    0.174506    
0.969354    0.025386    0.002362    0.002898    
0.005123    0.989068    0.003362    0.002447    
0.001424    0.969981    0.012011    0.016585    
0.209729    0.227411    0.210523    0.352337    
0.341679    0.297940    0.104590    0.255792    
0.126190    0.288862    0.245018    0.339930    
0.173008    0.295896    0.252422    0.278674    
0.409639    0.210750    0.296197    0.083415    
Consensus sequence: ADDHATGACACCBHBBV

Reverse complement motif
0.083415    0.210750    0.296197    0.409639    
0.173008    0.252422    0.295896    0.278674    
0.339930    0.288862    0.245018    0.126190    
0.255792    0.297940    0.104590    0.341679    
0.352337    0.227411    0.210523    0.209729    
0.001424    0.012011    0.969981    0.016585    
0.005123    0.003362    0.989068    0.002447    
0.002898    0.025386    0.002362    0.969354    
0.007431    0.005849    0.812214    0.174506    
0.004727    0.005228    0.002590    0.987454    
0.014351    0.962435    0.004796    0.018418    
0.939161    0.029436    0.015062    0.016342    
0.172586    0.116948    0.098944    0.611522    
0.234723    0.289795    0.130249    0.345234    
0.158085    0.118547    0.308876    0.414492    
0.389442    0.177009    0.246164    0.187385    
0.167798    0.168817    0.140331    0.523054    
Consensus sequence: BBVHVGGTGTCATHDDT

Alignment:
ADDHATGACACCBHBBV
-AMTGTGACACCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00053        Rxra_primary                       Original Motif                          Original Motif                          Forward        2              16             0.036249       

Species: Mus musculus

Original motif
0.235299    0.222264    0.237416    0.305021    
0.144778    0.278902    0.341673    0.234648    
0.261127    0.261904    0.191591    0.285378    
0.119943    0.410774    0.218940    0.250343    
0.222672    0.075554    0.365253    0.336521    
0.001838    0.046904    0.002828    0.948430    
0.030410    0.006359    0.960821    0.002410    
0.987391    0.007562    0.002810    0.002237    
0.105188    0.888650    0.001163    0.004998    
0.006475    0.987074    0.001793    0.004659    
0.001816    0.765138    0.003092    0.229953    
0.010354    0.846496    0.029899    0.113251    
0.328732    0.039382    0.265510    0.366377    
0.209638    0.262628    0.145613    0.382121    
0.385390    0.177695    0.299828    0.137087    
0.403452    0.268924    0.096028    0.231595    
0.203082    0.231812    0.213520    0.351585    
Consensus sequence: DBHBDTGACCCCDHVHB

Reverse complement motif
0.351585    0.231812    0.213520    0.203082    
0.231595    0.268924    0.096028    0.403452    
0.137087    0.177695    0.299828    0.385390    
0.382121    0.262628    0.145613    0.209638    
0.366377    0.039382    0.265510    0.328732    
0.010354    0.029899    0.846496    0.113251    
0.001816    0.003092    0.765138    0.229953    
0.006475    0.001793    0.987074    0.004659    
0.105188    0.001163    0.888650    0.004998    
0.002237    0.007562    0.002810    0.987391    
0.030410    0.960821    0.006359    0.002410    
0.948430    0.046904    0.002828    0.001838    
0.222672    0.365253    0.075554    0.336521    
0.119943    0.218940    0.410774    0.250343    
0.285378    0.261904    0.191591    0.261127    
0.144778    0.341673    0.278902    0.234648    
0.305021    0.222264    0.237416    0.235299    
Consensus sequence: VHBHDGGGGTCAHBHBD

Alignment:
DBHBDTGACCCCDHVHB
-AMTGTGACACCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00388        Six6_2267.5                        Original Motif                          Reverse Complement                      Backward       1              16             0.037488       

Species: Mus musculus

Original motif
0.357565    0.095438    0.345110    0.201887    
0.415206    0.108701    0.160030    0.316063    
0.276710    0.105226    0.183597    0.434468    
0.461481    0.135300    0.303126    0.100093    
0.190186    0.035578    0.728290    0.045946    
0.040893    0.024794    0.889495    0.044817    
0.197092    0.018297    0.781124    0.003487    
0.005212    0.002190    0.027421    0.965178    
0.970183    0.002451    0.021340    0.006025    
0.004645    0.002381    0.003788    0.989186    
0.017413    0.955357    0.007268    0.019962    
0.927889    0.018513    0.013421    0.040177    
0.411060    0.139133    0.096462    0.353345    
0.215585    0.237932    0.205422    0.341060    
0.409189    0.134754    0.084179    0.371879    
0.210772    0.273586    0.108006    0.407635    
0.091781    0.159161    0.216288    0.532770    
Consensus sequence: DDDRGGGTATCAWHWHT

Reverse complement motif
0.532770    0.159161    0.216288    0.091781    
0.407635    0.273586    0.108006    0.210772    
0.371879    0.134754    0.084179    0.409189    
0.341060    0.237932    0.205422    0.215585    
0.353345    0.139133    0.096462    0.411060    
0.040177    0.018513    0.013421    0.927889    
0.017413    0.007268    0.955357    0.019962    
0.989186    0.002381    0.003788    0.004645    
0.006025    0.002451    0.021340    0.970183    
0.965178    0.002190    0.027421    0.005212    
0.197092    0.781124    0.018297    0.003487    
0.040893    0.889495    0.024794    0.044817    
0.190186    0.728290    0.035578    0.045946    
0.100093    0.135300    0.303126    0.461481    
0.434468    0.105226    0.183597    0.276710    
0.316063    0.108701    0.160030    0.415206    
0.201887    0.095438    0.345110    0.357565    
Consensus sequence: AHWHWTGATACCCKDDD

Alignment:
DDDRGGGTATCAWHWHT
-AMTGTGACACCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 72		Motif name: CACTGTGrYrtCACAGTGswsCAcT

Original motif
0.111111    0.746032    0.063492    0.079365    
0.857143    0.047619    0.047619    0.047619    
0.047619    0.857143    0.079365    0.015873    
0.031746    0.000000    0.000000    0.968254    
0.031746    0.015873    0.904762    0.047619    
0.000000    0.000000    0.000000    1.000000    
0.031746    0.000000    0.857143    0.111111    
0.396825    0.111111    0.412698    0.079365    
0.031746    0.253968    0.015873    0.698413    
0.365079    0.000000    0.634921    0.000000    
0.079365    0.206349    0.047619    0.666667    
0.047619    0.936508    0.015873    0.000000    
0.952381    0.000000    0.015873    0.031746    
0.015873    0.920635    0.000000    0.063492    
0.920635    0.000000    0.000000    0.079365    
0.063492    0.047619    0.841270    0.047619    
0.000000    0.000000    0.015873    0.984127    
0.047619    0.015873    0.904762    0.031746    
0.015873    0.603175    0.317460    0.063492    
0.396825    0.000000    0.015873    0.587302    
0.015873    0.476190    0.428571    0.079365    
0.063492    0.920635    0.000000    0.015873    
0.920635    0.015873    0.047619    0.015873    
0.095238    0.682540    0.095238    0.126984    
0.047619    0.015873    0.095238    0.841270    
Consensus sequence: CACTGTGRTRTCACAGTGSWSCACT

Reserve complement motif
0.841270    0.015873    0.095238    0.047619    
0.095238    0.095238    0.682540    0.126984    
0.015873    0.015873    0.047619    0.920635    
0.063492    0.000000    0.920635    0.015873    
0.015873    0.428571    0.476190    0.079365    
0.587302    0.000000    0.015873    0.396825    
0.015873    0.317460    0.603175    0.063492    
0.047619    0.904762    0.015873    0.031746    
0.984127    0.000000    0.015873    0.000000    
0.063492    0.841270    0.047619    0.047619    
0.079365    0.000000    0.000000    0.920635    
0.015873    0.000000    0.920635    0.063492    
0.031746    0.000000    0.015873    0.952381    
0.047619    0.015873    0.936508    0.000000    
0.666667    0.206349    0.047619    0.079365    
0.365079    0.634921    0.000000    0.000000    
0.698413    0.253968    0.015873    0.031746    
0.396825    0.412698    0.111111    0.079365    
0.031746    0.857143    0.000000    0.111111    
1.000000    0.000000    0.000000    0.000000    
0.031746    0.904762    0.015873    0.047619    
0.968254    0.000000    0.000000    0.031746    
0.047619    0.079365    0.857143    0.015873    
0.047619    0.047619    0.047619    0.857143    
0.111111    0.063492    0.746032    0.079365    
Consensus sequence: AGTGSWSCACTGTGAMAMCACAGTG


************************************************************************ Best Matches for Motif ID 72 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Original Motif                          Original Motif                          Forward        5              21             0.055837       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
HHBDHDDAACAATDRHHHHHBW----
----CACTGTGRTRTCACAGTGSWSCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Reverse Complement                      Reverse Complement                      Backward       6              20             0.554770       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
-----VMYDHDGMCCHCCKBGVVAAVH
AGTGSWSCACTGTGAMAMCACAGTG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Reverse Complement                      Original Motif                          Backward       5              19             1.057225       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
------DTVBDDRGACCACCCAGDWDGBH
AGTGSWSCACTGTGAMAMCACAGTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Reverse Complement                      Forward        7              19             1.059462       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
HGDHVHKGACCACCCGGBGBGDB------
------AGTGSWSCACTGTGAMAMCACAGTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Original Motif                          Reverse Complement                      Forward        8              18             1.549601       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
HTBVVVDGGACCACCCRGRDBG-------
-------CACTGTGRTRTCACAGTGSWSCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_primary                      Original Motif                          Reverse Complement                      Backward       6              18             1.551493       

Species: Mus musculus

Original motif
0.402634    0.249702    0.143705    0.203959    
0.709619    0.108953    0.130781    0.050647    
0.334232    0.077498    0.228818    0.359452    
0.131721    0.094794    0.234481    0.539005    
0.170102    0.237609    0.252464    0.339824    
0.244961    0.347304    0.228129    0.179606    
0.612141    0.132244    0.180110    0.075504    
0.472236    0.042388    0.234419    0.250957    
0.125213    0.007413    0.849788    0.017587    
0.702068    0.064216    0.141992    0.091724    
0.008657    0.038238    0.002959    0.950145    
0.007170    0.002244    0.986824    0.003763    
0.002862    0.979956    0.000711    0.016471    
0.971196    0.001954    0.011441    0.015409    
0.105575    0.031482    0.022836    0.840107    
0.031534    0.736742    0.032785    0.198939    
0.479153    0.347558    0.031799    0.141490    
0.056405    0.123140    0.023989    0.796466    
0.111194    0.195344    0.501360    0.192102    
0.376359    0.416820    0.072818    0.134004    
0.225111    0.249460    0.306563    0.218866    
0.405251    0.168478    0.108618    0.317653    
0.165386    0.191749    0.268604    0.374261    
Consensus sequence: HADTBVADGATGCATCMTGMVHB

Reverse complement motif
0.374261    0.191749    0.268604    0.165386    
0.317653    0.168478    0.108618    0.405251    
0.225111    0.306563    0.249460    0.218866    
0.376359    0.072818    0.416820    0.134004    
0.111194    0.501360    0.195344    0.192102    
0.796466    0.123140    0.023989    0.056405    
0.141490    0.347558    0.031799    0.479153    
0.031534    0.032785    0.736742    0.198939    
0.840107    0.031482    0.022836    0.105575    
0.015409    0.001954    0.011441    0.971196    
0.002862    0.000711    0.979956    0.016471    
0.007170    0.986824    0.002244    0.003763    
0.950145    0.038238    0.002959    0.008657    
0.091724    0.064216    0.141992    0.702068    
0.125213    0.849788    0.007413    0.017587    
0.250957    0.042388    0.234419    0.472236    
0.075504    0.132244    0.180110    0.612141    
0.244961    0.228129    0.347304    0.179606    
0.339824    0.237609    0.252464    0.170102    
0.539005    0.094794    0.234481    0.131721    
0.359452    0.077498    0.228818    0.334232    
0.050647    0.108953    0.130781    0.709619    
0.203959    0.249702    0.143705    0.402634    
Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Alignment:
-------VHVRCAYGATGCATCDTVVADTH
CACTGTGRTRTCACAGTGSWSCACT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Reverse Complement                      Original Motif                          Forward        5              18             1.556070       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
HDGHHBHRGACCACCCGSVDVG-------
----AGTGSWSCACTGTGAMAMCACAGTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00228        Bapx1                              Reverse Complement                      Original Motif                          Forward        2              17             2.042465       

Species: Mus musculus

Original motif
0.301697    0.347856    0.239075    0.111372    
0.364458    0.225587    0.074842    0.335112    
0.228472    0.141747    0.139010    0.490770    
0.559532    0.164793    0.197557    0.078118    
0.506611    0.130882    0.113226    0.249281    
0.054222    0.680706    0.257913    0.007160    
0.001978    0.899030    0.000622    0.098369    
0.950561    0.002121    0.000888    0.046429    
0.037529    0.960534    0.000660    0.001278    
0.001571    0.005538    0.001403    0.991487    
0.001274    0.052527    0.000520    0.945679    
0.926306    0.006886    0.003823    0.062985    
0.638246    0.038639    0.145042    0.178072    
0.266452    0.337698    0.283972    0.111878    
0.307019    0.250170    0.243307    0.199504    
0.550380    0.190997    0.122920    0.135703    
0.187982    0.330356    0.168897    0.312765    
Consensus sequence: VHHAACCACTTAAVVAH

Reverse complement motif
0.187982    0.168897    0.330356    0.312765    
0.135703    0.190997    0.122920    0.550380    
0.199504    0.250170    0.243307    0.307019    
0.266452    0.283972    0.337698    0.111878    
0.178072    0.038639    0.145042    0.638246    
0.062985    0.006886    0.003823    0.926306    
0.945679    0.052527    0.000520    0.001274    
0.991487    0.005538    0.001403    0.001571    
0.037529    0.000660    0.960534    0.001278    
0.046429    0.002121    0.000888    0.950561    
0.001978    0.000622    0.899030    0.098369    
0.054222    0.257913    0.680706    0.007160    
0.249281    0.130882    0.113226    0.506611    
0.078118    0.164793    0.197557    0.559532    
0.490770    0.141747    0.139010    0.228472    
0.335112    0.225587    0.074842    0.364458    
0.301697    0.239075    0.347856    0.111372    
Consensus sequence: DTBVTTAAGTGGTTHHV

Alignment:
DTBVTTAAGTGGTTHHV--------
-AGTGSWSCACTGTGAMAMCACAGTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_primary                      Original Motif                          Reverse Complement                      Forward        7              17             2.043161       

Species: Mus musculus

Original motif
0.401190    0.144405    0.268531    0.185874    
0.430224    0.168519    0.221247    0.180011    
0.172575    0.268499    0.274136    0.284789    
0.150971    0.297110    0.290868    0.261051    
0.133421    0.282842    0.434718    0.149019    
0.042798    0.941105    0.001785    0.014312    
0.890788    0.002551    0.103316    0.003345    
0.001887    0.951368    0.043722    0.003023    
0.011633    0.002218    0.002269    0.983880    
0.003597    0.003728    0.984819    0.007856    
0.002946    0.903520    0.072457    0.021077    
0.908487    0.057072    0.018256    0.016185    
0.076237    0.329864    0.228896    0.365003    
0.144926    0.162981    0.177370    0.514722    
0.124970    0.327876    0.295814    0.251341    
0.144592    0.313887    0.301912    0.239609    
0.108463    0.241747    0.350296    0.299494    
Consensus sequence: DDBBBCACTGCABTBBB

Reverse complement motif
0.108463    0.350296    0.241747    0.299494    
0.144592    0.301912    0.313887    0.239609    
0.124970    0.295814    0.327876    0.251341    
0.514722    0.162981    0.177370    0.144926    
0.365003    0.329864    0.228896    0.076237    
0.016185    0.057072    0.018256    0.908487    
0.002946    0.072457    0.903520    0.021077    
0.003597    0.984819    0.003728    0.007856    
0.983880    0.002218    0.002269    0.011633    
0.001887    0.043722    0.951368    0.003023    
0.003345    0.002551    0.103316    0.890788    
0.042798    0.001785    0.941105    0.014312    
0.133421    0.434718    0.282842    0.149019    
0.150971    0.290868    0.297110    0.261051    
0.284789    0.268499    0.274136    0.172575    
0.180011    0.168519    0.221247    0.430224    
0.185874    0.144405    0.268531    0.401190    
Consensus sequence: BBBAVTGCAGTGBBVDD

Alignment:
DDBBBCACTGCABTBBB--------
------CACTGTGRTRTCACAGTGSWSCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_1765.2                      Reverse Complement                      Original Motif                          Forward        4              17             2.043462       

Species: Mus musculus

Original motif
0.538735    0.129821    0.147336    0.184107    
0.331267    0.275123    0.227609    0.166001    
0.174654    0.113319    0.383610    0.328417    
0.296734    0.281670    0.230068    0.191527    
0.128222    0.561296    0.062928    0.247554    
0.027028    0.014676    0.949335    0.008962    
0.087209    0.761581    0.147964    0.003246    
0.006796    0.000741    0.006037    0.986427    
0.039496    0.000533    0.943453    0.016517    
0.005541    0.005164    0.002805    0.986489    
0.561957    0.002761    0.004207    0.431075    
0.780197    0.037155    0.031222    0.151425    
0.518642    0.104220    0.012670    0.364468    
0.314451    0.111366    0.333508    0.240676    
0.236936    0.357992    0.280813    0.124259    
0.314846    0.163774    0.426195    0.095185    
0.408340    0.134111    0.102987    0.354562    
Consensus sequence: AVDVCGCTGTWAWDVVW

Reverse complement motif
0.354562    0.134111    0.102987    0.408340    
0.314846    0.426195    0.163774    0.095185    
0.236936    0.280813    0.357992    0.124259    
0.314451    0.333508    0.111366    0.240676    
0.364468    0.104220    0.012670    0.518642    
0.151425    0.037155    0.031222    0.780197    
0.431075    0.002761    0.004207    0.561957    
0.986489    0.005164    0.002805    0.005541    
0.039496    0.943453    0.000533    0.016517    
0.986427    0.000741    0.006037    0.006796    
0.087209    0.147964    0.761581    0.003246    
0.027028    0.949335    0.014676    0.008962    
0.128222    0.062928    0.561296    0.247554    
0.191527    0.281670    0.230068    0.296734    
0.174654    0.383610    0.113319    0.328417    
0.166001    0.275123    0.227609    0.331267    
0.184107    0.129821    0.147336    0.538735    
Consensus sequence: WVVHWTWACAGCGBHBT

Alignment:
WVVHWTWACAGCGBHBT--------
---AGTGSWSCACTGTGAMAMCACAGTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 73		Motif name: TGGAGCACTGTGACAcCACAGTGg

Original motif
0.054054    0.040541    0.054054    0.851351    
0.040541    0.013514    0.824324    0.121622    
0.094595    0.135135    0.756757    0.013514    
0.891892    0.000000    0.000000    0.108108    
0.040541    0.094595    0.810811    0.054054    
0.081081    0.797297    0.054054    0.067568    
0.932432    0.027027    0.000000    0.040541    
0.054054    0.756757    0.135135    0.054054    
0.108108    0.027027    0.013514    0.851351    
0.108108    0.000000    0.851351    0.040541    
0.013514    0.000000    0.027027    0.959459    
0.000000    0.013514    0.945946    0.040541    
0.905405    0.000000    0.067568    0.027027    
0.054054    0.837838    0.000000    0.108108    
0.945946    0.013514    0.040541    0.000000    
0.162162    0.500000    0.189189    0.148649    
0.108108    0.824324    0.000000    0.067568    
0.945946    0.000000    0.040541    0.013514    
0.081081    0.837838    0.027027    0.054054    
0.945946    0.000000    0.013514    0.040541    
0.054054    0.067568    0.783784    0.094595    
0.054054    0.027027    0.000000    0.918919    
0.040541    0.013514    0.864865    0.081081    
0.148649    0.121622    0.675676    0.054054    
Consensus sequence: TGGAGCACTGTGACAVCACAGTGG

Reserve complement motif
0.148649    0.675676    0.121622    0.054054    
0.040541    0.864865    0.013514    0.081081    
0.918919    0.027027    0.000000    0.054054    
0.054054    0.783784    0.067568    0.094595    
0.040541    0.000000    0.013514    0.945946    
0.081081    0.027027    0.837838    0.054054    
0.013514    0.000000    0.040541    0.945946    
0.108108    0.000000    0.824324    0.067568    
0.162162    0.189189    0.500000    0.148649    
0.000000    0.013514    0.040541    0.945946    
0.054054    0.000000    0.837838    0.108108    
0.027027    0.000000    0.067568    0.905405    
0.000000    0.945946    0.013514    0.040541    
0.959459    0.000000    0.027027    0.013514    
0.108108    0.851351    0.000000    0.040541    
0.851351    0.027027    0.013514    0.108108    
0.054054    0.135135    0.756757    0.054054    
0.040541    0.027027    0.000000    0.932432    
0.081081    0.054054    0.797297    0.067568    
0.040541    0.810811    0.094595    0.054054    
0.108108    0.000000    0.000000    0.891892    
0.094595    0.756757    0.135135    0.013514    
0.040541    0.824324    0.013514    0.121622    
0.851351    0.040541    0.054054    0.054054    
Consensus sequence: CCACTGTGVTGTCACAGTGCTCCA


************************************************************************ Best Matches for Motif ID 73 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Reverse Complement                      Reverse Complement                      Forward        4              21             0.039195       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB---
---CCACTGTGVTGTCACAGTGCTCCA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_primary               Reverse Complement                      Reverse Complement                      Forward        3              21             0.040027       

Species: Mus musculus

Original motif
0.641428    0.180211    0.044767    0.133594    
0.171696    0.262981    0.334148    0.231174    
0.129726    0.322735    0.243462    0.304077    
0.165713    0.175735    0.256108    0.402445    
0.146090    0.171890    0.412753    0.269266    
0.212837    0.439192    0.280990    0.066980    
0.251088    0.275516    0.374380    0.099015    
0.575438    0.079656    0.338201    0.006704    
0.005634    0.003422    0.972597    0.018348    
0.890447    0.077034    0.031851    0.000668    
0.007128    0.986862    0.000496    0.005515    
0.001445    0.991564    0.001925    0.005066    
0.738761    0.190157    0.026399    0.044684    
0.013384    0.983783    0.000896    0.001937    
0.068077    0.929549    0.000773    0.001602    
0.040830    0.933742    0.005283    0.020145    
0.730274    0.029225    0.145689    0.094812    
0.165032    0.572838    0.162001    0.100129    
0.383584    0.129942    0.429497    0.056977    
0.455959    0.071959    0.208204    0.263878    
0.134271    0.262985    0.222626    0.380117    
0.071193    0.346594    0.346081    0.236132    
0.445661    0.405278    0.053901    0.095160    
Consensus sequence: ABBBBVVRGACCACCCACRDBBM

Reverse complement motif
0.095160    0.405278    0.053901    0.445661    
0.071193    0.346081    0.346594    0.236132    
0.380117    0.262985    0.222626    0.134271    
0.263878    0.071959    0.208204    0.455959    
0.383584    0.429497    0.129942    0.056977    
0.165032    0.162001    0.572838    0.100129    
0.094812    0.029225    0.145689    0.730274    
0.040830    0.005283    0.933742    0.020145    
0.068077    0.000773    0.929549    0.001602    
0.013384    0.000896    0.983783    0.001937    
0.044684    0.190157    0.026399    0.738761    
0.001445    0.001925    0.991564    0.005066    
0.007128    0.000496    0.986862    0.005515    
0.000668    0.077034    0.031851    0.890447    
0.005634    0.972597    0.003422    0.018348    
0.006704    0.079656    0.338201    0.575438    
0.251088    0.374380    0.275516    0.099015    
0.212837    0.280990    0.439192    0.066980    
0.146090    0.412753    0.171890    0.269266    
0.402445    0.175735    0.256108    0.165713    
0.129726    0.243462    0.322735    0.304077    
0.171696    0.334148    0.262981    0.231174    
0.133594    0.180211    0.044767    0.641428    
Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Alignment:
YBVDMGTGGGTGGTCKVVBVBBT---
--CCACTGTGVTGTCACAGTGCTCCA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Reverse Complement                      Reverse Complement                      Backward       5              20             0.535486       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
----DBCDWHCTGGGTGGTCMDHBBAH
CCACTGTGVTGTCACAGTGCTCCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Reverse Complement                      Reverse Complement                      Backward       5              20             0.536069       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
----BTBVTCVTGGGTGGTCMVVDVBB
CCACTGTGVTGTCACAGTGCTCCA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Original Motif                          Reverse Complement                      Backward       4              20             0.539704       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
----HGDHVHKGACCACCCGGBGBGDB
TGGAGCACTGTGACAVCACAGTGG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Original Motif                          Reverse Complement                      Backward       7              18             1.538189       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
------DVTTVVCVYGGHGGYCHHDMYB
TGGAGCACTGTGACAVCACAGTGG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Original Motif                          Original Motif                          Backward       3              17             2.025337       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
-------DABWWTGACAGCTVVBD
TGGAGCACTGTGACAVCACAGTGG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00159        Six2                               Reverse Complement                      Original Motif                          Backward       6              17             2.025713       

Species: Mus musculus

Original motif
0.452545    0.099192    0.290852    0.157411    
0.587199    0.117373    0.086707    0.208721    
0.191837    0.044362    0.256539    0.507262    
0.299111    0.107464    0.518651    0.074774    
0.118226    0.040974    0.797168    0.043631    
0.010113    0.030311    0.923661    0.035916    
0.126925    0.002828    0.869144    0.001103    
0.001338    0.000719    0.046297    0.951646    
0.958864    0.001525    0.038365    0.001246    
0.003353    0.001741    0.001927    0.992979    
0.007665    0.981087    0.001717    0.009531    
0.903866    0.022768    0.054074    0.019292    
0.165996    0.505327    0.077238    0.251439    
0.252666    0.168847    0.288545    0.289942    
0.336830    0.080857    0.058862    0.523451    
0.234102    0.268721    0.215252    0.281925    
0.172036    0.083695    0.223889    0.520379    
Consensus sequence: DAKRGGGTATCACDWHT

Reverse complement motif
0.520379    0.083695    0.223889    0.172036    
0.281925    0.268721    0.215252    0.234102    
0.523451    0.080857    0.058862    0.336830    
0.289942    0.168847    0.288545    0.252666    
0.165996    0.077238    0.505327    0.251439    
0.019292    0.022768    0.054074    0.903866    
0.007665    0.001717    0.981087    0.009531    
0.992979    0.001741    0.001927    0.003353    
0.001246    0.001525    0.038365    0.958864    
0.951646    0.000719    0.046297    0.001338    
0.126925    0.869144    0.002828    0.001103    
0.010113    0.923661    0.030311    0.035916    
0.118226    0.797168    0.040974    0.043631    
0.299111    0.518651    0.107464    0.074774    
0.507262    0.044362    0.256539    0.191837    
0.208721    0.117373    0.086707    0.587199    
0.157411    0.099192    0.290852    0.452545    
Consensus sequence: AHWDGTGATACCCMRTD

Alignment:
-------AHWDGTGATACCCMRTD
CCACTGTGVTGTCACAGTGCTCCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00192        Six1                               Reverse Complement                      Original Motif                          Backward       6              17             2.028921       

Species: Mus musculus

Original motif
0.319306    0.130147    0.399309    0.151238    
0.482636    0.211172    0.085871    0.220321    
0.214292    0.085504    0.207353    0.492851    
0.392819    0.136859    0.403883    0.066438    
0.215886    0.049341    0.685932    0.048842    
0.039793    0.053756    0.870240    0.036211    
0.202525    0.005026    0.791396    0.001053    
0.001092    0.001021    0.052968    0.944919    
0.963185    0.001738    0.033596    0.001480    
0.002017    0.001886    0.002847    0.993250    
0.009914    0.974962    0.001987    0.013137    
0.909252    0.021586    0.037899    0.031263    
0.177851    0.274190    0.117998    0.429961    
0.228906    0.159459    0.303955    0.307681    
0.330938    0.158106    0.118706    0.392251    
0.160453    0.267920    0.280244    0.291383    
0.176707    0.068175    0.229538    0.525580    
Consensus sequence: DHDRGGGTATCAHDHBT

Reverse complement motif
0.525580    0.068175    0.229538    0.176707    
0.291383    0.267920    0.280244    0.160453    
0.392251    0.158106    0.118706    0.330938    
0.307681    0.159459    0.303955    0.228906    
0.429961    0.274190    0.117998    0.177851    
0.031263    0.021586    0.037899    0.909252    
0.009914    0.001987    0.974962    0.013137    
0.993250    0.001886    0.002847    0.002017    
0.001480    0.001738    0.033596    0.963185    
0.944919    0.001021    0.052968    0.001092    
0.202525    0.791396    0.005026    0.001053    
0.039793    0.870240    0.053756    0.036211    
0.215886    0.685932    0.049341    0.048842    
0.392819    0.403883    0.136859    0.066438    
0.492851    0.085504    0.207353    0.214292    
0.220321    0.211172    0.085871    0.482636    
0.319306    0.399309    0.130147    0.151238    
Consensus sequence: AVHDHTGATACCCMDHH

Alignment:
-------AVHDHTGATACCCMDHH
CCACTGTGVTGTCACAGTGCTCCA-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00076        Rfxdc2_secondary                   Reverse Complement                      Reverse Complement                      Forward        4              17             2.029199       

Species: Mus musculus

Original motif
0.120124    0.369052    0.280026    0.230798    
0.153013    0.175278    0.321983    0.349726    
0.426573    0.206846    0.272112    0.094469    
0.067213    0.665712    0.165815    0.101259    
0.213424    0.152912    0.229260    0.404404    
0.042427    0.193675    0.034144    0.729754    
0.359927    0.038767    0.588911    0.012395    
0.015079    0.017884    0.948607    0.018430    
0.699438    0.007004    0.014579    0.278979    
0.017282    0.022228    0.369181    0.591308    
0.948823    0.011471    0.018805    0.020901    
0.016175    0.947649    0.007710    0.028466    
0.114584    0.334989    0.511562    0.038865    
0.219114    0.247229    0.396478    0.137179    
0.308087    0.178171    0.248356    0.265386    
0.479300    0.125168    0.134837    0.260696    
0.323493    0.230502    0.108189    0.337815    
Consensus sequence: BBVCDTRGAKACSVDDH

Reverse complement motif
0.337815    0.230502    0.108189    0.323493    
0.260696    0.125168    0.134837    0.479300    
0.265386    0.178171    0.248356    0.308087    
0.219114    0.396478    0.247229    0.137179    
0.114584    0.511562    0.334989    0.038865    
0.016175    0.007710    0.947649    0.028466    
0.020901    0.011471    0.018805    0.948823    
0.591308    0.022228    0.369181    0.017282    
0.278979    0.007004    0.014579    0.699438    
0.015079    0.948607    0.017884    0.018430    
0.359927    0.588911    0.038767    0.012395    
0.729754    0.193675    0.034144    0.042427    
0.404404    0.152912    0.229260    0.213424    
0.067213    0.165815    0.665712    0.101259    
0.094469    0.206846    0.272112    0.426573    
0.349726    0.175278    0.321983    0.153013    
0.120124    0.280026    0.369052    0.230798    
Consensus sequence: HDDVSGTRTCMADGBVB

Alignment:
HDDVSGTRTCMADGBVB-------
---CCACTGTGVTGTCACAGTGCTCCA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 74		Motif name: ssCCCCGCSssk

Original motif
0.000000    0.444444    0.370370    0.185185    
0.111111    0.407407    0.333333    0.148148    
0.000000    0.888889    0.037037    0.074074    
0.000000    0.888889    0.074074    0.037037    
0.000000    0.777778    0.222222    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.037037    0.888889    0.000000    0.074074    
0.000000    0.703704    0.296296    0.000000    
0.000000    0.518519    0.370370    0.111111    
0.111111    0.407407    0.259259    0.222222    
0.074074    0.222222    0.407407    0.296296    
Consensus sequence: SBCCCCGCCSBB

Reserve complement motif
0.074074    0.407407    0.222222    0.296296    
0.111111    0.259259    0.407407    0.222222    
0.000000    0.370370    0.518519    0.111111    
0.000000    0.296296    0.703704    0.000000    
0.037037    0.000000    0.888889    0.074074    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.222222    0.777778    0.000000    
0.000000    0.074074    0.888889    0.037037    
0.000000    0.037037    0.888889    0.074074    
0.111111    0.333333    0.407407    0.148148    
0.000000    0.370370    0.444444    0.185185    
Consensus sequence: BBSGGCGGGGBS


************************************************************************ Best Matches for Motif ID 74 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00000        Smad3_secondary                    Original Motif                          Original Motif                          Forward        3              12             0.011485       

Species: Mus musculus

Original motif
0.150668    0.131779    0.245665    0.471887    
0.316817    0.287314    0.150829    0.245040    
0.256473    0.409066    0.109700    0.224761    
0.210646    0.220222    0.345010    0.224122    
0.166679    0.508939    0.081676    0.242705    
0.049351    0.759380    0.088489    0.102780    
0.047598    0.785546    0.121957    0.044898    
0.004606    0.944933    0.034696    0.015764    
0.040252    0.050652    0.890382    0.018713    
0.003038    0.913699    0.022449    0.060814    
0.028672    0.941477    0.012276    0.017575    
0.635243    0.139731    0.110495    0.114531    
0.240016    0.385948    0.182848    0.191188    
0.210430    0.274127    0.085171    0.430272    
0.088118    0.454598    0.208989    0.248295    
0.181269    0.265028    0.149023    0.404680    
0.101070    0.252682    0.368542    0.277706    
Consensus sequence: DHHBCCCCGCCAHHBHB

Reverse complement motif
0.101070    0.368542    0.252682    0.277706    
0.404680    0.265028    0.149023    0.181269    
0.088118    0.208989    0.454598    0.248295    
0.430272    0.274127    0.085171    0.210430    
0.240016    0.182848    0.385948    0.191188    
0.114531    0.139731    0.110495    0.635243    
0.028672    0.012276    0.941477    0.017575    
0.003038    0.022449    0.913699    0.060814    
0.040252    0.890382    0.050652    0.018713    
0.004606    0.034696    0.944933    0.015764    
0.047598    0.121957    0.785546    0.044898    
0.049351    0.088489    0.759380    0.102780    
0.166679    0.081676    0.508939    0.242705    
0.210646    0.345010    0.220222    0.224122    
0.256473    0.109700    0.409066    0.224761    
0.245040    0.287314    0.150829    0.316817    
0.471887    0.131779    0.245665    0.150668    
Consensus sequence: BHBHDTGGCGGGGBDHD

Alignment:
DHHBCCCCGCCAHHBHB
--SBCCCCGCCSBB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00093        Klf7_primary                       Original Motif                          Original Motif                          Forward        3              12             0.016526       

Species: Mus musculus

Original motif
0.204514    0.198353    0.171218    0.425915    
0.167188    0.296785    0.246082    0.289946    
0.267330    0.148001    0.398674    0.185994    
0.549386    0.060167    0.337100    0.053347    
0.050746    0.900013    0.022169    0.027073    
0.037905    0.920332    0.008360    0.033403    
0.410356    0.566702    0.016267    0.006675    
0.009526    0.982354    0.001060    0.007060    
0.204292    0.001084    0.748567    0.046056    
0.003955    0.988490    0.002821    0.004735    
0.004264    0.988826    0.004311    0.002598    
0.002758    0.929549    0.001244    0.066448    
0.260332    0.421683    0.024720    0.293265    
0.184798    0.247697    0.085237    0.482268    
0.347537    0.197344    0.139961    0.315159    
0.255281    0.166620    0.242297    0.335802    
Consensus sequence: HBDRCCMCGCCCHHHD

Reverse complement motif
0.335802    0.166620    0.242297    0.255281    
0.315159    0.197344    0.139961    0.347537    
0.482268    0.247697    0.085237    0.184798    
0.260332    0.024720    0.421683    0.293265    
0.002758    0.001244    0.929549    0.066448    
0.004264    0.004311    0.988826    0.002598    
0.003955    0.002821    0.988490    0.004735    
0.204292    0.748567    0.001084    0.046056    
0.009526    0.001060    0.982354    0.007060    
0.410356    0.016267    0.566702    0.006675    
0.037905    0.008360    0.920332    0.033403    
0.050746    0.022169    0.900013    0.027073    
0.053347    0.060167    0.337100    0.549386    
0.267330    0.398674    0.148001    0.185994    
0.167188    0.246082    0.296785    0.289946    
0.425915    0.198353    0.171218    0.204514    
Consensus sequence: DHHDGGGCGRGGKHBH

Alignment:
HBDRCCMCGCCCHHHD
--SBCCCCGCCSBB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00022        Zfp740_primary                     Original Motif                          Original Motif                          Backward       3              12             0.027614       

Species: Mus musculus

Original motif
0.136946    0.396508    0.135309    0.331236    
0.185528    0.417538    0.215409    0.181525    
0.171276    0.341901    0.172832    0.313991    
0.145641    0.590572    0.146376    0.117412    
0.138035    0.660416    0.114016    0.087533    
0.222728    0.750532    0.007528    0.019212    
0.024633    0.963314    0.001894    0.010159    
0.009557    0.979956    0.000642    0.009844    
0.010416    0.977424    0.000541    0.011619    
0.026401    0.956740    0.001544    0.015314    
0.195502    0.755959    0.011060    0.037480    
0.491291    0.364785    0.025613    0.118311    
0.305153    0.398160    0.071680    0.225008    
0.253497    0.232647    0.213246    0.300610    
0.156964    0.297876    0.144683    0.400477    
0.179549    0.292514    0.319462    0.208475    
Consensus sequence: HVBCCCCCCCCMHHHB

Reverse complement motif
0.179549    0.319462    0.292514    0.208475    
0.400477    0.297876    0.144683    0.156964    
0.300610    0.232647    0.213246    0.253497    
0.305153    0.071680    0.398160    0.225008    
0.118311    0.364785    0.025613    0.491291    
0.195502    0.011060    0.755959    0.037480    
0.026401    0.001544    0.956740    0.015314    
0.010416    0.000541    0.977424    0.011619    
0.009557    0.000642    0.979956    0.009844    
0.024633    0.001894    0.963314    0.010159    
0.222728    0.007528    0.750532    0.019212    
0.138035    0.114016    0.660416    0.087533    
0.145641    0.146376    0.590572    0.117412    
0.171276    0.172832    0.341901    0.313991    
0.185528    0.215409    0.417538    0.181525    
0.136946    0.135309    0.396508    0.331236    
Consensus sequence: BHHDYGGGGGGGGBVD

Alignment:
HVBCCCCCCCCMHHHB
--SBCCCCGCCSBB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00003        E2F3_primary                       Original Motif                          Reverse Complement                      Forward        2              12             0.032858       

Species: Mus musculus

Original motif
0.358868    0.212371    0.263565    0.165196    
0.303014    0.253580    0.111217    0.332189    
0.420933    0.110957    0.210958    0.257152    
0.769724    0.062662    0.032155    0.135459    
0.311973    0.051319    0.408669    0.228039    
0.097916    0.141153    0.719697    0.041234    
0.009980    0.014044    0.971955    0.004021    
0.014425    0.974798    0.008373    0.002404    
0.000891    0.013228    0.983966    0.001915    
0.000827    0.938560    0.059548    0.001065    
0.007071    0.102005    0.872378    0.018546    
0.020099    0.897653    0.014151    0.068097    
0.114080    0.346724    0.409037    0.130159    
0.331439    0.279041    0.085030    0.304491    
0.319846    0.136792    0.043641    0.499722    
Consensus sequence: VHDADGGCGCGCSHW

Reverse complement motif
0.499722    0.136792    0.043641    0.319846    
0.304491    0.279041    0.085030    0.331439    
0.114080    0.409037    0.346724    0.130159    
0.020099    0.014151    0.897653    0.068097    
0.007071    0.872378    0.102005    0.018546    
0.000827    0.059548    0.938560    0.001065    
0.000891    0.983966    0.013228    0.001915    
0.014425    0.008373    0.974798    0.002404    
0.009980    0.971955    0.014044    0.004021    
0.097916    0.719697    0.141153    0.041234    
0.311973    0.408669    0.051319    0.228039    
0.135459    0.062662    0.032155    0.769724    
0.257152    0.110957    0.210958    0.420933    
0.332189    0.253580    0.111217    0.303014    
0.165196    0.212371    0.263565    0.358868    
Consensus sequence: WHSGCGCGCCHTDHB

Alignment:
WHSGCGCGCCHTDHB
-SBCCCCGCCSBB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00033        Zfp410_secondary                   Original Motif                          Original Motif                          Forward        2              12             0.033673       

Species: Mus musculus

Original motif
0.162979    0.284781    0.237433    0.314807    
0.182449    0.447584    0.069464    0.300502    
0.298973    0.261014    0.213211    0.226802    
0.136039    0.433062    0.144274    0.286625    
0.180084    0.395933    0.158565    0.265418    
0.069354    0.748510    0.068898    0.113238    
0.060485    0.717828    0.075333    0.146354    
0.023280    0.071762    0.645500    0.259457    
0.166896    0.749762    0.062730    0.020612    
0.050401    0.775248    0.089072    0.085279    
0.103847    0.767557    0.068804    0.059791    
0.064815    0.748318    0.114588    0.072280    
0.340921    0.071942    0.242981    0.344157    
0.301967    0.263512    0.165927    0.268594    
0.479800    0.222955    0.118441    0.178803    
0.229469    0.283621    0.143099    0.343811    
0.261733    0.180191    0.169905    0.388170    
Consensus sequence: BHHBHCCGCCCCDHHHH

Reverse complement motif
0.388170    0.180191    0.169905    0.261733    
0.343811    0.283621    0.143099    0.229469    
0.178803    0.222955    0.118441    0.479800    
0.268594    0.263512    0.165927    0.301967    
0.344157    0.071942    0.242981    0.340921    
0.064815    0.114588    0.748318    0.072280    
0.103847    0.068804    0.767557    0.059791    
0.050401    0.089072    0.775248    0.085279    
0.166896    0.062730    0.749762    0.020612    
0.023280    0.645500    0.071762    0.259457    
0.060485    0.075333    0.717828    0.146354    
0.069354    0.068898    0.748510    0.113238    
0.180084    0.158565    0.395933    0.265418    
0.136039    0.144274    0.433062    0.286625    
0.226802    0.261014    0.213211    0.298973    
0.182449    0.069464    0.447584    0.300502    
0.314807    0.284781    0.237433    0.162979    
Consensus sequence: HHHHDGGGGCGGDBHDV

Alignment:
BHHBHCCGCCCCDHHHH
-SBCCCCGCCSBB----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00001        E2F2_primary                       Original Motif                          Reverse Complement                      Forward        2              12             0.034574       

Species: Mus musculus

Original motif
0.305970    0.214348    0.269312    0.210370    
0.279551    0.218276    0.140576    0.361597    
0.391304    0.162239    0.193916    0.252541    
0.701667    0.102206    0.041580    0.154547    
0.427655    0.068368    0.324706    0.179271    
0.144368    0.191048    0.609772    0.054812    
0.014295    0.020613    0.958397    0.006695    
0.019783    0.962982    0.013403    0.003831    
0.001189    0.023882    0.973231    0.001697    
0.001343    0.919840    0.077728    0.001089    
0.011293    0.097945    0.865194    0.025568    
0.039106    0.864604    0.025189    0.071100    
0.147663    0.328105    0.407118    0.117115    
0.462769    0.203531    0.107986    0.225714    
0.293396    0.229650    0.082819    0.394135    
Consensus sequence: VHDARGGCGCGCVHH

Reverse complement motif
0.394135    0.229650    0.082819    0.293396    
0.225714    0.203531    0.107986    0.462769    
0.147663    0.407118    0.328105    0.117115    
0.039106    0.025189    0.864604    0.071100    
0.011293    0.865194    0.097945    0.025568    
0.001343    0.077728    0.919840    0.001089    
0.001189    0.973231    0.023882    0.001697    
0.019783    0.013403    0.962982    0.003831    
0.014295    0.958397    0.020613    0.006695    
0.144368    0.609772    0.191048    0.054812    
0.179271    0.068368    0.324706    0.427655    
0.154547    0.102206    0.041580    0.701667    
0.252541    0.162239    0.193916    0.391304    
0.361597    0.218276    0.140576    0.279551    
0.210370    0.214348    0.269312    0.305970    
Consensus sequence: HHVGCGCGCCKTDHB

Alignment:
HHVGCGCGCCKTDHB
-SBCCCCGCCSBB--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00099        Ascl2_secondary                    Reverse Complement                      Reverse Complement                      Backward       3              12             0.034747       

Species: Mus musculus

Original motif
0.114462    0.345602    0.289353    0.250583    
0.192593    0.250844    0.116250    0.440313    
0.338838    0.304929    0.195843    0.160390    
0.312051    0.115094    0.162465    0.410390    
0.143975    0.600492    0.123348    0.132185    
0.078751    0.715072    0.135182    0.070995    
0.146191    0.685571    0.069799    0.098439    
0.137287    0.646078    0.126428    0.090207    
0.335099    0.092260    0.371510    0.201131    
0.033090    0.631176    0.074278    0.261456    
0.117516    0.619336    0.100946    0.162202    
0.114769    0.627362    0.089839    0.168031    
0.195787    0.252057    0.220803    0.331353    
0.415355    0.120731    0.281372    0.182542    
0.111178    0.217079    0.245769    0.425974    
0.191517    0.296952    0.153370    0.358162    
Consensus sequence: BHVDCCCCDCCCBDBH

Reverse complement motif
0.358162    0.296952    0.153370    0.191517    
0.425974    0.217079    0.245769    0.111178    
0.182542    0.120731    0.281372    0.415355    
0.331353    0.252057    0.220803    0.195787    
0.114769    0.089839    0.627362    0.168031    
0.117516    0.100946    0.619336    0.162202    
0.033090    0.074278    0.631176    0.261456    
0.335099    0.371510    0.092260    0.201131    
0.137287    0.126428    0.646078    0.090207    
0.146191    0.069799    0.685571    0.098439    
0.078751    0.135182    0.715072    0.070995    
0.143975    0.123348    0.600492    0.132185    
0.410390    0.115094    0.162465    0.312051    
0.160390    0.304929    0.195843    0.338838    
0.440313    0.250844    0.116250    0.192593    
0.114462    0.289353    0.345602    0.250583    
Consensus sequence: HVDVGGGHGGGGDBHB

Alignment:
HVDVGGGHGGGGDBHB
--BBSGGCGGGGBS--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00043        Bcl6b_secondary                    Reverse Complement                      Reverse Complement                      Forward        3              12             0.035812       

Species: Mus musculus

Original motif
0.316572    0.278382    0.152556    0.252490    
0.167141    0.257034    0.259894    0.315931    
0.175523    0.325956    0.259996    0.238525    
0.165052    0.385677    0.239449    0.209822    
0.069489    0.782718    0.072454    0.075339    
0.049943    0.800636    0.031988    0.117433    
0.223382    0.060306    0.552691    0.163621    
0.072944    0.818252    0.034406    0.074398    
0.070535    0.845127    0.062712    0.021626    
0.031035    0.859354    0.055424    0.054187    
0.063668    0.798503    0.067274    0.070554    
0.348488    0.030697    0.197179    0.423636    
0.307220    0.256470    0.181009    0.255301    
0.460933    0.285057    0.090258    0.163752    
0.315798    0.228431    0.171135    0.284637    
0.374527    0.268328    0.198810    0.158335    
Consensus sequence: HBBBCCGCCCCWHHHV

Reverse complement motif
0.158335    0.268328    0.198810    0.374527    
0.284637    0.228431    0.171135    0.315798    
0.163752    0.285057    0.090258    0.460933    
0.255301    0.256470    0.181009    0.307220    
0.423636    0.030697    0.197179    0.348488    
0.063668    0.067274    0.798503    0.070554    
0.031035    0.055424    0.859354    0.054187    
0.070535    0.062712    0.845127    0.021626    
0.072944    0.034406    0.818252    0.074398    
0.223382    0.552691    0.060306    0.163621    
0.049943    0.031988    0.800636    0.117433    
0.069489    0.072454    0.782718    0.075339    
0.165052    0.239449    0.385677    0.209822    
0.175523    0.259996    0.325956    0.238525    
0.315931    0.257034    0.259894    0.167141    
0.252490    0.278382    0.152556    0.316572    
Consensus sequence: BHHHWGGGGCGGBBVH

Alignment:
BHHHWGGGGCGGBBVH
--BBSGGCGGGGBS--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Original Motif                          Forward        9              12             0.036535       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
--------SBCCCCGCCSBB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Reverse Complement                      Reverse Complement                      Backward       6              12             0.038973       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
HDWHMHGACGCGCGTRBVVBHW
-----BBSGGCGGGGBS-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 75		Motif name: wwCCAmAGTCmt

Original motif
0.454545    0.045455    0.227273    0.272727    
0.363636    0.136364    0.136364    0.363636    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.954545    0.045455    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.409091    0.590909    0.000000    0.000000    
0.909091    0.045455    0.045455    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.045455    0.000000    0.000000    0.954545    
0.045455    0.909091    0.000000    0.045455    
0.272727    0.318182    0.181818    0.227273    
0.181818    0.227273    0.227273    0.363636    
Consensus sequence: DDCCAMAGTCHB

Reserve complement motif
0.363636    0.227273    0.227273    0.181818    
0.272727    0.181818    0.318182    0.227273    
0.045455    0.000000    0.909091    0.045455    
0.954545    0.000000    0.000000    0.045455    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.045455    0.045455    0.909091    
0.409091    0.000000    0.590909    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.045455    0.954545    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.363636    0.136364    0.136364    0.363636    
0.272727    0.045455    0.227273    0.454545    
Consensus sequence: VDGACTRTGGDD


************************************************************************ Best Matches for Motif ID 75 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00079        Esrra_primary                      Original Motif                          Original Motif                          Backward       5              12             0.009273       

Species: Mus musculus

Original motif
0.212524    0.177958    0.293723    0.315796    
0.420838    0.283140    0.144938    0.151084    
0.198119    0.196347    0.260353    0.345181    
0.117752    0.282184    0.137207    0.462857    
0.070125    0.781439    0.138093    0.010344    
0.965989    0.000956    0.023828    0.009227    
0.977263    0.003066    0.019255    0.000416    
0.007404    0.000267    0.938934    0.053395    
0.007147    0.000287    0.983377    0.009190    
0.039608    0.000730    0.040682    0.918981    
0.000685    0.905345    0.021930    0.072040    
0.800961    0.001126    0.195791    0.002121    
0.245039    0.241263    0.038084    0.475614    
0.265397    0.238316    0.304963    0.191325    
0.203742    0.286208    0.231002    0.279048    
0.194132    0.188854    0.346693    0.270322    
0.310711    0.263840    0.184317    0.241132    
Consensus sequence: DHDBCAAGGTCAHVBDH

Reverse complement motif
0.241132    0.263840    0.184317    0.310711    
0.194132    0.346693    0.188854    0.270322    
0.203742    0.231002    0.286208    0.279048    
0.265397    0.304963    0.238316    0.191325    
0.475614    0.241263    0.038084    0.245039    
0.002121    0.001126    0.195791    0.800961    
0.000685    0.021930    0.905345    0.072040    
0.918981    0.000730    0.040682    0.039608    
0.007147    0.983377    0.000287    0.009190    
0.007404    0.938934    0.000267    0.053395    
0.000416    0.003066    0.019255    0.977263    
0.009227    0.000956    0.023828    0.965989    
0.070125    0.138093    0.781439    0.010344    
0.462857    0.282184    0.137207    0.117752    
0.345181    0.196347    0.260353    0.198119    
0.151084    0.283140    0.144938    0.420838    
0.315796    0.177958    0.293723    0.212524    
Consensus sequence: HHBVHTGACCTTGVDHD

Alignment:
DHDBCAAGGTCAHVBDH
-DDCCAMAGTCHB----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Original Motif                          Original Motif                          Forward        1              12             0.015755       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
BBHHAAAGTCCAMTHH
DDCCAMAGTCHB----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00023        Sox30_primary                      Reverse Complement                      Original Motif                          Forward        3              12             0.021894       

Species: Mus musculus

Original motif
0.372432    0.102933    0.322145    0.202491    
0.328072    0.182071    0.157347    0.332510    
0.289417    0.084511    0.292873    0.333198    
0.157571    0.227851    0.441662    0.172917    
0.716832    0.049010    0.201411    0.032747    
0.957368    0.003162    0.004402    0.035068    
0.003907    0.862678    0.009407    0.124008    
0.977231    0.007658    0.004263    0.010847    
0.976481    0.004510    0.015225    0.003784    
0.067568    0.004353    0.005071    0.923008    
0.158205    0.108442    0.467023    0.266330    
0.334549    0.091557    0.510241    0.063654    
0.456431    0.182602    0.150234    0.210732    
0.387485    0.241062    0.151504    0.219950    
0.188387    0.269857    0.176514    0.365242    
0.175680    0.243984    0.165833    0.414502    
Consensus sequence: DHDBAACAATDRHHHH

Reverse complement motif
0.414502    0.243984    0.165833    0.175680    
0.365242    0.269857    0.176514    0.188387    
0.219950    0.241062    0.151504    0.387485    
0.210732    0.182602    0.150234    0.456431    
0.334549    0.510241    0.091557    0.063654    
0.158205    0.467023    0.108442    0.266330    
0.923008    0.004353    0.005071    0.067568    
0.003784    0.004510    0.015225    0.976481    
0.010847    0.007658    0.004263    0.977231    
0.003907    0.009407    0.862678    0.124008    
0.035068    0.003162    0.004402    0.957368    
0.032747    0.049010    0.201411    0.716832    
0.157571    0.441662    0.227851    0.172917    
0.333198    0.084511    0.292873    0.289417    
0.332510    0.182071    0.157347    0.328072    
0.202491    0.102933    0.322145    0.372432    
Consensus sequence: HHHHMHATTGTTBDHD

Alignment:
DHDBAACAATDRHHHH
--VDGACTRTGGDD--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00028        Tcfap2e_primary                    Original Motif                          Reverse Complement                      Backward       2              12             0.023236       

Species: Mus musculus

Original motif
0.369517    0.172742    0.163174    0.294567    
0.260541    0.211816    0.194359    0.333284    
0.292862    0.281323    0.073013    0.352801    
0.011777    0.272676    0.697188    0.018359    
0.005160    0.983588    0.005917    0.005335    
0.002256    0.960488    0.005733    0.031524    
0.003735    0.283214    0.123762    0.589290    
0.024383    0.379981    0.542999    0.052638    
0.589290    0.123762    0.283214    0.003735    
0.031524    0.005733    0.960488    0.002256    
0.005335    0.005917    0.983588    0.005160    
0.018359    0.697188    0.272676    0.011777    
0.328286    0.093173    0.334133    0.244408    
0.563777    0.145250    0.140240    0.150733    
0.263206    0.222321    0.242153    0.272320    
Consensus sequence: HHHGCCTSAGGCDAD

Reverse complement motif
0.272320    0.222321    0.242153    0.263206    
0.150733    0.145250    0.140240    0.563777    
0.328286    0.334133    0.093173    0.244408    
0.018359    0.272676    0.697188    0.011777    
0.005335    0.983588    0.005917    0.005160    
0.031524    0.960488    0.005733    0.002256    
0.003735    0.123762    0.283214    0.589290    
0.024383    0.542999    0.379981    0.052638    
0.589290    0.283214    0.123762    0.003735    
0.002256    0.005733    0.960488    0.031524    
0.005160    0.005917    0.983588    0.005335    
0.011777    0.697188    0.272676    0.018359    
0.352801    0.281323    0.073013    0.292862    
0.333284    0.211816    0.194359    0.260541    
0.294567    0.172742    0.163174    0.369517    
Consensus sequence: DTHGCCTSAGGCHHH

Alignment:
DTHGCCTSAGGCHHH
--DDCCAMAGTCHB-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Reverse Complement                      Original Motif                          Backward       6              12             0.023587       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
HHBDHDDAACAATDRHHHHHBW
-----VDGACTRTGGDD-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00095        Zfp691_secondary                   Original Motif                          Reverse Complement                      Backward       4              12             0.024090       

Species: Mus musculus

Original motif
0.236868    0.155338    0.295091    0.312703    
0.522782    0.133021    0.177386    0.166812    
0.192915    0.374870    0.221406    0.210809    
0.146546    0.199196    0.418035    0.236223    
0.454326    0.095049    0.151770    0.298855    
0.027956    0.023096    0.878335    0.070614    
0.916030    0.020358    0.039894    0.023717    
0.010595    0.938036    0.039415    0.011954    
0.007271    0.014948    0.007990    0.969792    
0.014291    0.964878    0.011126    0.009705    
0.154586    0.759294    0.050151    0.035969    
0.051021    0.268239    0.053410    0.627330    
0.158293    0.386843    0.113152    0.341713    
0.281766    0.184139    0.187916    0.346179    
0.292444    0.267259    0.241323    0.198974    
0.425732    0.262331    0.149076    0.162861    
0.205385    0.384164    0.267912    0.142538    
Consensus sequence: DABBWGACTCCTHDVHV

Reverse complement motif
0.205385    0.267912    0.384164    0.142538    
0.162861    0.262331    0.149076    0.425732    
0.198974    0.267259    0.241323    0.292444    
0.346179    0.184139    0.187916    0.281766    
0.158293    0.113152    0.386843    0.341713    
0.627330    0.268239    0.053410    0.051021    
0.154586    0.050151    0.759294    0.035969    
0.014291    0.011126    0.964878    0.009705    
0.969792    0.014948    0.007990    0.007271    
0.010595    0.039415    0.938036    0.011954    
0.023717    0.020358    0.039894    0.916030    
0.027956    0.878335    0.023096    0.070614    
0.298855    0.095049    0.151770    0.454326    
0.146546    0.418035    0.199196    0.236223    
0.192915    0.221406    0.374870    0.210809    
0.166812    0.133021    0.177386    0.522782    
0.312703    0.155338    0.295091    0.236868    
Consensus sequence: VHBDDAGGAGTCWBBTD

Alignment:
VHBDDAGGAGTCWBBTD
--DDCCAMAGTCHB---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00004        Sox14_secondary                    Reverse Complement                      Original Motif                          Backward       2              12             0.025783       

Species: Mus musculus

Original motif
0.191264    0.345487    0.212142    0.251106    
0.105033    0.130838    0.338939    0.425191    
0.126539    0.333031    0.233364    0.307066    
0.641901    0.114039    0.195933    0.048127    
0.153349    0.532437    0.272427    0.041786    
0.934680    0.009395    0.019668    0.036257    
0.013611    0.927298    0.037729    0.021361    
0.964293    0.018416    0.006724    0.010568    
0.962181    0.018004    0.014592    0.005223    
0.229593    0.016301    0.007632    0.746474    
0.268456    0.030092    0.519349    0.182102    
0.201484    0.107350    0.588833    0.102334    
0.253726    0.259057    0.242924    0.244293    
0.168663    0.203061    0.347898    0.280378    
0.175853    0.339716    0.301724    0.182707    
Consensus sequence: BKBASACAATRGHBB

Reverse complement motif
0.175853    0.301724    0.339716    0.182707    
0.168663    0.347898    0.203061    0.280378    
0.253726    0.242924    0.259057    0.244293    
0.201484    0.588833    0.107350    0.102334    
0.268456    0.519349    0.030092    0.182102    
0.746474    0.016301    0.007632    0.229593    
0.005223    0.018004    0.014592    0.962181    
0.010568    0.018416    0.006724    0.964293    
0.013611    0.037729    0.927298    0.021361    
0.036257    0.009395    0.019668    0.934680    
0.153349    0.272427    0.532437    0.041786    
0.048127    0.114039    0.195933    0.641901    
0.126539    0.233364    0.333031    0.307066    
0.425191    0.130838    0.338939    0.105033    
0.191264    0.212142    0.345487    0.251106    
Consensus sequence: BBDCMATTGTSTBRB

Alignment:
BKBASACAATRGHBB
--VDGACTRTGGDD-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00081        Mybl1_primary                      Reverse Complement                      Original Motif                          Backward       3              12             0.026472       

Species: Mus musculus

Original motif
0.219490    0.243488    0.196239    0.340783    
0.242096    0.094435    0.234242    0.429226    
0.242319    0.155536    0.366023    0.236122    
0.369837    0.185801    0.219486    0.224876    
0.390568    0.211210    0.098244    0.299978    
0.782192    0.011783    0.158354    0.047671    
0.837985    0.006254    0.084522    0.071239    
0.027255    0.965067    0.001360    0.006318    
0.006706    0.831051    0.151462    0.010782    
0.003491    0.002829    0.991758    0.001921    
0.004195    0.009136    0.009776    0.976893    
0.009860    0.166761    0.002159    0.821220    
0.709623    0.006957    0.204415    0.079005    
0.316262    0.239384    0.140024    0.304330    
0.254660    0.237146    0.090326    0.417868    
0.289939    0.309708    0.068038    0.332316    
0.262670    0.214791    0.217375    0.305164    
Consensus sequence: HDDDHAACCGTTAHHHD

Reverse complement motif
0.305164    0.214791    0.217375    0.262670    
0.332316    0.309708    0.068038    0.289939    
0.417868    0.237146    0.090326    0.254660    
0.304330    0.239384    0.140024    0.316262    
0.079005    0.006957    0.204415    0.709623    
0.821220    0.166761    0.002159    0.009860    
0.976893    0.009136    0.009776    0.004195    
0.003491    0.991758    0.002829    0.001921    
0.006706    0.151462    0.831051    0.010782    
0.027255    0.001360    0.965067    0.006318    
0.071239    0.006254    0.084522    0.837985    
0.047671    0.011783    0.158354    0.782192    
0.299978    0.211210    0.098244    0.390568    
0.224876    0.185801    0.219486    0.369837    
0.242319    0.366023    0.155536    0.236122    
0.429226    0.094435    0.234242    0.242096    
0.340783    0.243488    0.196239    0.219490    
Consensus sequence: DHHHTAACGGTTHDHDH

Alignment:
HDDDHAACCGTTAHHHD
---VDGACTRTGGDD--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_primary                       Original Motif                          Reverse Complement                      Backward       2              12             0.027027       

Species: Mus musculus

Original motif
0.295210    0.230759    0.178832    0.295199    
0.286163    0.186772    0.186150    0.340915    
0.287577    0.235045    0.329453    0.147924    
0.263264    0.191325    0.081978    0.463433    
0.839420    0.118123    0.018788    0.023669    
0.005488    0.984397    0.000830    0.009284    
0.660134    0.001532    0.336574    0.001760    
0.003020    0.001773    0.993144    0.002063    
0.039664    0.001060    0.005054    0.954222    
0.980339    0.000636    0.016776    0.002249    
0.003849    0.001418    0.992166    0.002568    
0.000858    0.950172    0.007228    0.041743    
0.342840    0.230712    0.133570    0.292878    
0.342486    0.316980    0.167294    0.173240    
0.362426    0.178913    0.146709    0.311952    
0.266586    0.140406    0.435643    0.157365    
Consensus sequence: HHVHACRGTAGCHHHD

Reverse complement motif
0.266586    0.435643    0.140406    0.157365    
0.311952    0.178913    0.146709    0.362426    
0.173240    0.316980    0.167294    0.342486    
0.292878    0.230712    0.133570    0.342840    
0.000858    0.007228    0.950172    0.041743    
0.003849    0.992166    0.001418    0.002568    
0.002249    0.000636    0.016776    0.980339    
0.954222    0.001060    0.005054    0.039664    
0.003020    0.993144    0.001773    0.002063    
0.001760    0.001532    0.336574    0.660134    
0.005488    0.000830    0.984397    0.009284    
0.023669    0.118123    0.018788    0.839420    
0.463433    0.191325    0.081978    0.263264    
0.287577    0.329453    0.235045    0.147924    
0.340915    0.186772    0.186150    0.286163    
0.295199    0.230759    0.178832    0.295210    
Consensus sequence: HHHHGCTACKGTHVHH

Alignment:
HHHHGCTACKGTHVHH
---DDCCAMAGTCHB-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00000        Smad3_primary                      Reverse Complement                      Reverse Complement                      Forward        3              12             0.027066       

Species: Mus musculus

Original motif
0.282316    0.413385    0.114930    0.189369    
0.341654    0.135011    0.267943    0.255392    
0.399523    0.173081    0.168845    0.258551    
0.365086    0.196360    0.211856    0.226699    
0.243321    0.177839    0.224206    0.354635    
0.029873    0.808479    0.036309    0.125339    
0.004945    0.815465    0.040635    0.138955    
0.934557    0.058944    0.005027    0.001471    
0.005099    0.003998    0.986148    0.004755    
0.969304    0.020594    0.001929    0.008173    
0.008189    0.984816    0.004199    0.002795    
0.669579    0.012182    0.282153    0.036085    
0.130511    0.171241    0.334041    0.364207    
0.198982    0.289660    0.252392    0.258966    
0.423172    0.190978    0.164411    0.221440    
0.213519    0.287388    0.294414    0.204679    
0.371956    0.285061    0.150191    0.192792    
Consensus sequence: HDHDDCCAGACABBHVH

Reverse complement motif
0.192792    0.285061    0.150191    0.371956    
0.213519    0.294414    0.287388    0.204679    
0.221440    0.190978    0.164411    0.423172    
0.198982    0.252392    0.289660    0.258966    
0.364207    0.171241    0.334041    0.130511    
0.036085    0.012182    0.282153    0.669579    
0.008189    0.004199    0.984816    0.002795    
0.008173    0.020594    0.001929    0.969304    
0.005099    0.986148    0.003998    0.004755    
0.001471    0.058944    0.005027    0.934557    
0.004945    0.040635    0.815465    0.138955    
0.029873    0.036309    0.808479    0.125339    
0.354635    0.177839    0.224206    0.243321    
0.226699    0.196360    0.211856    0.365086    
0.258551    0.173081    0.168845    0.399523    
0.255392    0.135011    0.267943    0.341654    
0.282316    0.114930    0.413385    0.189369    
Consensus sequence: HVHBVTGTCTGGDDHDD

Alignment:
HVHBVTGTCTGGDDHDD
--VDGACTRTGGDD---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 76		Motif name: CAcCACAGTGGAGCAct

Original motif
0.078125    0.734375    0.046875    0.140625    
0.828125    0.046875    0.078125    0.046875    
0.203125    0.484375    0.156250    0.156250    
0.015625    0.984375    0.000000    0.000000    
0.968750    0.015625    0.015625    0.000000    
0.000000    0.906250    0.015625    0.078125    
0.859375    0.000000    0.000000    0.140625    
0.031250    0.000000    0.906250    0.062500    
0.000000    0.015625    0.000000    0.984375    
0.000000    0.000000    0.968750    0.031250    
0.046875    0.062500    0.812500    0.078125    
0.937500    0.015625    0.015625    0.031250    
0.015625    0.031250    0.921875    0.031250    
0.125000    0.796875    0.000000    0.078125    
0.875000    0.046875    0.046875    0.031250    
0.093750    0.656250    0.093750    0.156250    
0.156250    0.078125    0.109375    0.656250    
Consensus sequence: CAHCACAGTGGAGCACT

Reserve complement motif
0.656250    0.078125    0.109375    0.156250    
0.093750    0.093750    0.656250    0.156250    
0.031250    0.046875    0.046875    0.875000    
0.125000    0.000000    0.796875    0.078125    
0.015625    0.921875    0.031250    0.031250    
0.031250    0.015625    0.015625    0.937500    
0.046875    0.812500    0.062500    0.078125    
0.000000    0.968750    0.000000    0.031250    
0.984375    0.015625    0.000000    0.000000    
0.031250    0.906250    0.000000    0.062500    
0.140625    0.000000    0.000000    0.859375    
0.000000    0.015625    0.906250    0.078125    
0.000000    0.015625    0.015625    0.968750    
0.015625    0.000000    0.984375    0.000000    
0.203125    0.156250    0.484375    0.156250    
0.046875    0.046875    0.078125    0.828125    
0.078125    0.046875    0.734375    0.140625    
Consensus sequence: AGTGCTCCACTGTGDTG


************************************************************************ Best Matches for Motif ID 76 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Original Motif                          Reverse Complement                      Forward        2              17             0.038134       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
-CAHCACAGTGGAGCACT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_primary                      Reverse Complement                      Reverse Complement                      Backward       1              17             0.039321       

Species: Mus musculus

Original motif
0.401190    0.144405    0.268531    0.185874    
0.430224    0.168519    0.221247    0.180011    
0.172575    0.268499    0.274136    0.284789    
0.150971    0.297110    0.290868    0.261051    
0.133421    0.282842    0.434718    0.149019    
0.042798    0.941105    0.001785    0.014312    
0.890788    0.002551    0.103316    0.003345    
0.001887    0.951368    0.043722    0.003023    
0.011633    0.002218    0.002269    0.983880    
0.003597    0.003728    0.984819    0.007856    
0.002946    0.903520    0.072457    0.021077    
0.908487    0.057072    0.018256    0.016185    
0.076237    0.329864    0.228896    0.365003    
0.144926    0.162981    0.177370    0.514722    
0.124970    0.327876    0.295814    0.251341    
0.144592    0.313887    0.301912    0.239609    
0.108463    0.241747    0.350296    0.299494    
Consensus sequence: DDBBBCACTGCABTBBB

Reverse complement motif
0.108463    0.350296    0.241747    0.299494    
0.144592    0.301912    0.313887    0.239609    
0.124970    0.295814    0.327876    0.251341    
0.514722    0.162981    0.177370    0.144926    
0.365003    0.329864    0.228896    0.076237    
0.016185    0.057072    0.018256    0.908487    
0.002946    0.072457    0.903520    0.021077    
0.003597    0.984819    0.003728    0.007856    
0.983880    0.002218    0.002269    0.011633    
0.001887    0.043722    0.951368    0.003023    
0.003345    0.002551    0.103316    0.890788    
0.042798    0.001785    0.941105    0.014312    
0.133421    0.434718    0.282842    0.149019    
0.150971    0.290868    0.297110    0.261051    
0.284789    0.268499    0.274136    0.172575    
0.180011    0.168519    0.221247    0.430224    
0.185874    0.144405    0.268531    0.401190    
Consensus sequence: BBBAVTGCAGTGBBVDD

Alignment:
BBBAVTGCAGTGBBVDD
AGTGCTCCACTGTGDTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Original Motif                          Original Motif                          Backward       2              17             0.044117       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
HHBDHDDAACAATDRHHHHHBW
----CAHCACAGTGGAGCACT-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Reverse Complement                      Forward        4              17             0.047762       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
HGDHVHKGACCACCCGGBGBGDB
---AGTGCTCCACTGTGDTG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00231        Nkx2-2                             Original Motif                          Original Motif                          Backward       1              17             0.047942       

Species: Mus musculus

Original motif
0.299323    0.258429    0.141957    0.300291    
0.267631    0.143882    0.146933    0.441554    
0.482614    0.212022    0.233631    0.071733    
0.430836    0.073912    0.334439    0.160813    
0.124944    0.704331    0.166815    0.003910    
0.001941    0.876479    0.000828    0.120752    
0.920202    0.005985    0.000456    0.073357    
0.023544    0.974093    0.000859    0.001505    
0.005010    0.003098    0.001328    0.990564    
0.003250    0.198149    0.000490    0.798110    
0.134659    0.104976    0.753464    0.006901    
0.932490    0.000724    0.006140    0.060646    
0.504530    0.106203    0.360995    0.028271    
0.673257    0.074893    0.106536    0.145314    
0.356324    0.097610    0.230142    0.315924    
0.129483    0.188353    0.203623    0.478542    
0.289071    0.157675    0.231909    0.321345    
Consensus sequence: HDVRCCACTTGARADBD

Reverse complement motif
0.321345    0.157675    0.231909    0.289071    
0.478542    0.188353    0.203623    0.129483    
0.315924    0.097610    0.230142    0.356324    
0.145314    0.074893    0.106536    0.673257    
0.028271    0.106203    0.360995    0.504530    
0.060646    0.000724    0.006140    0.932490    
0.134659    0.753464    0.104976    0.006901    
0.798110    0.198149    0.000490    0.003250    
0.990564    0.003098    0.001328    0.005010    
0.023544    0.000859    0.974093    0.001505    
0.073357    0.005985    0.000456    0.920202    
0.001941    0.000828    0.876479    0.120752    
0.124944    0.166815    0.704331    0.003910    
0.160813    0.073912    0.334439    0.430836    
0.071733    0.212022    0.233631    0.482614    
0.441554    0.143882    0.146933    0.267631    
0.300291    0.258429    0.141957    0.299323    
Consensus sequence: DVDTKTCAAGTGGKBDH

Alignment:
HDVRCCACTTGARADBD
CAHCACAGTGGAGCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_primary                      Original Motif                          Reverse Complement                      Backward       6              17             0.048468       

Species: Mus musculus

Original motif
0.402634    0.249702    0.143705    0.203959    
0.709619    0.108953    0.130781    0.050647    
0.334232    0.077498    0.228818    0.359452    
0.131721    0.094794    0.234481    0.539005    
0.170102    0.237609    0.252464    0.339824    
0.244961    0.347304    0.228129    0.179606    
0.612141    0.132244    0.180110    0.075504    
0.472236    0.042388    0.234419    0.250957    
0.125213    0.007413    0.849788    0.017587    
0.702068    0.064216    0.141992    0.091724    
0.008657    0.038238    0.002959    0.950145    
0.007170    0.002244    0.986824    0.003763    
0.002862    0.979956    0.000711    0.016471    
0.971196    0.001954    0.011441    0.015409    
0.105575    0.031482    0.022836    0.840107    
0.031534    0.736742    0.032785    0.198939    
0.479153    0.347558    0.031799    0.141490    
0.056405    0.123140    0.023989    0.796466    
0.111194    0.195344    0.501360    0.192102    
0.376359    0.416820    0.072818    0.134004    
0.225111    0.249460    0.306563    0.218866    
0.405251    0.168478    0.108618    0.317653    
0.165386    0.191749    0.268604    0.374261    
Consensus sequence: HADTBVADGATGCATCMTGMVHB

Reverse complement motif
0.374261    0.191749    0.268604    0.165386    
0.317653    0.168478    0.108618    0.405251    
0.225111    0.306563    0.249460    0.218866    
0.376359    0.072818    0.416820    0.134004    
0.111194    0.501360    0.195344    0.192102    
0.796466    0.123140    0.023989    0.056405    
0.141490    0.347558    0.031799    0.479153    
0.031534    0.032785    0.736742    0.198939    
0.840107    0.031482    0.022836    0.105575    
0.015409    0.001954    0.011441    0.971196    
0.002862    0.000711    0.979956    0.016471    
0.007170    0.986824    0.002244    0.003763    
0.950145    0.038238    0.002959    0.008657    
0.091724    0.064216    0.141992    0.702068    
0.125213    0.849788    0.007413    0.017587    
0.250957    0.042388    0.234419    0.472236    
0.075504    0.132244    0.180110    0.612141    
0.244961    0.228129    0.347304    0.179606    
0.339824    0.237609    0.252464    0.170102    
0.539005    0.094794    0.234481    0.131721    
0.359452    0.077498    0.228818    0.334232    
0.050647    0.108953    0.130781    0.709619    
0.203959    0.249702    0.143705    0.402634    
Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Alignment:
VHVRCAYGATGCATCDTVVADTH
-CAHCACAGTGGAGCACT-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Reverse Complement                      Reverse Complement                      Forward        1              17             0.048744       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
AGTGCTCCACTGTGDTG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00046        Tcfe2a_primary                     Reverse Complement                      Reverse Complement                      Backward       1              17             0.048891       

Species: Mus musculus

Original motif
0.306209    0.232705    0.244475    0.216611    
0.165668    0.171480    0.222584    0.440269    
0.213008    0.429038    0.156385    0.201569    
0.283226    0.329518    0.160795    0.226461    
0.439156    0.283517    0.251270    0.026056    
0.014994    0.980987    0.000714    0.003304    
0.975741    0.020182    0.002909    0.001168    
0.000926    0.191353    0.801648    0.006073    
0.015382    0.090853    0.893043    0.000721    
0.001549    0.005912    0.001713    0.990826    
0.004000    0.000857    0.989667    0.005475    
0.016957    0.663726    0.148127    0.171190    
0.299047    0.091156    0.448649    0.161148    
0.354701    0.214677    0.236757    0.193865    
0.399446    0.174508    0.200036    0.226009    
0.303545    0.277435    0.200094    0.218926    
0.380242    0.148876    0.163367    0.307514    
Consensus sequence: VBHHVCAGGTGCDVDHD

Reverse complement motif
0.307514    0.148876    0.163367    0.380242    
0.218926    0.277435    0.200094    0.303545    
0.226009    0.174508    0.200036    0.399446    
0.193865    0.214677    0.236757    0.354701    
0.299047    0.448649    0.091156    0.161148    
0.016957    0.148127    0.663726    0.171190    
0.004000    0.989667    0.000857    0.005475    
0.990826    0.005912    0.001713    0.001549    
0.015382    0.893043    0.090853    0.000721    
0.000926    0.801648    0.191353    0.006073    
0.001168    0.020182    0.002909    0.975741    
0.014994    0.000714    0.980987    0.003304    
0.026056    0.283517    0.251270    0.439156    
0.283226    0.160795    0.329518    0.226461    
0.213008    0.156385    0.429038    0.201569    
0.440269    0.171480    0.222584    0.165668    
0.216611    0.232705    0.244475    0.306209    
Consensus sequence: DHDBHGCACCTGBDDVB

Alignment:
DHDBHGCACCTGBDDVB
AGTGCTCCACTGTGDTG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_primary               Original Motif                          Reverse Complement                      Backward       5              17             0.049135       

Species: Mus musculus

Original motif
0.180868    0.321661    0.134642    0.362829    
0.232215    0.134289    0.315356    0.318141    
0.065068    0.093681    0.569842    0.271408    
0.370822    0.229680    0.154738    0.244759    
0.323039    0.182873    0.173588    0.320500    
0.175039    0.266898    0.276080    0.281984    
0.412669    0.147730    0.146326    0.293275    
0.325953    0.028805    0.629596    0.015646    
0.003017    0.001766    0.979711    0.015507    
0.888973    0.040666    0.069420    0.000941    
0.017309    0.979155    0.000899    0.002637    
0.001732    0.988816    0.004856    0.004596    
0.889763    0.078125    0.010384    0.021729    
0.007566    0.987081    0.001421    0.003932    
0.027797    0.966593    0.000878    0.004731    
0.025816    0.867003    0.065749    0.041433    
0.220658    0.075256    0.582904    0.121182    
0.088946    0.283695    0.565345    0.062015    
0.328012    0.241332    0.305901    0.124755    
0.307302    0.137589    0.375928    0.179181    
0.298752    0.231470    0.315255    0.154524    
0.094565    0.142901    0.705696    0.056838    
Consensus sequence: HDGHHBHRGACCACCCGSVDVG

Reverse complement motif
0.094565    0.705696    0.142901    0.056838    
0.298752    0.315255    0.231470    0.154524    
0.307302    0.375928    0.137589    0.179181    
0.124755    0.241332    0.305901    0.328012    
0.088946    0.565345    0.283695    0.062015    
0.220658    0.582904    0.075256    0.121182    
0.025816    0.065749    0.867003    0.041433    
0.027797    0.000878    0.966593    0.004731    
0.007566    0.001421    0.987081    0.003932    
0.021729    0.078125    0.010384    0.889763    
0.001732    0.004856    0.988816    0.004596    
0.017309    0.000899    0.979155    0.002637    
0.000941    0.040666    0.069420    0.888973    
0.003017    0.979711    0.001766    0.015507    
0.325953    0.629596    0.028805    0.015646    
0.293275    0.147730    0.146326    0.412669    
0.281984    0.266898    0.276080    0.175039    
0.320500    0.182873    0.173588    0.323039    
0.244759    0.229680    0.154738    0.370822    
0.065068    0.569842    0.093681    0.271408    
0.318141    0.134289    0.315356    0.232215    
0.362829    0.321661    0.134642    0.180868    
Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
-CAHCACAGTGGAGCACT----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Original Motif                          Original Motif                          Forward        4              17             0.051502       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
---CAHCACAGTGGAGCACT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 77		Motif name: AgTGCTCCACTGTGgTGTCACAgT

Original motif
0.690141    0.126761    0.042254    0.140845    
0.169014    0.098592    0.676056    0.056338    
0.042254    0.028169    0.028169    0.901408    
0.056338    0.000000    0.774648    0.169014    
0.042254    0.887324    0.042254    0.028169    
0.000000    0.014085    0.000000    0.985915    
0.056338    0.830986    0.042254    0.070423    
0.028169    0.957746    0.014085    0.000000    
0.957746    0.000000    0.014085    0.028169    
0.084507    0.845070    0.014085    0.056338    
0.028169    0.014085    0.000000    0.957746    
0.140845    0.028169    0.802817    0.028169    
0.014085    0.014085    0.014085    0.957746    
0.014085    0.000000    0.929577    0.056338    
0.056338    0.154930    0.619718    0.169014    
0.014085    0.028169    0.000000    0.957746    
0.056338    0.014085    0.873239    0.056338    
0.014085    0.000000    0.000000    0.985915    
0.042254    0.929577    0.000000    0.028169    
0.957746    0.028169    0.000000    0.014085    
0.028169    0.845070    0.028169    0.098592    
0.873239    0.014085    0.042254    0.070423    
0.098592    0.154930    0.563380    0.183099    
0.070423    0.014085    0.112676    0.802817    
Consensus sequence: AGTGCTCCACTGTGGTGTCACAGT

Reserve complement motif
0.802817    0.014085    0.112676    0.070423    
0.098592    0.563380    0.154930    0.183099    
0.070423    0.014085    0.042254    0.873239    
0.028169    0.028169    0.845070    0.098592    
0.014085    0.028169    0.000000    0.957746    
0.042254    0.000000    0.929577    0.028169    
0.985915    0.000000    0.000000    0.014085    
0.056338    0.873239    0.014085    0.056338    
0.957746    0.028169    0.000000    0.014085    
0.056338    0.619718    0.154930    0.169014    
0.014085    0.929577    0.000000    0.056338    
0.957746    0.014085    0.014085    0.014085    
0.140845    0.802817    0.028169    0.028169    
0.957746    0.014085    0.000000    0.028169    
0.084507    0.014085    0.845070    0.056338    
0.028169    0.000000    0.014085    0.957746    
0.028169    0.014085    0.957746    0.000000    
0.056338    0.042254    0.830986    0.070423    
0.985915    0.014085    0.000000    0.000000    
0.042254    0.042254    0.887324    0.028169    
0.056338    0.774648    0.000000    0.169014    
0.901408    0.028169    0.028169    0.042254    
0.169014    0.676056    0.098592    0.056338    
0.140845    0.126761    0.042254    0.690141    
Consensus sequence: ACTGTGACACCACAGTGGAGCACT


************************************************************************ Best Matches for Motif ID 77 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Reverse Complement                      Original Motif                          Forward        1              23             0.050973       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BTBVTCVTGGGTGGTCMVVDVBB-
ACTGTGACACCACAGTGGAGCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Original Motif                          Reverse Complement                      Backward       3              21             1.048801       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
---DBCDWHCTGGGTGGTCMDHBBAH
AGTGCTCCACTGTGGTGTCACAGT--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_primary               Reverse Complement                      Reverse Complement                      Backward       4              21             1.050875       

Species: Mus musculus

Original motif
0.204923    0.208846    0.365383    0.220848    
0.294304    0.300143    0.167287    0.238266    
0.109711    0.619514    0.117379    0.153396    
0.178979    0.378580    0.230177    0.212264    
0.159594    0.542602    0.118178    0.179627    
0.125206    0.430074    0.151826    0.292894    
0.097692    0.709845    0.116956    0.075506    
0.148292    0.565912    0.037632    0.248164    
0.077951    0.034190    0.855503    0.032356    
0.001657    0.001061    0.971877    0.025405    
0.001926    0.001084    0.991712    0.005278    
0.033031    0.012001    0.057796    0.897171    
0.002723    0.002647    0.993348    0.001281    
0.003261    0.000963    0.987199    0.008577    
0.000611    0.090925    0.074857    0.833608    
0.015299    0.978878    0.004949    0.000874    
0.013368    0.600902    0.033485    0.352245    
0.231949    0.149575    0.118804    0.499672    
0.267580    0.186002    0.371242    0.175176    
0.264884    0.223483    0.110082    0.401551    
0.221365    0.170121    0.179559    0.428955    
0.112997    0.692930    0.139981    0.054092    
0.460305    0.207883    0.155111    0.176702    
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH

Reverse complement motif
0.176702    0.207883    0.155111    0.460305    
0.112997    0.139981    0.692930    0.054092    
0.428955    0.170121    0.179559    0.221365    
0.401551    0.223483    0.110082    0.264884    
0.267580    0.371242    0.186002    0.175176    
0.499672    0.149575    0.118804    0.231949    
0.013368    0.033485    0.600902    0.352245    
0.015299    0.004949    0.978878    0.000874    
0.833608    0.090925    0.074857    0.000611    
0.003261    0.987199    0.000963    0.008577    
0.002723    0.993348    0.002647    0.001281    
0.897171    0.012001    0.057796    0.033031    
0.001926    0.991712    0.001084    0.005278    
0.001657    0.971877    0.001061    0.025405    
0.077951    0.855503    0.034190    0.032356    
0.148292    0.037632    0.565912    0.248164    
0.097692    0.116956    0.709845    0.075506    
0.125206    0.151826    0.430074    0.292894    
0.159594    0.118178    0.542602    0.179627    
0.178979    0.230177    0.378580    0.212264    
0.109711    0.117379    0.619514    0.153396    
0.294304    0.167287    0.300143    0.238266    
0.204923    0.365383    0.208846    0.220848    
Consensus sequence: HGDHVHKGACCACCCGGBGBGDB

Alignment:
---HGDHVHKGACCACCCGGBGBGDB
ACTGTGACACCACAGTGGAGCACT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_primary               Reverse Complement                      Reverse Complement                      Forward        7              18             2.547481       

Species: Mus musculus

Original motif
0.472795    0.179227    0.091251    0.256726    
0.036521    0.159743    0.204840    0.598896    
0.164582    0.312805    0.221324    0.301289    
0.237069    0.249050    0.293048    0.220833    
0.401949    0.225181    0.229401    0.143469    
0.161422    0.494334    0.252207    0.092036    
0.252940    0.177721    0.369400    0.199939    
0.119630    0.024651    0.849920    0.005798    
0.000962    0.002398    0.990616    0.006023    
0.937852    0.027016    0.034535    0.000597    
0.008963    0.987756    0.000629    0.002652    
0.001584    0.992898    0.002349    0.003169    
0.956822    0.027342    0.002484    0.013352    
0.009873    0.987759    0.000988    0.001381    
0.016397    0.980856    0.000369    0.002378    
0.081761    0.758555    0.038572    0.121112    
0.371713    0.091838    0.448027    0.088423    
0.111617    0.121913    0.683885    0.082585    
0.334562    0.102916    0.436488    0.126034    
0.210362    0.101261    0.238339    0.450037    
0.169041    0.271583    0.320799    0.238576    
0.140316    0.049885    0.735236    0.074563    
Consensus sequence: HTBVVVDGGACCACCCRGRDBG

Reverse complement motif
0.140316    0.735236    0.049885    0.074563    
0.169041    0.320799    0.271583    0.238576    
0.450037    0.101261    0.238339    0.210362    
0.334562    0.436488    0.102916    0.126034    
0.111617    0.683885    0.121913    0.082585    
0.371713    0.448027    0.091838    0.088423    
0.081761    0.038572    0.758555    0.121112    
0.016397    0.000369    0.980856    0.002378    
0.009873    0.000988    0.987759    0.001381    
0.013352    0.027342    0.002484    0.956822    
0.001584    0.002349    0.992898    0.003169    
0.008963    0.000629    0.987756    0.002652    
0.000597    0.027016    0.034535    0.937852    
0.000962    0.990616    0.002398    0.006023    
0.119630    0.849920    0.024651    0.005798    
0.252940    0.369400    0.177721    0.199939    
0.161422    0.252207    0.494334    0.092036    
0.143469    0.225181    0.229401    0.401949    
0.237069    0.293048    0.249050    0.220833    
0.164582    0.221324    0.312805    0.301289    
0.598896    0.159743    0.204840    0.036521    
0.256726    0.179227    0.091251    0.472795    
Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH

Alignment:
CBDMCMGGGTGGTCCHVBVBAH------
------ACTGTGACACCACAGTGGAGCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_primary                       Original Motif                          Original Motif                          Backward       1              17             3.036695       

Species: Mus musculus

Original motif
0.420301    0.182299    0.161481    0.235919    
0.593201    0.055751    0.202477    0.148571    
0.653364    0.017008    0.054630    0.274998    
0.339176    0.102943    0.050258    0.507622    
0.171557    0.078698    0.267471    0.482273    
0.044703    0.033212    0.003920    0.918165    
0.010333    0.004451    0.972441    0.012775    
0.034026    0.949298    0.004788    0.011889    
0.016078    0.008878    0.004007    0.971037    
0.020331    0.004077    0.929676    0.045916    
0.975739    0.007450    0.005991    0.010819    
0.012733    0.887375    0.018700    0.081192    
0.259981    0.111885    0.243051    0.385083    
0.327677    0.149969    0.094895    0.427459    
0.541721    0.105923    0.242224    0.110132    
0.258689    0.068305    0.493226    0.179779    
0.306041    0.306854    0.168308    0.218798    
Consensus sequence: HAAWDTGCTGACDWARH

Reverse complement motif
0.306041    0.168308    0.306854    0.218798    
0.258689    0.493226    0.068305    0.179779    
0.110132    0.105923    0.242224    0.541721    
0.427459    0.149969    0.094895    0.327677    
0.385083    0.111885    0.243051    0.259981    
0.012733    0.018700    0.887375    0.081192    
0.010819    0.007450    0.005991    0.975739    
0.020331    0.929676    0.004077    0.045916    
0.971037    0.008878    0.004007    0.016078    
0.034026    0.004788    0.949298    0.011889    
0.010333    0.972441    0.004451    0.012775    
0.918165    0.033212    0.003920    0.044703    
0.482273    0.078698    0.267471    0.171557    
0.507622    0.102943    0.050258    0.339176    
0.274998    0.017008    0.054630    0.653364    
0.148571    0.055751    0.202477    0.593201    
0.235919    0.182299    0.161481    0.420301    
Consensus sequence: DMTWDGTCAGCADWTTH

Alignment:
-------HAAWDTGCTGACDWARH
AGTGCTCCACTGTGGTGTCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_secondary                     Original Motif                          Original Motif                          Backward       7              17             3.040280       

Species: Mus musculus

Original motif
0.313621    0.149049    0.200899    0.336432    
0.262644    0.147616    0.334882    0.254859    
0.175848    0.137857    0.292272    0.394023    
0.045910    0.364107    0.180535    0.409448    
0.093235    0.718630    0.093516    0.094619    
0.095552    0.724866    0.044589    0.134993    
0.058227    0.785149    0.029814    0.126810    
0.897368    0.023735    0.019064    0.059832    
0.043826    0.041750    0.020731    0.893692    
0.044268    0.013557    0.014689    0.927487    
0.102208    0.026005    0.709573    0.162214    
0.058404    0.046118    0.135257    0.760221    
0.303689    0.280676    0.320259    0.095375    
0.258633    0.262177    0.197029    0.282161    
0.564761    0.122466    0.194691    0.118082    
0.104738    0.358061    0.310533    0.226668    
0.267450    0.230099    0.197859    0.304593    
Consensus sequence: DDDYCCCATTGTVHABH

Reverse complement motif
0.304593    0.230099    0.197859    0.267450    
0.104738    0.310533    0.358061    0.226668    
0.118082    0.122466    0.194691    0.564761    
0.282161    0.262177    0.197029    0.258633    
0.303689    0.320259    0.280676    0.095375    
0.760221    0.046118    0.135257    0.058404    
0.102208    0.709573    0.026005    0.162214    
0.927487    0.013557    0.014689    0.044268    
0.893692    0.041750    0.020731    0.043826    
0.059832    0.023735    0.019064    0.897368    
0.058227    0.029814    0.785149    0.126810    
0.095552    0.044589    0.724866    0.134993    
0.093235    0.093516    0.718630    0.094619    
0.409448    0.364107    0.180535    0.045910    
0.394023    0.137857    0.292272    0.175848    
0.262644    0.334882    0.147616    0.254859    
0.336432    0.149049    0.200899    0.313621    
Consensus sequence: HBTHVACAATGGGMDHD

Alignment:
-------DDDYCCCATTGTVHABH
AGTGCTCCACTGTGGTGTCACAGT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_primary                      Original Motif                          Reverse Complement                      Forward        1              17             3.043475       

Species: Mus musculus

Original motif
0.401190    0.144405    0.268531    0.185874    
0.430224    0.168519    0.221247    0.180011    
0.172575    0.268499    0.274136    0.284789    
0.150971    0.297110    0.290868    0.261051    
0.133421    0.282842    0.434718    0.149019    
0.042798    0.941105    0.001785    0.014312    
0.890788    0.002551    0.103316    0.003345    
0.001887    0.951368    0.043722    0.003023    
0.011633    0.002218    0.002269    0.983880    
0.003597    0.003728    0.984819    0.007856    
0.002946    0.903520    0.072457    0.021077    
0.908487    0.057072    0.018256    0.016185    
0.076237    0.329864    0.228896    0.365003    
0.144926    0.162981    0.177370    0.514722    
0.124970    0.327876    0.295814    0.251341    
0.144592    0.313887    0.301912    0.239609    
0.108463    0.241747    0.350296    0.299494    
Consensus sequence: DDBBBCACTGCABTBBB

Reverse complement motif
0.108463    0.350296    0.241747    0.299494    
0.144592    0.301912    0.313887    0.239609    
0.124970    0.295814    0.327876    0.251341    
0.514722    0.162981    0.177370    0.144926    
0.365003    0.329864    0.228896    0.076237    
0.016185    0.057072    0.018256    0.908487    
0.002946    0.072457    0.903520    0.021077    
0.003597    0.984819    0.003728    0.007856    
0.983880    0.002218    0.002269    0.011633    
0.001887    0.043722    0.951368    0.003023    
0.003345    0.002551    0.103316    0.890788    
0.042798    0.001785    0.941105    0.014312    
0.133421    0.434718    0.282842    0.149019    
0.150971    0.290868    0.297110    0.261051    
0.284789    0.268499    0.274136    0.172575    
0.180011    0.168519    0.221247    0.430224    
0.185874    0.144405    0.268531    0.401190    
Consensus sequence: BBBAVTGCAGTGBBVDD

Alignment:
BBBAVTGCAGTGBBVDD-------
AGTGCTCCACTGTGGTGTCACAGT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Reverse Complement                      Reverse Complement                      Forward        4              17             3.046621       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD-------
---ACTGTGACACCACAGTGGAGCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00070        Gcm1_secondary                     Original Motif                          Reverse Complement                      Backward       7              17             3.046628       

Species: Mus musculus

Original motif
0.298360    0.124865    0.240783    0.335992    
0.184300    0.174617    0.373392    0.267691    
0.150632    0.435099    0.254062    0.160207    
0.212569    0.220347    0.370971    0.196113    
0.258171    0.316689    0.186896    0.238243    
0.872371    0.051703    0.070791    0.005135    
0.011560    0.017672    0.009746    0.961022    
0.888546    0.042964    0.061758    0.006732    
0.071365    0.009982    0.801505    0.117148    
0.010657    0.014961    0.949286    0.025096    
0.004496    0.009941    0.978381    0.007182    
0.005645    0.010294    0.972682    0.011378    
0.499895    0.152322    0.335875    0.011908    
0.109410    0.346384    0.380529    0.163677    
0.371764    0.096182    0.457999    0.074056    
0.450207    0.392208    0.065686    0.091898    
0.104224    0.228467    0.391473    0.275836    
Consensus sequence: DDBVHATAGGGGRBRMB

Reverse complement motif
0.104224    0.391473    0.228467    0.275836    
0.091898    0.392208    0.065686    0.450207    
0.371764    0.457999    0.096182    0.074056    
0.109410    0.380529    0.346384    0.163677    
0.011908    0.152322    0.335875    0.499895    
0.005645    0.972682    0.010294    0.011378    
0.004496    0.978381    0.009941    0.007182    
0.010657    0.949286    0.014961    0.025096    
0.071365    0.801505    0.009982    0.117148    
0.006732    0.042964    0.061758    0.888546    
0.961022    0.017672    0.009746    0.011560    
0.005135    0.051703    0.070791    0.872371    
0.258171    0.186896    0.316689    0.238243    
0.212569    0.370971    0.220347    0.196113    
0.150632    0.254062    0.435099    0.160207    
0.184300    0.373392    0.174617    0.267691    
0.335992    0.124865    0.240783    0.298360    
Consensus sequence: BYMBKCCCCTATDVBHD

Alignment:
-------DDBVHATAGGGGRBRMB
AGTGCTCCACTGTGGTGTCACAGT------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00148        Hdx                                Reverse Complement                      Original Motif                          Forward        1              17             3.049068       

Species: Mus musculus

Original motif
0.311640    0.203273    0.213311    0.271776    
0.341055    0.177799    0.257310    0.223836    
0.047573    0.089551    0.516163    0.346713    
0.195776    0.119326    0.352322    0.332576    
0.295379    0.306027    0.157574    0.241020    
0.213770    0.018770    0.724927    0.042533    
0.702123    0.228608    0.050137    0.019133    
0.826735    0.011735    0.061646    0.099884    
0.920071    0.005458    0.026253    0.048218    
0.018655    0.024240    0.028915    0.928190    
0.029929    0.896758    0.043300    0.030013    
0.864548    0.044943    0.013744    0.076766    
0.177175    0.216931    0.155519    0.450375    
0.228403    0.325164    0.203649    0.242785    
0.140135    0.298665    0.306153    0.255047    
0.338324    0.345500    0.057864    0.258313    
0.402538    0.228867    0.191777    0.176818    
Consensus sequence: DDKDHGAAATCAHHBHV

Reverse complement motif
0.176818    0.228867    0.191777    0.402538    
0.338324    0.057864    0.345500    0.258313    
0.140135    0.306153    0.298665    0.255047    
0.228403    0.203649    0.325164    0.242785    
0.450375    0.216931    0.155519    0.177175    
0.076766    0.044943    0.013744    0.864548    
0.029929    0.043300    0.896758    0.030013    
0.928190    0.024240    0.028915    0.018655    
0.048218    0.005458    0.026253    0.920071    
0.099884    0.011735    0.061646    0.826735    
0.019133    0.228608    0.050137    0.702123    
0.213770    0.724927    0.018770    0.042533    
0.295379    0.157574    0.306027    0.241020    
0.195776    0.352322    0.119326    0.332576    
0.047573    0.516163    0.089551    0.346713    
0.223836    0.177799    0.257310    0.341055    
0.271776    0.203273    0.213311    0.311640    
Consensus sequence: BDBDHTGATTTCDHYDD

Alignment:
DDKDHGAAATCAHHBHV-------
ACTGTGACACCACAGTGGAGCACT

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 78		Motif name: ssGCkTGCssk

Original motif
0.000000    0.500000    0.500000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.000000    0.500000    0.500000    
Consensus sequence: SSGCKTGCSSK

Reserve complement motif
0.000000    0.500000    0.000000    0.500000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.500000    0.500000    0.000000    
0.000000    0.500000    0.500000    0.000000    
Consensus sequence: YSSGCAYGCSS


************************************************************************ Best Matches for Motif ID 78 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00003        E2F3_primary                       Original Motif                          Original Motif                          Forward        5              11             0.004633       

Species: Mus musculus

Original motif
0.358868    0.212371    0.263565    0.165196    
0.303014    0.253580    0.111217    0.332189    
0.420933    0.110957    0.210958    0.257152    
0.769724    0.062662    0.032155    0.135459    
0.311973    0.051319    0.408669    0.228039    
0.097916    0.141153    0.719697    0.041234    
0.009980    0.014044    0.971955    0.004021    
0.014425    0.974798    0.008373    0.002404    
0.000891    0.013228    0.983966    0.001915    
0.000827    0.938560    0.059548    0.001065    
0.007071    0.102005    0.872378    0.018546    
0.020099    0.897653    0.014151    0.068097    
0.114080    0.346724    0.409037    0.130159    
0.331439    0.279041    0.085030    0.304491    
0.319846    0.136792    0.043641    0.499722    
Consensus sequence: VHDADGGCGCGCSHW

Reverse complement motif
0.499722    0.136792    0.043641    0.319846    
0.304491    0.279041    0.085030    0.331439    
0.114080    0.409037    0.346724    0.130159    
0.020099    0.014151    0.897653    0.068097    
0.007071    0.872378    0.102005    0.018546    
0.000827    0.059548    0.938560    0.001065    
0.000891    0.983966    0.013228    0.001915    
0.014425    0.008373    0.974798    0.002404    
0.009980    0.971955    0.014044    0.004021    
0.097916    0.719697    0.141153    0.041234    
0.311973    0.408669    0.051319    0.228039    
0.135459    0.062662    0.032155    0.769724    
0.257152    0.110957    0.210958    0.420933    
0.332189    0.253580    0.111217    0.303014    
0.165196    0.212371    0.263565    0.358868    
Consensus sequence: WHSGCGCGCCHTDHB

Alignment:
VHDADGGCGCGCSHW
----SSGCKTGCSSK

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00094        Zfp128_primary                     Original Motif                          Original Motif                          Backward       3              11             0.004821       

Species: Mus musculus

Original motif
0.194238    0.221898    0.264007    0.319857    
0.288200    0.308426    0.101010    0.302365    
0.285270    0.161574    0.132609    0.420548    
0.252760    0.126943    0.276148    0.344149    
0.220972    0.026248    0.366825    0.385955    
0.016419    0.006845    0.879910    0.096825    
0.185479    0.004691    0.730552    0.079278    
0.003651    0.988022    0.001666    0.006661    
0.067428    0.001276    0.928472    0.002824    
0.004284    0.002407    0.001922    0.991387    
0.990094    0.001414    0.004941    0.003550    
0.005452    0.989161    0.001844    0.003543    
0.149564    0.620887    0.192873    0.036677    
0.100768    0.559974    0.113427    0.225831    
0.177258    0.260019    0.181462    0.381261    
0.425243    0.223937    0.143942    0.206878    
0.451743    0.122626    0.218322    0.207309    
Consensus sequence: BHHDKGGCGTACCCBHD

Reverse complement motif
0.207309    0.122626    0.218322    0.451743    
0.206878    0.223937    0.143942    0.425243    
0.381261    0.260019    0.181462    0.177258    
0.100768    0.113427    0.559974    0.225831    
0.149564    0.192873    0.620887    0.036677    
0.005452    0.001844    0.989161    0.003543    
0.003550    0.001414    0.004941    0.990094    
0.991387    0.002407    0.001922    0.004284    
0.067428    0.928472    0.001276    0.002824    
0.003651    0.001666    0.988022    0.006661    
0.185479    0.730552    0.004691    0.079278    
0.016419    0.879910    0.006845    0.096825    
0.385955    0.026248    0.366825    0.220972    
0.344149    0.126943    0.276148    0.252760    
0.420548    0.161574    0.132609    0.285270    
0.288200    0.101010    0.308426    0.302365    
0.319857    0.221898    0.264007    0.194238    
Consensus sequence: DHVGGGTACGCCRDHDV

Alignment:
BHHDKGGCGTACCCBHD
----SSGCKTGCSSK--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_secondary                     Reverse Complement                      Reverse Complement                      Forward        6              11             0.005628       

Species: Mus musculus

Original motif
0.204898    0.149951    0.363373    0.281778    
0.112946    0.243700    0.437938    0.205417    
0.205232    0.182319    0.383143    0.229305    
0.242063    0.152491    0.296426    0.309020    
0.312922    0.028523    0.585026    0.073529    
0.006754    0.011178    0.005346    0.976723    
0.127589    0.005562    0.859436    0.007414    
0.010046    0.974694    0.007001    0.008259    
0.010262    0.974769    0.006069    0.008899    
0.015122    0.966101    0.007970    0.010807    
0.556511    0.167389    0.114635    0.161465    
0.586459    0.044786    0.073450    0.295305    
0.297710    0.194666    0.223655    0.283969    
0.303202    0.250809    0.206475    0.239514    
0.279338    0.160655    0.314457    0.245550    
0.266477    0.266890    0.299970    0.166662    
Consensus sequence: DBDDRTGCCCAWDHDV

Reverse complement motif
0.266477    0.299970    0.266890    0.166662    
0.279338    0.314457    0.160655    0.245550    
0.239514    0.250809    0.206475    0.303202    
0.283969    0.194666    0.223655    0.297710    
0.295305    0.044786    0.073450    0.586459    
0.161465    0.167389    0.114635    0.556511    
0.015122    0.007970    0.966101    0.010807    
0.010262    0.006069    0.974769    0.008899    
0.010046    0.007001    0.974694    0.008259    
0.127589    0.859436    0.005562    0.007414    
0.976723    0.011178    0.005346    0.006754    
0.312922    0.585026    0.028523    0.073529    
0.309020    0.152491    0.296426    0.242063    
0.205232    0.383143    0.182319    0.229305    
0.112946    0.437938    0.243700    0.205417    
0.204898    0.363373    0.149951    0.281778    
Consensus sequence: VHHDWTGGGCAMDHBH

Alignment:
VHHDWTGGGCAMDHBH
-----YSSGCAYGCSS

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00065        Zfp161_primary                     Original Motif                          Original Motif                          Forward        3              11             0.005960       

Species: Mus musculus

Original motif
0.142624    0.111294    0.283688    0.462394    
0.221170    0.081404    0.499138    0.198288    
0.290070    0.042114    0.604904    0.062912    
0.109755    0.559510    0.215454    0.115281    
0.111745    0.022727    0.850580    0.014948    
0.015907    0.942291    0.005561    0.036241    
0.088509    0.003729    0.902805    0.004957    
0.004957    0.902805    0.003729    0.088509    
0.036241    0.005561    0.942291    0.015907    
0.014948    0.850580    0.022727    0.111745    
0.325358    0.049424    0.519652    0.105566    
0.062912    0.604904    0.042114    0.290070    
0.214335    0.388248    0.125912    0.271505    
0.128984    0.372787    0.092390    0.405839    
0.269058    0.098422    0.484016    0.148504    
0.362176    0.156050    0.188642    0.293132    
Consensus sequence: DDGCGCGCGCRCHYRD

Reverse complement motif
0.293132    0.156050    0.188642    0.362176    
0.269058    0.484016    0.098422    0.148504    
0.405839    0.372787    0.092390    0.128984    
0.214335    0.125912    0.388248    0.271505    
0.062912    0.042114    0.604904    0.290070    
0.325358    0.519652    0.049424    0.105566    
0.014948    0.022727    0.850580    0.111745    
0.036241    0.942291    0.005561    0.015907    
0.004957    0.003729    0.902805    0.088509    
0.088509    0.902805    0.003729    0.004957    
0.015907    0.005561    0.942291    0.036241    
0.111745    0.850580    0.022727    0.014948    
0.109755    0.215454    0.559510    0.115281    
0.290070    0.604904    0.042114    0.062912    
0.221170    0.499138    0.081404    0.198288    
0.462394    0.111294    0.283688    0.142624    
Consensus sequence: DMMDGMGCGCGCGCHD

Alignment:
DDGCGCGCGCRCHYRD
--SSGCKTGCSSK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00001        E2F2_primary                       Original Motif                          Reverse Complement                      Forward        2              11             0.008217       

Species: Mus musculus

Original motif
0.305970    0.214348    0.269312    0.210370    
0.279551    0.218276    0.140576    0.361597    
0.391304    0.162239    0.193916    0.252541    
0.701667    0.102206    0.041580    0.154547    
0.427655    0.068368    0.324706    0.179271    
0.144368    0.191048    0.609772    0.054812    
0.014295    0.020613    0.958397    0.006695    
0.019783    0.962982    0.013403    0.003831    
0.001189    0.023882    0.973231    0.001697    
0.001343    0.919840    0.077728    0.001089    
0.011293    0.097945    0.865194    0.025568    
0.039106    0.864604    0.025189    0.071100    
0.147663    0.328105    0.407118    0.117115    
0.462769    0.203531    0.107986    0.225714    
0.293396    0.229650    0.082819    0.394135    
Consensus sequence: VHDARGGCGCGCVHH

Reverse complement motif
0.394135    0.229650    0.082819    0.293396    
0.225714    0.203531    0.107986    0.462769    
0.147663    0.407118    0.328105    0.117115    
0.039106    0.025189    0.864604    0.071100    
0.011293    0.865194    0.097945    0.025568    
0.001343    0.077728    0.919840    0.001089    
0.001189    0.973231    0.023882    0.001697    
0.019783    0.013403    0.962982    0.003831    
0.014295    0.958397    0.020613    0.006695    
0.144368    0.609772    0.191048    0.054812    
0.179271    0.068368    0.324706    0.427655    
0.154547    0.102206    0.041580    0.701667    
0.252541    0.162239    0.193916    0.391304    
0.361597    0.218276    0.140576    0.279551    
0.210370    0.214348    0.269312    0.305970    
Consensus sequence: HHVGCGCGCCKTDHB

Alignment:
HHVGCGCGCCKTDHB
-SSGCKTGCSSK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00060        Max_secondary                      Original Motif                          Reverse Complement                      Backward       1              11             0.010926       

Species: Mus musculus

Original motif
0.127991    0.202889    0.399822    0.269298    
0.156940    0.244015    0.182364    0.416681    
0.046494    0.050598    0.744311    0.158596    
0.196142    0.365183    0.183389    0.255286    
0.019306    0.946805    0.015210    0.018680    
0.924839    0.022113    0.027620    0.025428    
0.007478    0.672138    0.027789    0.292595    
0.046702    0.026044    0.906146    0.021107    
0.117335    0.610863    0.025132    0.246670    
0.044431    0.053581    0.722748    0.179240    
0.543713    0.149809    0.190030    0.116447    
0.241148    0.722386    0.022547    0.013919    
0.265412    0.113032    0.270602    0.350954    
0.226186    0.143504    0.332746    0.297564    
Consensus sequence: BBGHCACGCGACDD

Reverse complement motif
0.226186    0.332746    0.143504    0.297564    
0.350954    0.113032    0.270602    0.265412    
0.241148    0.022547    0.722386    0.013919    
0.116447    0.149809    0.190030    0.543713    
0.044431    0.722748    0.053581    0.179240    
0.117335    0.025132    0.610863    0.246670    
0.046702    0.906146    0.026044    0.021107    
0.007478    0.027789    0.672138    0.292595    
0.025428    0.022113    0.027620    0.924839    
0.019306    0.015210    0.946805    0.018680    
0.196142    0.183389    0.365183    0.255286    
0.046494    0.744311    0.050598    0.158596    
0.416681    0.244015    0.182364    0.156940    
0.127991    0.399822    0.202889    0.269298    
Consensus sequence: HDGTCGCGTGDCVB

Alignment:
BBGHCACGCGACDD
---SSGCKTGCSSK

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Reverse Complement                      Forward        9              11             0.015020       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
--------SSGCKTGCSSK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00002        Sp4_secondary                      Reverse Complement                      Reverse Complement                      Forward        2              11             0.016078       

Species: Mus musculus

Original motif
0.146334    0.312326    0.244281    0.297060    
0.493155    0.092609    0.162506    0.251729    
0.503593    0.059863    0.077561    0.358984    
0.763321    0.015264    0.213114    0.008301    
0.012415    0.025932    0.945502    0.016151    
0.006713    0.015221    0.950098    0.027968    
0.062415    0.834303    0.054500    0.048782    
0.011010    0.020677    0.928821    0.039493    
0.012785    0.024162    0.145822    0.817231    
0.133595    0.033962    0.787876    0.044567    
0.140697    0.180481    0.428253    0.250570    
0.036281    0.806412    0.033510    0.123797    
0.157910    0.408607    0.122427    0.311055    
0.292185    0.260017    0.197515    0.250283    
0.251107    0.124480    0.359447    0.264967    
Consensus sequence: BDWAGGCGTGBCHHD

Reverse complement motif
0.251107    0.359447    0.124480    0.264967    
0.250283    0.260017    0.197515    0.292185    
0.157910    0.122427    0.408607    0.311055    
0.036281    0.033510    0.806412    0.123797    
0.140697    0.428253    0.180481    0.250570    
0.133595    0.787876    0.033962    0.044567    
0.817231    0.024162    0.145822    0.012785    
0.011010    0.928821    0.020677    0.039493    
0.062415    0.054500    0.834303    0.048782    
0.006713    0.950098    0.015221    0.027968    
0.012415    0.945502    0.025932    0.016151    
0.008301    0.015264    0.213114    0.763321    
0.358984    0.059863    0.077561    0.503593    
0.251729    0.092609    0.162506    0.493155    
0.146334    0.244281    0.312326    0.297060    
Consensus sequence: HHDGBCACGCCTWDB

Alignment:
HHDGBCACGCCTWDB
-YSSGCAYGCSS---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Original Motif                          Reverse Complement                      Backward       3              11             0.017160       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
HDWHMHGACGCGCGTRBVVBHW
---------SSGCKTGCSSK--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Reverse Complement                      Reverse Complement                      Forward        7              11             0.017271       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
DCATDBTGHGCATKMTTBRSWR
------YSSGCAYGCSS-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 79		Motif name: cCGCGGrCACG

Original motif
0.000000    0.600000    0.200000    0.200000    
0.000000    0.800000    0.000000    0.200000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.200000    0.800000    0.000000    
0.600000    0.000000    0.400000    0.000000    
0.000000    0.800000    0.200000    0.000000    
0.800000    0.000000    0.200000    0.000000    
0.000000    0.800000    0.200000    0.000000    
0.200000    0.000000    0.800000    0.000000    
Consensus sequence: CCGCGGRCACG

Reserve complement motif
0.200000    0.800000    0.000000    0.000000    
0.000000    0.200000    0.800000    0.000000    
0.000000    0.000000    0.200000    0.800000    
0.000000    0.200000    0.800000    0.000000    
0.000000    0.000000    0.400000    0.600000    
0.000000    0.800000    0.200000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.800000    0.200000    
0.000000    0.200000    0.600000    0.200000    
Consensus sequence: CGTGKCCGCGG


************************************************************************ Best Matches for Motif ID 79 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00065        Zfp161_primary                     Original Motif                          Original Motif                          Backward       2              11             0.022021       

Species: Mus musculus

Original motif
0.142624    0.111294    0.283688    0.462394    
0.221170    0.081404    0.499138    0.198288    
0.290070    0.042114    0.604904    0.062912    
0.109755    0.559510    0.215454    0.115281    
0.111745    0.022727    0.850580    0.014948    
0.015907    0.942291    0.005561    0.036241    
0.088509    0.003729    0.902805    0.004957    
0.004957    0.902805    0.003729    0.088509    
0.036241    0.005561    0.942291    0.015907    
0.014948    0.850580    0.022727    0.111745    
0.325358    0.049424    0.519652    0.105566    
0.062912    0.604904    0.042114    0.290070    
0.214335    0.388248    0.125912    0.271505    
0.128984    0.372787    0.092390    0.405839    
0.269058    0.098422    0.484016    0.148504    
0.362176    0.156050    0.188642    0.293132    
Consensus sequence: DDGCGCGCGCRCHYRD

Reverse complement motif
0.293132    0.156050    0.188642    0.362176    
0.269058    0.484016    0.098422    0.148504    
0.405839    0.372787    0.092390    0.128984    
0.214335    0.125912    0.388248    0.271505    
0.062912    0.042114    0.604904    0.290070    
0.325358    0.519652    0.049424    0.105566    
0.014948    0.022727    0.850580    0.111745    
0.036241    0.942291    0.005561    0.015907    
0.004957    0.003729    0.902805    0.088509    
0.088509    0.902805    0.003729    0.004957    
0.015907    0.005561    0.942291    0.036241    
0.111745    0.850580    0.022727    0.014948    
0.109755    0.215454    0.559510    0.115281    
0.290070    0.604904    0.042114    0.062912    
0.221170    0.499138    0.081404    0.198288    
0.462394    0.111294    0.283688    0.142624    
Consensus sequence: DMMDGMGCGCGCGCHD

Alignment:
DDGCGCGCGCRCHYRD
----CCGCGGRCACG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Reverse Complement                      Reverse Complement                      Backward       9              11             0.024575       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
---CGTGKCCGCGG--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00042        Gm397_second                       Original Motif                          Original Motif                          Backward       4              11             0.027937       

Species: Mus musculus

Original motif
0.360404    0.193218    0.248888    0.197490    
0.286498    0.224597    0.426555    0.062349    
0.347032    0.440548    0.033161    0.179259    
0.337062    0.193658    0.385751    0.083529    
0.108793    0.005723    0.878300    0.007184    
0.015151    0.973406    0.009324    0.002118    
0.972117    0.003915    0.019783    0.004185    
0.010144    0.980912    0.003106    0.005839    
0.974864    0.007532    0.015914    0.001691    
0.012441    0.939195    0.029256    0.019108    
0.759620    0.106164    0.073819    0.060397    
0.157234    0.818234    0.007449    0.017083    
0.050076    0.063608    0.505171    0.381144    
0.131903    0.538163    0.124608    0.205325    
0.367623    0.286526    0.240931    0.104919    
0.357798    0.317606    0.097711    0.226885    
Consensus sequence: DVMVGCACACACKCVH

Reverse complement motif
0.226885    0.317606    0.097711    0.357798    
0.104919    0.286526    0.240931    0.367623    
0.131903    0.124608    0.538163    0.205325    
0.050076    0.505171    0.063608    0.381144    
0.157234    0.007449    0.818234    0.017083    
0.060397    0.106164    0.073819    0.759620    
0.012441    0.029256    0.939195    0.019108    
0.001691    0.007532    0.015914    0.974864    
0.010144    0.003106    0.980912    0.005839    
0.004185    0.003915    0.019783    0.972117    
0.015151    0.009324    0.973406    0.002118    
0.108793    0.878300    0.005723    0.007184    
0.337062    0.385751    0.193658    0.083529    
0.347032    0.033161    0.440548    0.179259    
0.286498    0.426555    0.224597    0.062349    
0.197490    0.193218    0.248888    0.360404    
Consensus sequence: HBGYGTGTGTGCVRVD

Alignment:
DVMVGCACACACKCVH
--CCGCGGRCACG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00007        Egr1_primary                       Original Motif                          Reverse Complement                      Forward        2              11             0.028538       

Species: Mus musculus

Original motif
0.211547    0.282708    0.203472    0.302273    
0.141988    0.722437    0.054854    0.080721    
0.032605    0.877172    0.012432    0.077792    
0.115126    0.070606    0.781290    0.032979    
0.003516    0.990021    0.002265    0.004198    
0.004715    0.982482    0.009897    0.002906    
0.001627    0.975937    0.001662    0.020774    
0.262352    0.731732    0.002730    0.003187    
0.005890    0.985756    0.002081    0.006273    
0.022893    0.090460    0.649322    0.237324    
0.023038    0.859949    0.037913    0.079101    
0.567633    0.057394    0.166792    0.208181    
0.176597    0.331265    0.125308    0.366830    
0.183049    0.183774    0.226793    0.406384    
Consensus sequence: HCCGCCCCCGCAHB

Reverse complement motif
0.406384    0.183774    0.226793    0.183049    
0.366830    0.331265    0.125308    0.176597    
0.208181    0.057394    0.166792    0.567633    
0.023038    0.037913    0.859949    0.079101    
0.022893    0.649322    0.090460    0.237324    
0.005890    0.002081    0.985756    0.006273    
0.262352    0.002730    0.731732    0.003187    
0.001627    0.001662    0.975937    0.020774    
0.004715    0.009897    0.982482    0.002906    
0.003516    0.002265    0.990021    0.004198    
0.115126    0.781290    0.070606    0.032979    
0.032605    0.012432    0.877172    0.077792    
0.141988    0.054854    0.722437    0.080721    
0.302273    0.282708    0.203472    0.211547    
Consensus sequence: VHTGCGGGGGCGGH

Alignment:
VHTGCGGGGGCGGH
-CCGCGGRCACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Original Motif                          Reverse Complement                      Backward       5              11             0.033538       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
--------CCGCGGRCACG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Reverse Complement                      Backward       6              11             0.034043       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
-------CCGCGGRCACG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00065        Zfp161_secondary                   Original Motif                          Original Motif                          Forward        2              11             0.034586       

Species: Mus musculus

Original motif
0.142646    0.070072    0.573757    0.213525    
0.142215    0.493588    0.067040    0.297157    
0.024280    0.923170    0.017567    0.034984    
0.015569    0.033118    0.937202    0.014111    
0.039447    0.888724    0.020074    0.051755    
0.016404    0.008157    0.963367    0.012073    
0.063620    0.860169    0.044753    0.031458    
0.787911    0.122939    0.024389    0.064761    
0.260517    0.103413    0.509585    0.126484    
0.203752    0.216621    0.251506    0.328121    
0.081075    0.040917    0.820854    0.057154    
0.096434    0.760303    0.054942    0.088321    
0.266016    0.190184    0.384583    0.159217    
0.223960    0.243225    0.228688    0.304127    
Consensus sequence: GYCGCGCARBGCVB

Reverse complement motif
0.304127    0.243225    0.228688    0.223960    
0.266016    0.384583    0.190184    0.159217    
0.096434    0.054942    0.760303    0.088321    
0.081075    0.820854    0.040917    0.057154    
0.328121    0.216621    0.251506    0.203752    
0.260517    0.509585    0.103413    0.126484    
0.064761    0.122939    0.024389    0.787911    
0.063620    0.044753    0.860169    0.031458    
0.016404    0.963367    0.008157    0.012073    
0.039447    0.020074    0.888724    0.051755    
0.015569    0.937202    0.033118    0.014111    
0.024280    0.017567    0.923170    0.034984    
0.142215    0.067040    0.493588    0.297157    
0.142646    0.573757    0.070072    0.213525    
Consensus sequence: VVGCVMTGCGCGKC

Alignment:
GYCGCGCARBGCVB
-CCGCGGRCACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00097        Mtf1_primary                       Original Motif                          Original Motif                          Backward       3              11             0.035043       

Species: Mus musculus

Original motif
0.220880    0.102939    0.418146    0.258035    
0.154303    0.210788    0.420671    0.214238    
0.229141    0.160788    0.412818    0.197253    
0.167193    0.404248    0.092489    0.336070    
0.025978    0.931335    0.023830    0.018857    
0.009150    0.002023    0.977342    0.011485    
0.044768    0.024113    0.039091    0.892028    
0.007577    0.008370    0.973767    0.010286    
0.005251    0.264996    0.004018    0.725735    
0.009165    0.002428    0.980566    0.007841    
0.021296    0.956027    0.008893    0.013784    
0.982532    0.003341    0.005773    0.008353    
0.500983    0.226027    0.143944    0.129045    
0.544466    0.285936    0.044719    0.124879    
0.321158    0.168428    0.261827    0.248587    
0.271460    0.263221    0.199083    0.266236    
Consensus sequence: DBDHCGTGTGCAAMDH

Reverse complement motif
0.266236    0.263221    0.199083    0.271460    
0.248587    0.168428    0.261827    0.321158    
0.124879    0.285936    0.044719    0.544466    
0.129045    0.226027    0.143944    0.500983    
0.008353    0.003341    0.005773    0.982532    
0.021296    0.008893    0.956027    0.013784    
0.009165    0.980566    0.002428    0.007841    
0.725735    0.264996    0.004018    0.005251    
0.007577    0.973767    0.008370    0.010286    
0.892028    0.024113    0.039091    0.044768    
0.009150    0.977342    0.002023    0.011485    
0.025978    0.023830    0.931335    0.018857    
0.167193    0.092489    0.404248    0.336070    
0.229141    0.412818    0.160788    0.197253    
0.154303    0.420671    0.210788    0.214238    
0.220880    0.418146    0.102939    0.258035    
Consensus sequence: HDYTTGCACACGDHBH

Alignment:
DBDHCGTGTGCAAMDH
---CCGCGGRCACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00076        Rfxdc2_secondary                   Reverse Complement                      Reverse Complement                      Backward       3              11             0.035993       

Species: Mus musculus

Original motif
0.120124    0.369052    0.280026    0.230798    
0.153013    0.175278    0.321983    0.349726    
0.426573    0.206846    0.272112    0.094469    
0.067213    0.665712    0.165815    0.101259    
0.213424    0.152912    0.229260    0.404404    
0.042427    0.193675    0.034144    0.729754    
0.359927    0.038767    0.588911    0.012395    
0.015079    0.017884    0.948607    0.018430    
0.699438    0.007004    0.014579    0.278979    
0.017282    0.022228    0.369181    0.591308    
0.948823    0.011471    0.018805    0.020901    
0.016175    0.947649    0.007710    0.028466    
0.114584    0.334989    0.511562    0.038865    
0.219114    0.247229    0.396478    0.137179    
0.308087    0.178171    0.248356    0.265386    
0.479300    0.125168    0.134837    0.260696    
0.323493    0.230502    0.108189    0.337815    
Consensus sequence: BBVCDTRGAKACSVDDH

Reverse complement motif
0.337815    0.230502    0.108189    0.323493    
0.260696    0.125168    0.134837    0.479300    
0.265386    0.178171    0.248356    0.308087    
0.219114    0.396478    0.247229    0.137179    
0.114584    0.511562    0.334989    0.038865    
0.016175    0.007710    0.947649    0.028466    
0.020901    0.011471    0.018805    0.948823    
0.591308    0.022228    0.369181    0.017282    
0.278979    0.007004    0.014579    0.699438    
0.015079    0.948607    0.017884    0.018430    
0.359927    0.588911    0.038767    0.012395    
0.729754    0.193675    0.034144    0.042427    
0.404404    0.152912    0.229260    0.213424    
0.067213    0.165815    0.665712    0.101259    
0.094469    0.206846    0.272112    0.426573    
0.349726    0.175278    0.321983    0.153013    
0.120124    0.280026    0.369052    0.230798    
Consensus sequence: HDDVSGTRTCMADGBVB

Alignment:
HDDVSGTRTCMADGBVB
----CGTGKCCGCGG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Original Motif                          Reverse Complement                      Backward       3              11             0.036196       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
HDWHMHGACGCGCGTRBVVBHW
---------CCGCGGRCACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 80		Motif name: taaacgatgcc

Original motif
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
Consensus sequence: TAAACGATGCC

Reserve complement motif
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
Consensus sequence: GGCATCGTTTA


************************************************************************ Best Matches for Motif ID 80 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00114        Homez                              Original Motif                          Reverse Complement                      Backward       3              11             0.020764       

Species: Mus musculus

Original motif
0.585235    0.056880    0.174898    0.182987    
0.344783    0.171238    0.144379    0.339600    
0.496888    0.112442    0.086669    0.304001    
0.457408    0.134777    0.032789    0.375026    
0.342717    0.420568    0.171418    0.065297    
0.872988    0.030946    0.004203    0.091862    
0.006581    0.013120    0.006495    0.973804    
0.036193    0.946961    0.004377    0.012469    
0.014767    0.005226    0.966106    0.013901    
0.208700    0.008264    0.021875    0.761161    
0.037957    0.018882    0.028895    0.914266    
0.157997    0.026546    0.021365    0.794092    
0.139814    0.136272    0.117987    0.605927    
0.125467    0.233302    0.183071    0.458161    
0.523941    0.191122    0.050126    0.234811    
0.374984    0.049392    0.291831    0.283793    
0.268235    0.165772    0.308515    0.257477    
Consensus sequence: AHWWMATCGTTTTBADD

Reverse complement motif
0.268235    0.308515    0.165772    0.257477    
0.283793    0.049392    0.291831    0.374984    
0.234811    0.191122    0.050126    0.523941    
0.458161    0.233302    0.183071    0.125467    
0.605927    0.136272    0.117987    0.139814    
0.794092    0.026546    0.021365    0.157997    
0.914266    0.018882    0.028895    0.037957    
0.761161    0.008264    0.021875    0.208700    
0.014767    0.966106    0.005226    0.013901    
0.036193    0.004377    0.946961    0.012469    
0.973804    0.013120    0.006495    0.006581    
0.091862    0.030946    0.004203    0.872988    
0.342717    0.171418    0.420568    0.065297    
0.375026    0.134777    0.032789    0.457408    
0.304001    0.112442    0.086669    0.496888    
0.339600    0.171238    0.144379    0.344783    
0.182987    0.056880    0.174898    0.585235    
Consensus sequence: HDTVAAAACGATRWWHT

Alignment:
HDTVAAAACGATRWWHT
----TAAACGATGCC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Reverse Complement                      Reverse Complement                      Forward        1              11             0.029432       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
VVVWTTGTTTAMATTWD
GGCATCGTTTA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_primary                      Original Motif                          Original Motif                          Backward       1              11             0.030091       

Species: Mus musculus

Original motif
0.273456    0.257473    0.208488    0.260583    
0.338566    0.133379    0.306363    0.221693    
0.475488    0.192852    0.156858    0.174803    
0.506619    0.132646    0.170373    0.190362    
0.349042    0.127275    0.325924    0.197759    
0.303850    0.013619    0.678034    0.004497    
0.014136    0.015691    0.003073    0.967100    
0.913373    0.082928    0.001910    0.001789    
0.956294    0.017745    0.000584    0.025378    
0.987796    0.001685    0.004159    0.006360    
0.002288    0.814764    0.001427    0.181521    
0.986707    0.002688    0.003346    0.007259    
0.787378    0.065481    0.057961    0.089180    
0.572982    0.089910    0.066184    0.270924    
0.224167    0.339979    0.258886    0.176968    
0.268414    0.272007    0.239541    0.220038    
0.241771    0.394748    0.174273    0.189208    
Consensus sequence: HDHADGTAAACAAAVVH

Reverse complement motif
0.241771    0.174273    0.394748    0.189208    
0.268414    0.239541    0.272007    0.220038    
0.224167    0.258886    0.339979    0.176968    
0.270924    0.089910    0.066184    0.572982    
0.089180    0.065481    0.057961    0.787378    
0.007259    0.002688    0.003346    0.986707    
0.002288    0.001427    0.814764    0.181521    
0.006360    0.001685    0.004159    0.987796    
0.025378    0.017745    0.000584    0.956294    
0.001789    0.082928    0.001910    0.913373    
0.967100    0.015691    0.003073    0.014136    
0.303850    0.678034    0.013619    0.004497    
0.197759    0.127275    0.325924    0.349042    
0.190362    0.132646    0.170373    0.506619    
0.174803    0.192852    0.156858    0.475488    
0.221693    0.133379    0.306363    0.338566    
0.260583    0.257473    0.208488    0.273456    
Consensus sequence: DVVTTTGTTTACDTHDH

Alignment:
HDHADGTAAACAAAVVH
------TAAACGATGCC

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00025        Foxk1_primary                      Reverse Complement                      Reverse Complement                      Backward       7              11             0.030661       

Species: Mus musculus

Original motif
0.338172    0.192194    0.207817    0.261817    
0.407924    0.117261    0.278236    0.196580    
0.595570    0.070480    0.119221    0.214729    
0.710845    0.038748    0.052600    0.197807    
0.124647    0.116138    0.178053    0.581162    
0.201602    0.005514    0.792110    0.000774    
0.024590    0.004193    0.001331    0.969886    
0.919465    0.077871    0.000760    0.001904    
0.972342    0.010395    0.000580    0.016683    
0.991045    0.001495    0.003585    0.003875    
0.001358    0.885197    0.000980    0.112465    
0.990318    0.001846    0.002968    0.004867    
0.804563    0.063147    0.023496    0.108795    
0.564824    0.087976    0.102865    0.244336    
0.269947    0.300278    0.285008    0.144767    
0.337905    0.220102    0.253694    0.188299    
0.153781    0.274135    0.318343    0.253741    
Consensus sequence: DDAATGTAAACAAAVVB

Reverse complement motif
0.153781    0.318343    0.274135    0.253741    
0.188299    0.220102    0.253694    0.337905    
0.269947    0.285008    0.300278    0.144767    
0.244336    0.087976    0.102865    0.564824    
0.108795    0.063147    0.023496    0.804563    
0.004867    0.001846    0.002968    0.990318    
0.001358    0.000980    0.885197    0.112465    
0.003875    0.001495    0.003585    0.991045    
0.016683    0.010395    0.000580    0.972342    
0.001904    0.077871    0.000760    0.919465    
0.969886    0.004193    0.001331    0.024590    
0.201602    0.792110    0.005514    0.000774    
0.581162    0.116138    0.178053    0.124647    
0.197807    0.038748    0.052600    0.710845    
0.214729    0.070480    0.119221    0.595570    
0.196580    0.117261    0.278236    0.407924    
0.261817    0.192194    0.207817    0.338172    
Consensus sequence: BBVTTTGTTTACATTDD

Alignment:
BBVTTTGTTTACATTDD
GGCATCGTTTA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_primary                      Reverse Complement                      Original Motif                          Forward        10             11             0.034248       

Species: Mus musculus

Original motif
0.397468    0.109792    0.196359    0.296381    
0.102928    0.480888    0.250249    0.165936    
0.141925    0.173586    0.377365    0.307124    
0.337385    0.368225    0.188518    0.105872    
0.354789    0.067393    0.345343    0.232475    
0.299392    0.109745    0.215552    0.375311    
0.242937    0.170264    0.189245    0.397554    
0.461680    0.013180    0.358677    0.166463    
0.067089    0.063048    0.008045    0.861819    
0.431756    0.128671    0.436022    0.003551    
0.006559    0.001814    0.988272    0.003355    
0.012929    0.983600    0.001468    0.002003    
0.018768    0.000766    0.976433    0.004033    
0.003776    0.005554    0.002991    0.987679    
0.002737    0.981589    0.009028    0.006646    
0.126509    0.273800    0.413161    0.186530    
0.100613    0.337225    0.212034    0.350128    
0.123741    0.284683    0.060914    0.530661    
0.204454    0.143533    0.100462    0.551551    
0.202290    0.482197    0.148368    0.167145    
0.191625    0.101330    0.607860    0.099185    
0.507546    0.086532    0.219554    0.186368    
Consensus sequence: DBBVDDDRTRGCGTCBBYTHGA

Reverse complement motif
0.186368    0.086532    0.219554    0.507546    
0.191625    0.607860    0.101330    0.099185    
0.202290    0.148368    0.482197    0.167145    
0.551551    0.143533    0.100462    0.204454    
0.530661    0.284683    0.060914    0.123741    
0.350128    0.337225    0.212034    0.100613    
0.126509    0.413161    0.273800    0.186530    
0.002737    0.009028    0.981589    0.006646    
0.987679    0.005554    0.002991    0.003776    
0.018768    0.976433    0.000766    0.004033    
0.012929    0.001468    0.983600    0.002003    
0.006559    0.988272    0.001814    0.003355    
0.431756    0.436022    0.128671    0.003551    
0.861819    0.063048    0.008045    0.067089    
0.166463    0.013180    0.358677    0.461680    
0.397554    0.170264    0.189245    0.242937    
0.375311    0.109745    0.215552    0.299392    
0.232475    0.067393    0.345343    0.354789    
0.337385    0.188518    0.368225    0.105872    
0.141925    0.377365    0.173586    0.307124    
0.102928    0.250249    0.480888    0.165936    
0.296381    0.109792    0.196359    0.397468    
Consensus sequence: TCDAMVBGACGCMAKDDDVBBD

Alignment:
DBBVDDDRTRGCGTCBBYTHGA
---------GGCATCGTTTA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00040        Irf5_primary                       Reverse Complement                      Reverse Complement                      Forward        3              11             0.034502       

Species: Mus musculus

Original motif
0.337548    0.193688    0.194039    0.274725    
0.279950    0.185928    0.199501    0.334621    
0.357304    0.160203    0.278768    0.203725    
0.499782    0.069569    0.166858    0.263790    
0.832538    0.022992    0.085287    0.059183    
0.144788    0.434769    0.040595    0.379848    
0.016035    0.943520    0.003379    0.037067    
0.014208    0.001713    0.982579    0.001500    
0.985572    0.004274    0.008722    0.001432    
0.894404    0.001440    0.007585    0.096571    
0.991307    0.002706    0.001993    0.003994    
0.011143    0.973529    0.013241    0.002087    
0.016468    0.532173    0.009621    0.441739    
0.462373    0.120288    0.237126    0.180213    
0.392685    0.223865    0.229697    0.153753    
Consensus sequence: DDDWAYCGAAACYDV

Reverse complement motif
0.153753    0.223865    0.229697    0.392685    
0.180213    0.120288    0.237126    0.462373    
0.016468    0.009621    0.532173    0.441739    
0.011143    0.013241    0.973529    0.002087    
0.003994    0.002706    0.001993    0.991307    
0.096571    0.001440    0.007585    0.894404    
0.001432    0.004274    0.008722    0.985572    
0.014208    0.982579    0.001713    0.001500    
0.016035    0.003379    0.943520    0.037067    
0.144788    0.040595    0.434769    0.379848    
0.059183    0.022992    0.085287    0.832538    
0.263790    0.069569    0.166858    0.499782    
0.203725    0.160203    0.278768    0.357304    
0.334621    0.185928    0.199501    0.279950    
0.274725    0.193688    0.194039    0.337548    
Consensus sequence: BDKGTTTCGKTWDDD

Alignment:
BDKGTTTCGKTWDDD
--GGCATCGTTTA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_primary                      Original Motif                          Reverse Complement                      Forward        3              11             0.035162       

Species: Mus musculus

Original motif
0.402634    0.249702    0.143705    0.203959    
0.709619    0.108953    0.130781    0.050647    
0.334232    0.077498    0.228818    0.359452    
0.131721    0.094794    0.234481    0.539005    
0.170102    0.237609    0.252464    0.339824    
0.244961    0.347304    0.228129    0.179606    
0.612141    0.132244    0.180110    0.075504    
0.472236    0.042388    0.234419    0.250957    
0.125213    0.007413    0.849788    0.017587    
0.702068    0.064216    0.141992    0.091724    
0.008657    0.038238    0.002959    0.950145    
0.007170    0.002244    0.986824    0.003763    
0.002862    0.979956    0.000711    0.016471    
0.971196    0.001954    0.011441    0.015409    
0.105575    0.031482    0.022836    0.840107    
0.031534    0.736742    0.032785    0.198939    
0.479153    0.347558    0.031799    0.141490    
0.056405    0.123140    0.023989    0.796466    
0.111194    0.195344    0.501360    0.192102    
0.376359    0.416820    0.072818    0.134004    
0.225111    0.249460    0.306563    0.218866    
0.405251    0.168478    0.108618    0.317653    
0.165386    0.191749    0.268604    0.374261    
Consensus sequence: HADTBVADGATGCATCMTGMVHB

Reverse complement motif
0.374261    0.191749    0.268604    0.165386    
0.317653    0.168478    0.108618    0.405251    
0.225111    0.306563    0.249460    0.218866    
0.376359    0.072818    0.416820    0.134004    
0.111194    0.501360    0.195344    0.192102    
0.796466    0.123140    0.023989    0.056405    
0.141490    0.347558    0.031799    0.479153    
0.031534    0.032785    0.736742    0.198939    
0.840107    0.031482    0.022836    0.105575    
0.015409    0.001954    0.011441    0.971196    
0.002862    0.000711    0.979956    0.016471    
0.007170    0.986824    0.002244    0.003763    
0.950145    0.038238    0.002959    0.008657    
0.091724    0.064216    0.141992    0.702068    
0.125213    0.849788    0.007413    0.017587    
0.250957    0.042388    0.234419    0.472236    
0.075504    0.132244    0.180110    0.612141    
0.244961    0.228129    0.347304    0.179606    
0.339824    0.237609    0.252464    0.170102    
0.539005    0.094794    0.234481    0.131721    
0.359452    0.077498    0.228818    0.334232    
0.050647    0.108953    0.130781    0.709619    
0.203959    0.249702    0.143705    0.402634    
Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Alignment:
VHVRCAYGATGCATCDTVVADTH
--TAAACGATGCC----------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00232        Dobox4                             Reverse Complement                      Reverse Complement                      Backward       2              11             0.037149       

Species: Mus musculus

Original motif
0.264302    0.211442    0.173361    0.350895    
0.413224    0.116602    0.116602    0.353572    
0.486656    0.190855    0.148590    0.173900    
0.503388    0.062728    0.128222    0.305661    
0.084825    0.015745    0.170672    0.728758    
0.856596    0.001753    0.045684    0.095967    
0.052745    0.001652    0.828687    0.116917    
0.985176    0.012392    0.001483    0.000949    
0.011350    0.100275    0.009362    0.879013    
0.764353    0.230179    0.001125    0.004343    
0.001443    0.952663    0.005512    0.040382    
0.008496    0.966240    0.002248    0.023017    
0.076925    0.757970    0.008043    0.157062    
0.097162    0.473715    0.088219    0.340904    
0.392557    0.078339    0.147795    0.381309    
0.055342    0.079606    0.149083    0.715969    
0.369817    0.112894    0.219338    0.297952    
Consensus sequence: HWHWTAGATACCCYWTD

Reverse complement motif
0.297952    0.112894    0.219338    0.369817    
0.715969    0.079606    0.149083    0.055342    
0.381309    0.078339    0.147795    0.392557    
0.097162    0.088219    0.473715    0.340904    
0.076925    0.008043    0.757970    0.157062    
0.008496    0.002248    0.966240    0.023017    
0.001443    0.005512    0.952663    0.040382    
0.004343    0.230179    0.001125    0.764353    
0.879013    0.100275    0.009362    0.011350    
0.000949    0.012392    0.001483    0.985176    
0.052745    0.828687    0.001652    0.116917    
0.095967    0.001753    0.045684    0.856596    
0.728758    0.015745    0.170672    0.084825    
0.305661    0.062728    0.128222    0.503388    
0.173900    0.190855    0.148590    0.486656    
0.353572    0.116602    0.116602    0.413224    
0.350895    0.211442    0.173361    0.264302    
Consensus sequence: DAWKGGGTATCTAWHWH

Alignment:
DAWKGGGTATCTAWHWH
-----GGCATCGTTTA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Reverse Complement                      Reverse Complement                      Backward       7              11             0.038480       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
BDVTTTKTTTACWTWHH
GGCATCGTTTA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00011        Irf6_primary                       Reverse Complement                      Reverse Complement                      Forward        6              11             0.038853       

Species: Mus musculus

Original motif
0.256714    0.363080    0.149403    0.230804    
0.312941    0.135162    0.190389    0.361507    
0.255033    0.128823    0.354898    0.261246    
0.667588    0.053933    0.205778    0.072701    
0.199950    0.339707    0.114445    0.345899    
0.029853    0.908514    0.006383    0.055250    
0.019621    0.002231    0.976266    0.001882    
0.983875    0.005320    0.008639    0.002166    
0.698671    0.002741    0.006725    0.291864    
0.990097    0.003609    0.003047    0.003247    
0.008905    0.975208    0.011495    0.004392    
0.022092    0.611448    0.018828    0.347632    
0.538109    0.125313    0.241515    0.095063    
0.456841    0.205124    0.177213    0.160822    
0.372926    0.189134    0.195747    0.242193    
0.217155    0.198027    0.300393    0.284425    
0.277630    0.187849    0.237049    0.297472    
Consensus sequence: HDDAHCGAAACYAVDDD

Reverse complement motif
0.297472    0.187849    0.237049    0.277630    
0.217155    0.300393    0.198027    0.284425    
0.242193    0.189134    0.195747    0.372926    
0.160822    0.205124    0.177213    0.456841    
0.095063    0.125313    0.241515    0.538109    
0.022092    0.018828    0.611448    0.347632    
0.008905    0.011495    0.975208    0.004392    
0.003247    0.003609    0.003047    0.990097    
0.291864    0.002741    0.006725    0.698671    
0.002166    0.005320    0.008639    0.983875    
0.019621    0.976266    0.002231    0.001882    
0.029853    0.006383    0.908514    0.055250    
0.345899    0.339707    0.114445    0.199950    
0.072701    0.053933    0.205778    0.667588    
0.255033    0.354898    0.128823    0.261246    
0.361507    0.135162    0.190389    0.312941    
0.256714    0.149403    0.363080    0.230804    
Consensus sequence: DHDBTKGTTTCGHTHDD

Alignment:
DHDBTKGTTTCGHTHDD
-----GGCATCGTTTA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 81		Motif name: ctatacggacg

Original motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: CTATACGGACG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: CGTCCGTATAG


************************************************************************ Best Matches for Motif ID 81 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00038        Spdef_primary                      Original Motif                          Reverse Complement                      Forward        3              11             0.027939       

Species: Mus musculus

Original motif
0.278139    0.269446    0.332078    0.120337    
0.191853    0.289569    0.165370    0.353209    
0.490437    0.027482    0.446684    0.035396    
0.092110    0.612324    0.134576    0.160990    
0.714688    0.007177    0.042951    0.235183    
0.017038    0.014836    0.006165    0.961960    
0.005411    0.986820    0.005716    0.002053    
0.005945    0.989961    0.001629    0.002464    
0.001282    0.006131    0.872195    0.120392    
0.002518    0.087009    0.857395    0.053078    
0.567474    0.070909    0.194015    0.167602    
0.178375    0.058626    0.041325    0.721673    
0.255647    0.250555    0.158035    0.335763    
0.184054    0.303968    0.126491    0.385487    
0.145245    0.233810    0.150000    0.470945    
0.093249    0.313763    0.190482    0.402505    
Consensus sequence: VHRCATCCGGATHHBB

Reverse complement motif
0.402505    0.313763    0.190482    0.093249    
0.470945    0.233810    0.150000    0.145245    
0.385487    0.303968    0.126491    0.184054    
0.335763    0.250555    0.158035    0.255647    
0.721673    0.058626    0.041325    0.178375    
0.167602    0.070909    0.194015    0.567474    
0.002518    0.857395    0.087009    0.053078    
0.001282    0.872195    0.006131    0.120392    
0.005945    0.001629    0.989961    0.002464    
0.005411    0.005716    0.986820    0.002053    
0.961960    0.014836    0.006165    0.017038    
0.235183    0.007177    0.042951    0.714688    
0.092110    0.134576    0.612324    0.160990    
0.035396    0.027482    0.446684    0.490437    
0.353209    0.289569    0.165370    0.191853    
0.278139    0.332078    0.269446    0.120337    
Consensus sequence: VVHHATCCGGATGKHV

Alignment:
VVHHATCCGGATGKHV
--CTATACGGACG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Original Motif                          Forward        1              11             0.030812       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VDWDARRGACGCGGWHGGAKHV
CTATACGGACG-----------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00413        Elf4                               Original Motif                          Reverse Complement                      Forward        1              11             0.032867       

Species: Mus musculus

Original motif
0.349744    0.139466    0.209326    0.301464    
0.080478    0.359482    0.307083    0.252956    
0.145756    0.213763    0.350557    0.289924    
0.317307    0.199359    0.096089    0.387245    
0.868576    0.009724    0.088821    0.032878    
0.001975    0.827004    0.014159    0.156862    
0.045494    0.000985    0.001907    0.951615    
0.011012    0.001203    0.002186    0.985599    
0.002743    0.992908    0.002226    0.002123    
0.001498    0.990840    0.001556    0.006106    
0.000951    0.005138    0.880591    0.113319    
0.003127    0.107962    0.867980    0.020930    
0.156602    0.055355    0.396563    0.391480    
0.421246    0.049379    0.084495    0.444880    
0.223879    0.068063    0.203809    0.504249    
0.144100    0.323579    0.131544    0.400777    
Consensus sequence: DBBHACTTCCGGKWTH

Reverse complement motif
0.400777    0.323579    0.131544    0.144100    
0.504249    0.068063    0.203809    0.223879    
0.444880    0.049379    0.084495    0.421246    
0.156602    0.396563    0.055355    0.391480    
0.003127    0.867980    0.107962    0.020930    
0.000951    0.880591    0.005138    0.113319    
0.001498    0.001556    0.990840    0.006106    
0.002743    0.002226    0.992908    0.002123    
0.985599    0.001203    0.002186    0.011012    
0.951615    0.000985    0.001907    0.045494    
0.001975    0.014159    0.827004    0.156862    
0.032878    0.009724    0.088821    0.868576    
0.387245    0.199359    0.096089    0.317307    
0.145756    0.350557    0.213763    0.289924    
0.080478    0.307083    0.359482    0.252956    
0.301464    0.139466    0.209326    0.349744    
Consensus sequence: HAWYCCGGAAGTHBBD

Alignment:
HAWYCCGGAAGTHBBD
CTATACGGACG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00418        Etv6                               Reverse Complement                      Original Motif                          Forward        7              11             0.033401       

Species: Mus musculus

Original motif
0.354972    0.069107    0.299350    0.276571    
0.209701    0.408003    0.227382    0.154914    
0.284336    0.375266    0.162604    0.177794    
0.176569    0.181438    0.342172    0.299820    
0.106551    0.204378    0.060299    0.628772    
0.884088    0.003252    0.103113    0.009546    
0.001110    0.704391    0.006294    0.288205    
0.014992    0.000892    0.001401    0.982714    
0.004842    0.001887    0.002470    0.990801    
0.002724    0.992864    0.002206    0.002206    
0.001792    0.991200    0.001615    0.005393    
0.005151    0.010157    0.940259    0.044433    
0.017780    0.199839    0.761921    0.020459    
0.230834    0.269936    0.119652    0.379577    
0.233019    0.093692    0.034743    0.638546    
0.194739    0.181763    0.175340    0.448159    
0.145452    0.293709    0.335917    0.224922    
Consensus sequence: DVHBTACTTCCGGHTHB

Reverse complement motif
0.145452    0.335917    0.293709    0.224922    
0.448159    0.181763    0.175340    0.194739    
0.638546    0.093692    0.034743    0.233019    
0.379577    0.269936    0.119652    0.230834    
0.017780    0.761921    0.199839    0.020459    
0.005151    0.940259    0.010157    0.044433    
0.001792    0.001615    0.991200    0.005393    
0.002724    0.002206    0.992864    0.002206    
0.990801    0.001887    0.002470    0.004842    
0.982714    0.000892    0.001401    0.014992    
0.001110    0.006294    0.704391    0.288205    
0.009546    0.003252    0.103113    0.884088    
0.628772    0.204378    0.060299    0.106551    
0.176569    0.342172    0.181438    0.299820    
0.284336    0.162604    0.375266    0.177794    
0.209701    0.227382    0.408003    0.154914    
0.276571    0.069107    0.299350    0.354972    
Consensus sequence: BHAHCCGGAAGTABDVD

Alignment:
DVHBTACTTCCGGHTHB
------CGTCCGTATAG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00409        Elf5                               Original Motif                          Original Motif                          Forward        1              11             0.033639       

Species: Mus musculus

Original motif
0.179167    0.229135    0.279326    0.312372    
0.421239    0.102900    0.145609    0.330252    
0.791978    0.009721    0.028951    0.169350    
0.237609    0.375543    0.161526    0.225321    
0.145845    0.325411    0.516045    0.012699    
0.431007    0.516333    0.051679    0.000982    
0.005750    0.001408    0.990928    0.001915    
0.002025    0.001886    0.992021    0.004068    
0.986405    0.001705    0.001039    0.010851    
0.950652    0.003619    0.000482    0.045248    
0.165221    0.013897    0.819076    0.001805    
0.032042    0.049374    0.014632    0.903953    
0.285325    0.108010    0.127373    0.479292    
0.366131    0.141246    0.290661    0.201963    
Consensus sequence: BWAHSMGGAAGTWD

Reverse complement motif
0.201963    0.141246    0.290661    0.366131    
0.479292    0.108010    0.127373    0.285325    
0.903953    0.049374    0.014632    0.032042    
0.165221    0.819076    0.013897    0.001805    
0.045248    0.003619    0.000482    0.950652    
0.010851    0.001705    0.001039    0.986405    
0.002025    0.992021    0.001886    0.004068    
0.005750    0.990928    0.001408    0.001915    
0.431007    0.051679    0.516333    0.000982    
0.145845    0.516045    0.325411    0.012699    
0.237609    0.161526    0.375543    0.225321    
0.169350    0.009721    0.028951    0.791978    
0.330252    0.102900    0.145609    0.421239    
0.312372    0.229135    0.279326    0.179167    
Consensus sequence: DWACTTCCRSDTWV

Alignment:
BWAHSMGGAAGTWD
CTATACGGACG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00097        Mtf1_primary                       Reverse Complement                      Original Motif                          Backward       2              11             0.034653       

Species: Mus musculus

Original motif
0.220880    0.102939    0.418146    0.258035    
0.154303    0.210788    0.420671    0.214238    
0.229141    0.160788    0.412818    0.197253    
0.167193    0.404248    0.092489    0.336070    
0.025978    0.931335    0.023830    0.018857    
0.009150    0.002023    0.977342    0.011485    
0.044768    0.024113    0.039091    0.892028    
0.007577    0.008370    0.973767    0.010286    
0.005251    0.264996    0.004018    0.725735    
0.009165    0.002428    0.980566    0.007841    
0.021296    0.956027    0.008893    0.013784    
0.982532    0.003341    0.005773    0.008353    
0.500983    0.226027    0.143944    0.129045    
0.544466    0.285936    0.044719    0.124879    
0.321158    0.168428    0.261827    0.248587    
0.271460    0.263221    0.199083    0.266236    
Consensus sequence: DBDHCGTGTGCAAMDH

Reverse complement motif
0.266236    0.263221    0.199083    0.271460    
0.248587    0.168428    0.261827    0.321158    
0.124879    0.285936    0.044719    0.544466    
0.129045    0.226027    0.143944    0.500983    
0.008353    0.003341    0.005773    0.982532    
0.021296    0.008893    0.956027    0.013784    
0.009165    0.980566    0.002428    0.007841    
0.725735    0.264996    0.004018    0.005251    
0.007577    0.973767    0.008370    0.010286    
0.892028    0.024113    0.039091    0.044768    
0.009150    0.977342    0.002023    0.011485    
0.025978    0.023830    0.931335    0.018857    
0.167193    0.092489    0.404248    0.336070    
0.229141    0.412818    0.160788    0.197253    
0.154303    0.420671    0.210788    0.214238    
0.220880    0.418146    0.102939    0.258035    
Consensus sequence: HDYTTGCACACGDHBH

Alignment:
DBDHCGTGTGCAAMDH
----CGTCCGTATAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00135        Hoxc12                             Original Motif                          Reverse Complement                      Backward       3              11             0.036100       

Species: Mus musculus

Original motif
0.183093    0.256705    0.106645    0.453557    
0.293699    0.196292    0.123477    0.386533    
0.412013    0.124988    0.381422    0.081576    
0.195091    0.186106    0.527371    0.091431    
0.152495    0.041951    0.802926    0.002628    
0.001867    0.030137    0.001608    0.966389    
0.042259    0.939178    0.001204    0.017359    
0.130196    0.001627    0.865068    0.003109    
0.003366    0.001436    0.003067    0.992131    
0.922191    0.005824    0.000528    0.071457    
0.973219    0.001857    0.001299    0.023624    
0.979071    0.008898    0.002615    0.009416    
0.503130    0.138484    0.031998    0.326389    
0.337928    0.242816    0.070564    0.348692    
0.182884    0.251308    0.190482    0.375326    
0.307728    0.135074    0.240871    0.316326    
0.189821    0.425134    0.167065    0.217980    
Consensus sequence: HHRGGTCGTAAAWHBDH

Reverse complement motif
0.189821    0.167065    0.425134    0.217980    
0.316326    0.135074    0.240871    0.307728    
0.375326    0.251308    0.190482    0.182884    
0.348692    0.242816    0.070564    0.337928    
0.326389    0.138484    0.031998    0.503130    
0.009416    0.008898    0.002615    0.979071    
0.023624    0.001857    0.001299    0.973219    
0.071457    0.005824    0.000528    0.922191    
0.992131    0.001436    0.003067    0.003366    
0.130196    0.865068    0.001627    0.003109    
0.042259    0.001204    0.939178    0.017359    
0.966389    0.030137    0.001608    0.001867    
0.152495    0.802926    0.041951    0.002628    
0.195091    0.527371    0.186106    0.091431    
0.081576    0.124988    0.381422    0.412013    
0.386533    0.196292    0.123477    0.293699    
0.453557    0.256705    0.106645    0.183093    
Consensus sequence: DDVHWTTTACGACCKHH

Alignment:
DDVHWTTTACGACCKHH
----CTATACGGACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00084        Gmeb1_primary                      Reverse Complement                      Reverse Complement                      Backward       3              11             0.036547       

Species: Mus musculus

Original motif
0.166569    0.264627    0.345569    0.223235    
0.335599    0.314451    0.153336    0.196615    
0.105350    0.231839    0.348018    0.314793    
0.131274    0.215623    0.291288    0.361815    
0.125570    0.072341    0.404848    0.397242    
0.049879    0.039110    0.325167    0.585844    
0.705098    0.009202    0.284757    0.000943    
0.003535    0.986983    0.004275    0.005207    
0.005207    0.004275    0.986983    0.003535    
0.000943    0.284757    0.009202    0.705098    
0.585844    0.325167    0.039110    0.049879    
0.397242    0.404848    0.072341    0.125570    
0.206857    0.234555    0.371731    0.186857    
0.435957    0.145115    0.181033    0.237896    
0.176104    0.260127    0.230770    0.333000    
0.272102    0.213365    0.312032    0.202501    
0.237402    0.250982    0.266977    0.244639    
Consensus sequence: BHBBKKACGTMMVDBVB

Reverse complement motif
0.237402    0.266977    0.250982    0.244639    
0.272102    0.312032    0.213365    0.202501    
0.333000    0.260127    0.230770    0.176104    
0.237896    0.145115    0.181033    0.435957    
0.206857    0.371731    0.234555    0.186857    
0.397242    0.072341    0.404848    0.125570    
0.049879    0.325167    0.039110    0.585844    
0.705098    0.284757    0.009202    0.000943    
0.005207    0.986983    0.004275    0.003535    
0.003535    0.004275    0.986983    0.005207    
0.000943    0.009202    0.284757    0.705098    
0.585844    0.039110    0.325167    0.049879    
0.125570    0.404848    0.072341    0.397242    
0.361815    0.215623    0.291288    0.131274    
0.105350    0.348018    0.231839    0.314793    
0.196615    0.314451    0.153336    0.335599    
0.166569    0.345569    0.264627    0.223235    
Consensus sequence: BVVDVRYACGTRYVBHB

Alignment:
BVVDVRYACGTRYVBHB
----CGTCCGTATAG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00015        Ehf_primary                        Original Motif                          Original Motif                          Forward        2              11             0.036713       

Species: Mus musculus

Original motif
0.327238    0.304037    0.232174    0.136551    
0.198306    0.222758    0.316421    0.262515    
0.252373    0.217079    0.267210    0.263337    
0.633781    0.039800    0.036914    0.289504    
0.160405    0.384709    0.220671    0.234215    
0.134205    0.590541    0.266074    0.009179    
0.210933    0.755978    0.030378    0.002710    
0.011856    0.001472    0.984138    0.002533    
0.003235    0.001605    0.989465    0.005695    
0.984189    0.002418    0.002842    0.010551    
0.884492    0.002651    0.002095    0.110762    
0.249047    0.054607    0.690939    0.005407    
0.124602    0.154669    0.047597    0.673132    
0.375217    0.110561    0.230374    0.283848    
0.402951    0.186789    0.219551    0.190710    
Consensus sequence: VBDABCCGGAAGTDD

Reverse complement motif
0.190710    0.186789    0.219551    0.402951    
0.283848    0.110561    0.230374    0.375217    
0.673132    0.154669    0.047597    0.124602    
0.249047    0.690939    0.054607    0.005407    
0.110762    0.002651    0.002095    0.884492    
0.010551    0.002418    0.002842    0.984189    
0.003235    0.989465    0.001605    0.005695    
0.011856    0.984138    0.001472    0.002533    
0.210933    0.030378    0.755978    0.002710    
0.134205    0.266074    0.590541    0.009179    
0.160405    0.220671    0.384709    0.234215    
0.289504    0.039800    0.036914    0.633781    
0.252373    0.267210    0.217079    0.263337    
0.198306    0.316421    0.222758    0.262515    
0.136551    0.304037    0.232174    0.327238    
Consensus sequence: DDACTTCCGGBTHBB

Alignment:
VBDABCCGGAAGTDD
-CTATACGGACG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00421        Etv1                               Reverse Complement                      Reverse Complement                      Backward       2              11             0.037300       

Species: Mus musculus

Original motif
0.481848    0.274378    0.165047    0.078727    
0.153123    0.322109    0.385794    0.138974    
0.257711    0.198309    0.118559    0.425422    
0.102329    0.255032    0.373097    0.269542    
0.655995    0.027594    0.168796    0.147615    
0.012836    0.906067    0.077134    0.003962    
0.079806    0.917232    0.002438    0.000524    
0.005217    0.001765    0.991859    0.001159    
0.001691    0.002097    0.993588    0.002624    
0.991087    0.001016    0.001937    0.005961    
0.751484    0.005147    0.002324    0.241044    
0.112494    0.076460    0.805095    0.005951    
0.012019    0.198497    0.022413    0.767071    
0.482843    0.140306    0.249898    0.126953    
0.298792    0.191769    0.286874    0.222565    
0.395216    0.302575    0.172247    0.129961    
0.364642    0.219734    0.190320    0.225304    
Consensus sequence: MVHBACCGGAAGTVDVH

Reverse complement motif
0.225304    0.219734    0.190320    0.364642    
0.129961    0.302575    0.172247    0.395216    
0.222565    0.191769    0.286874    0.298792    
0.126953    0.140306    0.249898    0.482843    
0.767071    0.198497    0.022413    0.012019    
0.112494    0.805095    0.076460    0.005951    
0.241044    0.005147    0.002324    0.751484    
0.005961    0.001016    0.001937    0.991087    
0.001691    0.993588    0.002097    0.002624    
0.005217    0.991859    0.001765    0.001159    
0.079806    0.002438    0.917232    0.000524    
0.012836    0.077134    0.906067    0.003962    
0.147615    0.027594    0.168796    0.655995    
0.102329    0.373097    0.255032    0.269542    
0.425422    0.198309    0.118559    0.257711    
0.153123    0.385794    0.322109    0.138974    
0.078727    0.274378    0.165047    0.481848    
Consensus sequence: HBDBACTTCCGGTBHVY

Alignment:
HBDBACTTCCGGTBHVY
-----CGTCCGTATAG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 82		Motif name: gCGCGCsCgsG

Original motif
0.105263    0.210526    0.526316    0.157895    
0.000000    0.736842    0.105263    0.157895    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.368421    0.631579    0.000000    
0.000000    0.894737    0.105263    0.000000    
0.157895    0.157895    0.631579    0.052632    
0.052632    0.631579    0.263158    0.052632    
0.105263    0.052632    0.789474    0.052632    
Consensus sequence: GCGCGCSCGCG

Reserve complement motif
0.105263    0.789474    0.052632    0.052632    
0.052632    0.263158    0.631579    0.052632    
0.157895    0.631579    0.157895    0.052632    
0.000000    0.105263    0.894737    0.000000    
0.000000    0.631579    0.368421    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.105263    0.736842    0.157895    
0.105263    0.526316    0.210526    0.157895    
Consensus sequence: CGCGSGCGCGC


************************************************************************ Best Matches for Motif ID 82 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00065        Zfp161_primary                     Reverse Complement                      Original Motif                          Forward        2              11             0.000000       

Species: Mus musculus

Original motif
0.142624    0.111294    0.283688    0.462394    
0.221170    0.081404    0.499138    0.198288    
0.290070    0.042114    0.604904    0.062912    
0.109755    0.559510    0.215454    0.115281    
0.111745    0.022727    0.850580    0.014948    
0.015907    0.942291    0.005561    0.036241    
0.088509    0.003729    0.902805    0.004957    
0.004957    0.902805    0.003729    0.088509    
0.036241    0.005561    0.942291    0.015907    
0.014948    0.850580    0.022727    0.111745    
0.325358    0.049424    0.519652    0.105566    
0.062912    0.604904    0.042114    0.290070    
0.214335    0.388248    0.125912    0.271505    
0.128984    0.372787    0.092390    0.405839    
0.269058    0.098422    0.484016    0.148504    
0.362176    0.156050    0.188642    0.293132    
Consensus sequence: DDGCGCGCGCRCHYRD

Reverse complement motif
0.293132    0.156050    0.188642    0.362176    
0.269058    0.484016    0.098422    0.148504    
0.405839    0.372787    0.092390    0.128984    
0.214335    0.125912    0.388248    0.271505    
0.062912    0.042114    0.604904    0.290070    
0.325358    0.519652    0.049424    0.105566    
0.014948    0.022727    0.850580    0.111745    
0.036241    0.942291    0.005561    0.015907    
0.004957    0.003729    0.902805    0.088509    
0.088509    0.902805    0.003729    0.004957    
0.015907    0.005561    0.942291    0.036241    
0.111745    0.850580    0.022727    0.014948    
0.109755    0.215454    0.559510    0.115281    
0.290070    0.604904    0.042114    0.062912    
0.221170    0.499138    0.081404    0.198288    
0.462394    0.111294    0.283688    0.142624    
Consensus sequence: DMMDGMGCGCGCGCHD

Alignment:
DDGCGCGCGCRCHYRD
-CGCGSGCGCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00003        E2F3_primary                       Reverse Complement                      Reverse Complement                      Backward       5              11             0.010201       

Species: Mus musculus

Original motif
0.358868    0.212371    0.263565    0.165196    
0.303014    0.253580    0.111217    0.332189    
0.420933    0.110957    0.210958    0.257152    
0.769724    0.062662    0.032155    0.135459    
0.311973    0.051319    0.408669    0.228039    
0.097916    0.141153    0.719697    0.041234    
0.009980    0.014044    0.971955    0.004021    
0.014425    0.974798    0.008373    0.002404    
0.000891    0.013228    0.983966    0.001915    
0.000827    0.938560    0.059548    0.001065    
0.007071    0.102005    0.872378    0.018546    
0.020099    0.897653    0.014151    0.068097    
0.114080    0.346724    0.409037    0.130159    
0.331439    0.279041    0.085030    0.304491    
0.319846    0.136792    0.043641    0.499722    
Consensus sequence: VHDADGGCGCGCSHW

Reverse complement motif
0.499722    0.136792    0.043641    0.319846    
0.304491    0.279041    0.085030    0.331439    
0.114080    0.409037    0.346724    0.130159    
0.020099    0.014151    0.897653    0.068097    
0.007071    0.872378    0.102005    0.018546    
0.000827    0.059548    0.938560    0.001065    
0.000891    0.983966    0.013228    0.001915    
0.014425    0.008373    0.974798    0.002404    
0.009980    0.971955    0.014044    0.004021    
0.097916    0.719697    0.141153    0.041234    
0.311973    0.408669    0.051319    0.228039    
0.135459    0.062662    0.032155    0.769724    
0.257152    0.110957    0.210958    0.420933    
0.332189    0.253580    0.111217    0.303014    
0.165196    0.212371    0.263565    0.358868    
Consensus sequence: WHSGCGCGCCHTDHB

Alignment:
WHSGCGCGCCHTDHB
CGCGSGCGCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00001        E2F2_primary                       Reverse Complement                      Reverse Complement                      Forward        1              11             0.012446       

Species: Mus musculus

Original motif
0.305970    0.214348    0.269312    0.210370    
0.279551    0.218276    0.140576    0.361597    
0.391304    0.162239    0.193916    0.252541    
0.701667    0.102206    0.041580    0.154547    
0.427655    0.068368    0.324706    0.179271    
0.144368    0.191048    0.609772    0.054812    
0.014295    0.020613    0.958397    0.006695    
0.019783    0.962982    0.013403    0.003831    
0.001189    0.023882    0.973231    0.001697    
0.001343    0.919840    0.077728    0.001089    
0.011293    0.097945    0.865194    0.025568    
0.039106    0.864604    0.025189    0.071100    
0.147663    0.328105    0.407118    0.117115    
0.462769    0.203531    0.107986    0.225714    
0.293396    0.229650    0.082819    0.394135    
Consensus sequence: VHDARGGCGCGCVHH

Reverse complement motif
0.394135    0.229650    0.082819    0.293396    
0.225714    0.203531    0.107986    0.462769    
0.147663    0.407118    0.328105    0.117115    
0.039106    0.025189    0.864604    0.071100    
0.011293    0.865194    0.097945    0.025568    
0.001343    0.077728    0.919840    0.001089    
0.001189    0.973231    0.023882    0.001697    
0.019783    0.013403    0.962982    0.003831    
0.014295    0.958397    0.020613    0.006695    
0.144368    0.609772    0.191048    0.054812    
0.179271    0.068368    0.324706    0.427655    
0.154547    0.102206    0.041580    0.701667    
0.252541    0.162239    0.193916    0.391304    
0.361597    0.218276    0.140576    0.279551    
0.210370    0.214348    0.269312    0.305970    
Consensus sequence: HHVGCGCGCCKTDHB

Alignment:
HHVGCGCGCCKTDHB
CGCGSGCGCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Reverse Complement                      Original Motif                          Backward       8              11             0.019220       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
WHVBVVMACGCGCGTCDYHWDH
----CGCGSGCGCGC-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_secondary                    Reverse Complement                      Original Motif                          Forward        8              11             0.023198       

Species: Mus musculus

Original motif
0.477863    0.106306    0.184102    0.231729    
0.304951    0.149020    0.361418    0.184612    
0.548996    0.056128    0.348902    0.045974    
0.385727    0.477782    0.086218    0.050273    
0.409556    0.232265    0.173851    0.184328    
0.174550    0.312880    0.307123    0.205448    
0.850398    0.047204    0.041665    0.060734    
0.141234    0.548534    0.142230    0.168002    
0.059462    0.026354    0.892948    0.021236    
0.053714    0.870297    0.028935    0.047055    
0.086273    0.069147    0.805284    0.039296    
0.033781    0.573881    0.034115    0.358223    
0.035191    0.079663    0.824970    0.060176    
0.051830    0.862631    0.019359    0.066180    
0.178685    0.015738    0.762485    0.043092    
0.058988    0.042615    0.017608    0.880789    
0.202382    0.173360    0.284095    0.340163    
0.098493    0.234651    0.506524    0.160333    
0.109087    0.336204    0.250510    0.304198    
0.130945    0.250843    0.177122    0.441090    
0.353830    0.138838    0.162784    0.344548    
0.114290    0.417163    0.160662    0.307885    
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB

Reverse complement motif
0.114290    0.160662    0.417163    0.307885    
0.344548    0.138838    0.162784    0.353830    
0.441090    0.250843    0.177122    0.130945    
0.109087    0.250510    0.336204    0.304198    
0.098493    0.506524    0.234651    0.160333    
0.340163    0.173360    0.284095    0.202382    
0.880789    0.042615    0.017608    0.058988    
0.178685    0.762485    0.015738    0.043092    
0.051830    0.019359    0.862631    0.066180    
0.035191    0.824970    0.079663    0.060176    
0.033781    0.034115    0.573881    0.358223    
0.086273    0.805284    0.069147    0.039296    
0.053714    0.028935    0.870297    0.047055    
0.059462    0.892948    0.026354    0.021236    
0.141234    0.142230    0.548534    0.168002    
0.060734    0.047204    0.041665    0.850398    
0.174550    0.307123    0.312880    0.205448    
0.184328    0.232265    0.173851    0.409556    
0.385727    0.086218    0.477782    0.050273    
0.045974    0.056128    0.348902    0.548996    
0.304951    0.361418    0.149020    0.184612    
0.231729    0.106306    0.184102    0.477863    
Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Alignment:
DDRMHBACGCGYGCGTDGBBDB
-------CGCGSGCGCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00007        Egr1_primary                       Original Motif                          Original Motif                          Backward       3              11             0.028937       

Species: Mus musculus

Original motif
0.211547    0.282708    0.203472    0.302273    
0.141988    0.722437    0.054854    0.080721    
0.032605    0.877172    0.012432    0.077792    
0.115126    0.070606    0.781290    0.032979    
0.003516    0.990021    0.002265    0.004198    
0.004715    0.982482    0.009897    0.002906    
0.001627    0.975937    0.001662    0.020774    
0.262352    0.731732    0.002730    0.003187    
0.005890    0.985756    0.002081    0.006273    
0.022893    0.090460    0.649322    0.237324    
0.023038    0.859949    0.037913    0.079101    
0.567633    0.057394    0.166792    0.208181    
0.176597    0.331265    0.125308    0.366830    
0.183049    0.183774    0.226793    0.406384    
Consensus sequence: HCCGCCCCCGCAHB

Reverse complement motif
0.406384    0.183774    0.226793    0.183049    
0.366830    0.331265    0.125308    0.176597    
0.208181    0.057394    0.166792    0.567633    
0.023038    0.037913    0.859949    0.079101    
0.022893    0.649322    0.090460    0.237324    
0.005890    0.002081    0.985756    0.006273    
0.262352    0.002730    0.731732    0.003187    
0.001627    0.001662    0.975937    0.020774    
0.004715    0.009897    0.982482    0.002906    
0.003516    0.002265    0.990021    0.004198    
0.115126    0.781290    0.070606    0.032979    
0.032605    0.012432    0.877172    0.077792    
0.141988    0.054854    0.722437    0.080721    
0.302273    0.282708    0.203472    0.211547    
Consensus sequence: VHTGCGGGGGCGGH

Alignment:
HCCGCCCCCGCAHB
-GCGCGCSCGCG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Original Motif                          Forward        7              11             0.029725       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
------GCGCGCSCGCG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00088        Plagl1_primary                     Reverse Complement                      Original Motif                          Backward       5              11             0.031691       

Species: Mus musculus

Original motif
0.119709    0.241933    0.299696    0.338662    
0.236295    0.277376    0.191945    0.294383    
0.203722    0.152043    0.467305    0.176931    
0.187661    0.114330    0.513662    0.184347    
0.047306    0.041411    0.838415    0.072868    
0.131945    0.003749    0.848921    0.015385    
0.003800    0.006713    0.960656    0.028832    
0.002515    0.652482    0.343047    0.001955    
0.001955    0.343047    0.652482    0.002515    
0.028832    0.960656    0.006713    0.003800    
0.015385    0.848921    0.003749    0.131945    
0.072868    0.838415    0.041411    0.047306    
0.193804    0.543600    0.063385    0.199211    
0.210649    0.233823    0.258755    0.296773    
0.376439    0.191612    0.261004    0.170945    
0.230078    0.256519    0.299785    0.213618    
Consensus sequence: BHDGGGGSSCCCCBVV

Reverse complement motif
0.230078    0.299785    0.256519    0.213618    
0.170945    0.191612    0.261004    0.376439    
0.296773    0.233823    0.258755    0.210649    
0.193804    0.063385    0.543600    0.199211    
0.072868    0.041411    0.838415    0.047306    
0.015385    0.003749    0.848921    0.131945    
0.028832    0.006713    0.960656    0.003800    
0.001955    0.652482    0.343047    0.002515    
0.002515    0.343047    0.652482    0.001955    
0.003800    0.960656    0.006713    0.028832    
0.131945    0.848921    0.003749    0.015385    
0.047306    0.838415    0.041411    0.072868    
0.187661    0.513662    0.114330    0.184347    
0.203722    0.467305    0.152043    0.176931    
0.294383    0.277376    0.191945    0.236295    
0.338662    0.241933    0.299696    0.119709    
Consensus sequence: VBVGGGGSSCCCCHHV

Alignment:
BHDGGGGSSCCCCBVV
-CGCGSGCGCGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00002        Sp4_primary                        Reverse Complement                      Reverse Complement                      Backward       3              11             0.032363       

Species: Mus musculus

Original motif
0.155386    0.223380    0.374454    0.246780    
0.247106    0.159582    0.345111    0.248201    
0.238889    0.258354    0.165304    0.337454    
0.255612    0.489586    0.051621    0.203182    
0.450100    0.545383    0.001071    0.003447    
0.003704    0.991007    0.002456    0.002833    
0.035504    0.001814    0.928129    0.034553    
0.001494    0.991406    0.003414    0.003686    
0.003045    0.990628    0.005182    0.001145    
0.000990    0.963237    0.001215    0.034557    
0.148016    0.838396    0.000666    0.012922    
0.014261    0.905847    0.007200    0.072692    
0.083394    0.270068    0.058368    0.588170    
0.149141    0.286783    0.142802    0.421274    
0.204851    0.347195    0.253356    0.194597    
0.184442    0.299908    0.194408    0.321242    
0.125793    0.380109    0.245318    0.248780    
Consensus sequence: BDHHMCGCCCCCTHVBB

Reverse complement motif
0.125793    0.245318    0.380109    0.248780    
0.321242    0.299908    0.194408    0.184442    
0.204851    0.253356    0.347195    0.194597    
0.421274    0.286783    0.142802    0.149141    
0.588170    0.270068    0.058368    0.083394    
0.014261    0.007200    0.905847    0.072692    
0.148016    0.000666    0.838396    0.012922    
0.000990    0.001215    0.963237    0.034557    
0.003045    0.005182    0.990628    0.001145    
0.001494    0.003414    0.991406    0.003686    
0.035504    0.928129    0.001814    0.034553    
0.003704    0.002456    0.991007    0.002833    
0.450100    0.001071    0.545383    0.003447    
0.255612    0.051621    0.489586    0.203182    
0.337454    0.258354    0.165304    0.238889    
0.247106    0.345111    0.159582    0.248201    
0.155386    0.374454    0.223380    0.246780    
Consensus sequence: BVVHAGGGGGCGRDHHB

Alignment:
BVVHAGGGGGCGRDHHB
----CGCGSGCGCGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Reverse Complement                      Reverse Complement                      Backward       7              11             0.039112       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
-----CGCGSGCGCGC------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 4		Motif ID: 83		Motif name: srACyCCGAyr

Original motif
0.000000    0.500000    0.500000    0.000000    
0.500000    0.000000    0.500000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
0.000000    1.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.500000    0.000000    0.500000    
0.500000    0.000000    0.500000    0.000000    
Consensus sequence: SRACYCCGAYR

Reserve complement motif
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.500000    0.500000    
0.000000    0.500000    0.500000    0.000000    
Consensus sequence: KKTCGGKGTKS


************************************************************************ Best Matches for Motif ID 83 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00024        Glis2_primary                      Reverse Complement                      Reverse Complement                      Forward        3              11             0.012991       

Species: Mus musculus

Original motif
0.135895    0.314811    0.129804    0.419490    
0.379294    0.148356    0.125349    0.347001    
0.331058    0.171563    0.156431    0.340948    
0.238325    0.268940    0.259195    0.233540    
0.014812    0.072844    0.774496    0.137848    
0.826050    0.107559    0.058965    0.007426    
0.013657    0.965452    0.008273    0.012618    
0.011951    0.975704    0.007210    0.005135    
0.015560    0.961676    0.004028    0.018736    
0.010295    0.971668    0.003618    0.014418    
0.087168    0.805495    0.002118    0.105220    
0.098937    0.760880    0.010017    0.130166    
0.492579    0.177017    0.171719    0.158685    
0.160142    0.327745    0.192170    0.319943    
0.484858    0.086830    0.273852    0.154461    
0.266100    0.086868    0.363661    0.283371    
Consensus sequence: HHHVGACCCCCCVBRD

Reverse complement motif
0.266100    0.363661    0.086868    0.283371    
0.154461    0.086830    0.273852    0.484858    
0.160142    0.192170    0.327745    0.319943    
0.158685    0.177017    0.171719    0.492579    
0.098937    0.010017    0.760880    0.130166    
0.087168    0.002118    0.805495    0.105220    
0.010295    0.003618    0.971668    0.014418    
0.015560    0.004028    0.961676    0.018736    
0.011951    0.007210    0.975704    0.005135    
0.013657    0.008273    0.965452    0.012618    
0.007426    0.107559    0.058965    0.826050    
0.014812    0.774496    0.072844    0.137848    
0.238325    0.259195    0.268940    0.233540    
0.340948    0.171563    0.156431    0.331058    
0.347001    0.148356    0.125349    0.379294    
0.419490    0.314811    0.129804    0.135895    
Consensus sequence: HKBBGGGGGGTCVHHH

Alignment:
HKBBGGGGGGTCVHHH
--KKTCGGKGTKS---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Original Motif                          Forward        7              11             0.013032       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VDWDARRGACGCGGWHGGAKHV
------SRACYCCGAYR-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00070        Gcm1_secondary                     Original Motif                          Reverse Complement                      Backward       5              11             0.013246       

Species: Mus musculus

Original motif
0.298360    0.124865    0.240783    0.335992    
0.184300    0.174617    0.373392    0.267691    
0.150632    0.435099    0.254062    0.160207    
0.212569    0.220347    0.370971    0.196113    
0.258171    0.316689    0.186896    0.238243    
0.872371    0.051703    0.070791    0.005135    
0.011560    0.017672    0.009746    0.961022    
0.888546    0.042964    0.061758    0.006732    
0.071365    0.009982    0.801505    0.117148    
0.010657    0.014961    0.949286    0.025096    
0.004496    0.009941    0.978381    0.007182    
0.005645    0.010294    0.972682    0.011378    
0.499895    0.152322    0.335875    0.011908    
0.109410    0.346384    0.380529    0.163677    
0.371764    0.096182    0.457999    0.074056    
0.450207    0.392208    0.065686    0.091898    
0.104224    0.228467    0.391473    0.275836    
Consensus sequence: DDBVHATAGGGGRBRMB

Reverse complement motif
0.104224    0.391473    0.228467    0.275836    
0.091898    0.392208    0.065686    0.450207    
0.371764    0.457999    0.096182    0.074056    
0.109410    0.380529    0.346384    0.163677    
0.011908    0.152322    0.335875    0.499895    
0.005645    0.972682    0.010294    0.011378    
0.004496    0.978381    0.009941    0.007182    
0.010657    0.949286    0.014961    0.025096    
0.071365    0.801505    0.009982    0.117148    
0.006732    0.042964    0.061758    0.888546    
0.961022    0.017672    0.009746    0.011560    
0.005135    0.051703    0.070791    0.872371    
0.258171    0.186896    0.316689    0.238243    
0.212569    0.370971    0.220347    0.196113    
0.150632    0.254062    0.435099    0.160207    
0.184300    0.373392    0.174617    0.267691    
0.335992    0.124865    0.240783    0.298360    
Consensus sequence: BYMBKCCCCTATDVBHD

Alignment:
BYMBKCCCCTATDVBHD
--SRACYCCGAYR----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00070        Gcm1_primary                       Original Motif                          Original Motif                          Forward        3              11             0.013537       

Species: Mus musculus

Original motif
0.251681    0.208273    0.178525    0.361520    
0.323865    0.334303    0.205542    0.136289    
0.308084    0.277004    0.326203    0.088709    
0.280609    0.171416    0.168918    0.379057    
0.734441    0.031257    0.211473    0.022829    
0.006187    0.990281    0.001052    0.002480    
0.005819    0.990856    0.001498    0.001826    
0.043838    0.936502    0.001550    0.018110    
0.022607    0.058037    0.901005    0.018350    
0.000424    0.787011    0.026547    0.186017    
0.980774    0.002884    0.011288    0.005054    
0.009100    0.110310    0.067399    0.813192    
0.247510    0.310539    0.250093    0.191858    
0.279511    0.211998    0.250717    0.257774    
0.264451    0.270002    0.142606    0.322941    
0.227607    0.212076    0.267214    0.293102    
Consensus sequence: HVVHACCCGCATVDHD

Reverse complement motif
0.293102    0.212076    0.267214    0.227607    
0.322941    0.270002    0.142606    0.264451    
0.257774    0.211998    0.250717    0.279511    
0.247510    0.250093    0.310539    0.191858    
0.813192    0.110310    0.067399    0.009100    
0.005054    0.002884    0.011288    0.980774    
0.000424    0.026547    0.787011    0.186017    
0.022607    0.901005    0.058037    0.018350    
0.043838    0.001550    0.936502    0.018110    
0.005819    0.001498    0.990856    0.001826    
0.006187    0.001052    0.990281    0.002480    
0.022829    0.031257    0.211473    0.734441    
0.379057    0.171416    0.168918    0.280609    
0.308084    0.326203    0.277004    0.088709    
0.323865    0.205542    0.334303    0.136289    
0.361520    0.208273    0.178525    0.251681    
Consensus sequence: DHDVATGCGGGTHVVH

Alignment:
HVVHACCCGCATVDHD
--SRACYCCGAYR---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00021        Zfp281_secondary                   Original Motif                          Original Motif                          Forward        4              11             0.013691       

Species: Mus musculus

Original motif
0.463582    0.061604    0.232850    0.241964    
0.128956    0.062321    0.481130    0.327593    
0.217730    0.020690    0.453776    0.307803    
0.535427    0.042857    0.149994    0.271722    
0.222391    0.125415    0.375419    0.276775    
0.640877    0.065373    0.223489    0.070261    
0.021896    0.962922    0.010999    0.004183    
0.033993    0.953699    0.002967    0.009341    
0.009096    0.979346    0.006614    0.004944    
0.010148    0.971252    0.010228    0.008373    
0.019605    0.958973    0.012496    0.008926    
0.752208    0.080178    0.046020    0.121594    
0.466313    0.149124    0.107403    0.277160    
0.177748    0.055516    0.159170    0.607566    
0.314879    0.170636    0.187525    0.326960    
0.322202    0.105206    0.230803    0.341789    
0.284925    0.228846    0.320951    0.165278    
Consensus sequence: DKKWDACCCCCAHTDDV

Reverse complement motif
0.284925    0.320951    0.228846    0.165278    
0.341789    0.105206    0.230803    0.322202    
0.326960    0.170636    0.187525    0.314879    
0.607566    0.055516    0.159170    0.177748    
0.277160    0.149124    0.107403    0.466313    
0.121594    0.080178    0.046020    0.752208    
0.019605    0.012496    0.958973    0.008926    
0.010148    0.010228    0.971252    0.008373    
0.009096    0.006614    0.979346    0.004944    
0.033993    0.002967    0.953699    0.009341    
0.021896    0.010999    0.962922    0.004183    
0.070261    0.065373    0.223489    0.640877    
0.222391    0.375419    0.125415    0.276775    
0.271722    0.042857    0.149994    0.535427    
0.217730    0.453776    0.020690    0.307803    
0.128956    0.481130    0.062321    0.327593    
0.241964    0.061604    0.232850    0.463582    
Consensus sequence: VDDAHTGGGGGTHWYYD

Alignment:
DKKWDACCCCCAHTDDV
---SRACYCCGAYR---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00047        Zbtb7b_primary                     Reverse Complement                      Reverse Complement                      Forward        3              11             0.014609       

Species: Mus musculus

Original motif
0.346946    0.168959    0.284689    0.199406    
0.368623    0.144282    0.255122    0.231973    
0.231438    0.167540    0.443911    0.157110    
0.048139    0.713513    0.224736    0.013612    
0.005943    0.982494    0.009265    0.002298    
0.005729    0.990328    0.002017    0.001925    
0.012634    0.982154    0.001044    0.004167    
0.003906    0.974044    0.002213    0.019837    
0.092161    0.786818    0.026401    0.094621    
0.372382    0.157921    0.109317    0.360380    
0.615307    0.152879    0.040223    0.191591    
0.669723    0.112856    0.072817    0.144604    
0.433088    0.064050    0.180057    0.322805    
0.487027    0.216787    0.092562    0.203624    
0.140487    0.242560    0.157093    0.459860    
Consensus sequence: DDVCCCCCCHAAWHB

Reverse complement motif
0.459860    0.242560    0.157093    0.140487    
0.203624    0.216787    0.092562    0.487027    
0.322805    0.064050    0.180057    0.433088    
0.144604    0.112856    0.072817    0.669723    
0.191591    0.152879    0.040223    0.615307    
0.360380    0.157921    0.109317    0.372382    
0.092161    0.026401    0.786818    0.094621    
0.003906    0.002213    0.974044    0.019837    
0.012634    0.001044    0.982154    0.004167    
0.005729    0.002017    0.990328    0.001925    
0.005943    0.009265    0.982494    0.002298    
0.048139    0.224736    0.713513    0.013612    
0.231438    0.443911    0.167540    0.157110    
0.231973    0.144282    0.255122    0.368623    
0.199406    0.168959    0.284689    0.346946    
Consensus sequence: VHWTTHGGGGGGVDD

Alignment:
VHWTTHGGGGGGVDD
--KKTCGGKGTKS--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00040        Irf5_primary                       Reverse Complement                      Reverse Complement                      Forward        5              11             0.014819       

Species: Mus musculus

Original motif
0.337548    0.193688    0.194039    0.274725    
0.279950    0.185928    0.199501    0.334621    
0.357304    0.160203    0.278768    0.203725    
0.499782    0.069569    0.166858    0.263790    
0.832538    0.022992    0.085287    0.059183    
0.144788    0.434769    0.040595    0.379848    
0.016035    0.943520    0.003379    0.037067    
0.014208    0.001713    0.982579    0.001500    
0.985572    0.004274    0.008722    0.001432    
0.894404    0.001440    0.007585    0.096571    
0.991307    0.002706    0.001993    0.003994    
0.011143    0.973529    0.013241    0.002087    
0.016468    0.532173    0.009621    0.441739    
0.462373    0.120288    0.237126    0.180213    
0.392685    0.223865    0.229697    0.153753    
Consensus sequence: DDDWAYCGAAACYDV

Reverse complement motif
0.153753    0.223865    0.229697    0.392685    
0.180213    0.120288    0.237126    0.462373    
0.016468    0.009621    0.532173    0.441739    
0.011143    0.013241    0.973529    0.002087    
0.003994    0.002706    0.001993    0.991307    
0.096571    0.001440    0.007585    0.894404    
0.001432    0.004274    0.008722    0.985572    
0.014208    0.982579    0.001713    0.001500    
0.016035    0.003379    0.943520    0.037067    
0.144788    0.040595    0.434769    0.379848    
0.059183    0.022992    0.085287    0.832538    
0.263790    0.069569    0.166858    0.499782    
0.203725    0.160203    0.278768    0.357304    
0.334621    0.185928    0.199501    0.279950    
0.274725    0.193688    0.194039    0.337548    
Consensus sequence: BDKGTTTCGKTWDDD

Alignment:
BDKGTTTCGKTWDDD
----KKTCGGKGTKS

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_primary               Original Motif                          Original Motif                          Forward        9              11             0.014859       

Species: Mus musculus

Original motif
0.641428    0.180211    0.044767    0.133594    
0.171696    0.262981    0.334148    0.231174    
0.129726    0.322735    0.243462    0.304077    
0.165713    0.175735    0.256108    0.402445    
0.146090    0.171890    0.412753    0.269266    
0.212837    0.439192    0.280990    0.066980    
0.251088    0.275516    0.374380    0.099015    
0.575438    0.079656    0.338201    0.006704    
0.005634    0.003422    0.972597    0.018348    
0.890447    0.077034    0.031851    0.000668    
0.007128    0.986862    0.000496    0.005515    
0.001445    0.991564    0.001925    0.005066    
0.738761    0.190157    0.026399    0.044684    
0.013384    0.983783    0.000896    0.001937    
0.068077    0.929549    0.000773    0.001602    
0.040830    0.933742    0.005283    0.020145    
0.730274    0.029225    0.145689    0.094812    
0.165032    0.572838    0.162001    0.100129    
0.383584    0.129942    0.429497    0.056977    
0.455959    0.071959    0.208204    0.263878    
0.134271    0.262985    0.222626    0.380117    
0.071193    0.346594    0.346081    0.236132    
0.445661    0.405278    0.053901    0.095160    
Consensus sequence: ABBBBVVRGACCACCCACRDBBM

Reverse complement motif
0.095160    0.405278    0.053901    0.445661    
0.071193    0.346081    0.346594    0.236132    
0.380117    0.262985    0.222626    0.134271    
0.263878    0.071959    0.208204    0.455959    
0.383584    0.429497    0.129942    0.056977    
0.165032    0.162001    0.572838    0.100129    
0.094812    0.029225    0.145689    0.730274    
0.040830    0.005283    0.933742    0.020145    
0.068077    0.000773    0.929549    0.001602    
0.013384    0.000896    0.983783    0.001937    
0.044684    0.190157    0.026399    0.738761    
0.001445    0.001925    0.991564    0.005066    
0.007128    0.000496    0.986862    0.005515    
0.000668    0.077034    0.031851    0.890447    
0.005634    0.972597    0.003422    0.018348    
0.006704    0.079656    0.338201    0.575438    
0.251088    0.374380    0.275516    0.099015    
0.212837    0.280990    0.439192    0.066980    
0.146090    0.412753    0.171890    0.269266    
0.402445    0.175735    0.256108    0.165713    
0.129726    0.243462    0.322735    0.304077    
0.171696    0.334148    0.262981    0.231174    
0.133594    0.180211    0.044767    0.641428    
Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Alignment:
ABBBBVVRGACCACCCACRDBBM
--------SRACYCCGAYR----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00021        Zfp281_primary                     Reverse Complement                      Reverse Complement                      Backward       5              11             0.015330       

Species: Mus musculus

Original motif
0.201535    0.165213    0.201324    0.431929    
0.136153    0.443451    0.179132    0.241264    
0.263149    0.555137    0.067983    0.113731    
0.142183    0.737634    0.045722    0.074461    
0.044982    0.884112    0.045356    0.025549    
0.246434    0.590578    0.022655    0.140333    
0.123049    0.591257    0.033072    0.252622    
0.018153    0.944742    0.010254    0.026851    
0.035459    0.953844    0.003988    0.006709    
0.020000    0.954344    0.005966    0.019690    
0.015299    0.964390    0.006755    0.013557    
0.028565    0.936152    0.011660    0.023623    
0.300127    0.517309    0.029700    0.152863    
0.159063    0.513443    0.051834    0.275660    
0.158172    0.647055    0.133256    0.061516    
Consensus sequence: DBCCCCCCCCCCMYC

Reverse complement motif
0.158172    0.133256    0.647055    0.061516    
0.159063    0.051834    0.513443    0.275660    
0.300127    0.029700    0.517309    0.152863    
0.028565    0.011660    0.936152    0.023623    
0.015299    0.006755    0.964390    0.013557    
0.020000    0.005966    0.954344    0.019690    
0.035459    0.003988    0.953844    0.006709    
0.018153    0.010254    0.944742    0.026851    
0.123049    0.033072    0.591257    0.252622    
0.246434    0.022655    0.590578    0.140333    
0.044982    0.045356    0.884112    0.025549    
0.142183    0.045722    0.737634    0.074461    
0.263149    0.067983    0.555137    0.113731    
0.136153    0.179132    0.443451    0.241264    
0.431929    0.165213    0.201324    0.201535    
Consensus sequence: GKRGGGGGGGGGGBD

Alignment:
GKRGGGGGGGGGGBD
KKTCGGKGTKS----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_primary               Reverse Complement                      Reverse Complement                      Backward       10             11             0.015555       

Species: Mus musculus

Original motif
0.137831    0.118922    0.394177    0.349070    
0.190108    0.163633    0.138507    0.507753    
0.346002    0.332315    0.228621    0.093063    
0.113254    0.287554    0.373285    0.225908    
0.272578    0.125402    0.328963    0.273057    
0.333973    0.115165    0.194267    0.356595    
0.381054    0.086215    0.501679    0.031052    
0.002232    0.007405    0.966087    0.024276    
0.834741    0.112115    0.052053    0.001091    
0.009034    0.983239    0.000766    0.006960    
0.002054    0.988103    0.003138    0.006705    
0.805772    0.171299    0.008415    0.014515    
0.020076    0.976846    0.000894    0.002183    
0.079914    0.917273    0.001179    0.001634    
0.013983    0.950545    0.004205    0.031267    
0.789407    0.039441    0.108645    0.062507    
0.055453    0.161271    0.595249    0.188028    
0.333424    0.128169    0.373270    0.165136    
0.536103    0.109520    0.062980    0.291397    
0.346477    0.090909    0.279533    0.283081    
0.045892    0.190183    0.584314    0.179611    
0.088294    0.406148    0.251647    0.253912    
0.202467    0.447159    0.162802    0.187571    
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH

Reverse complement motif
0.202467    0.162802    0.447159    0.187571    
0.088294    0.251647    0.406148    0.253912    
0.045892    0.584314    0.190183    0.179611    
0.283081    0.090909    0.279533    0.346477    
0.291397    0.109520    0.062980    0.536103    
0.333424    0.373270    0.128169    0.165136    
0.055453    0.595249    0.161271    0.188028    
0.062507    0.039441    0.108645    0.789407    
0.013983    0.004205    0.950545    0.031267    
0.079914    0.001179    0.917273    0.001634    
0.020076    0.000894    0.976846    0.002183    
0.014515    0.171299    0.008415    0.805772    
0.002054    0.003138    0.988103    0.006705    
0.009034    0.000766    0.983239    0.006960    
0.001091    0.112115    0.052053    0.834741    
0.002232    0.966087    0.007405    0.024276    
0.381054    0.501679    0.086215    0.031052    
0.356595    0.115165    0.194267    0.333973    
0.272578    0.328963    0.125402    0.273057    
0.113254    0.373285    0.287554    0.225908    
0.093063    0.332315    0.228621    0.346002    
0.507753    0.163633    0.138507    0.190108    
0.137831    0.394177    0.118922    0.349070    
Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Alignment:
DBCDWHCTGGGTGGTCMDHBBAH
---KKTCGGKGTKS---------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 84		Motif name: TFW3

Original motif
0.117363    0.130225    0.654341    0.098071    
0.070740    0.929260    0.000000    0.000000    
0.779743    0.104502    0.000000    0.115756    
0.000000    0.916399    0.083601    0.000000    
0.127010    0.000000    0.000000    0.872990    
0.000000    0.000000    1.000000    0.000000    
Consensus sequence: GCACTG

Reserve complement motif
0.000000    1.000000    0.000000    0.000000    
0.872990    0.000000    0.000000    0.127010    
0.000000    0.083601    0.916399    0.000000    
0.115756    0.104502    0.000000    0.779743    
0.070740    0.000000    0.929260    0.000000    
0.117363    0.654341    0.130225    0.098071    
Consensus sequence: CAGTGC


************************************************************************ Best Matches for Motif ID 84 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_primary                      Reverse Complement                      Reverse Complement                      Forward        8              6              0.000000       

Species: Mus musculus

Original motif
0.401190    0.144405    0.268531    0.185874    
0.430224    0.168519    0.221247    0.180011    
0.172575    0.268499    0.274136    0.284789    
0.150971    0.297110    0.290868    0.261051    
0.133421    0.282842    0.434718    0.149019    
0.042798    0.941105    0.001785    0.014312    
0.890788    0.002551    0.103316    0.003345    
0.001887    0.951368    0.043722    0.003023    
0.011633    0.002218    0.002269    0.983880    
0.003597    0.003728    0.984819    0.007856    
0.002946    0.903520    0.072457    0.021077    
0.908487    0.057072    0.018256    0.016185    
0.076237    0.329864    0.228896    0.365003    
0.144926    0.162981    0.177370    0.514722    
0.124970    0.327876    0.295814    0.251341    
0.144592    0.313887    0.301912    0.239609    
0.108463    0.241747    0.350296    0.299494    
Consensus sequence: DDBBBCACTGCABTBBB

Reverse complement motif
0.108463    0.350296    0.241747    0.299494    
0.144592    0.301912    0.313887    0.239609    
0.124970    0.295814    0.327876    0.251341    
0.514722    0.162981    0.177370    0.144926    
0.365003    0.329864    0.228896    0.076237    
0.016185    0.057072    0.018256    0.908487    
0.002946    0.072457    0.903520    0.021077    
0.003597    0.984819    0.003728    0.007856    
0.983880    0.002218    0.002269    0.011633    
0.001887    0.043722    0.951368    0.003023    
0.003345    0.002551    0.103316    0.890788    
0.042798    0.001785    0.941105    0.014312    
0.133421    0.434718    0.282842    0.149019    
0.150971    0.290868    0.297110    0.261051    
0.284789    0.268499    0.274136    0.172575    
0.180011    0.168519    0.221247    0.430224    
0.185874    0.144405    0.268531    0.401190    
Consensus sequence: BBBAVTGCAGTGBBVDD

Alignment:
BBBAVTGCAGTGBBVDD
-------CAGTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00095        Zfp691_primary                     Reverse Complement                      Original Motif                          Backward       8              6              0.020963       

Species: Mus musculus

Original motif
0.099567    0.441928    0.195388    0.263117    
0.246130    0.144776    0.333677    0.275418    
0.313398    0.260626    0.161738    0.264239    
0.441985    0.199975    0.211839    0.146201    
0.122299    0.673789    0.078912    0.125000    
0.938960    0.009295    0.048527    0.003217    
0.003807    0.001797    0.985916    0.008480    
0.006543    0.001803    0.001788    0.989866    
0.014213    0.000681    0.981108    0.003998    
0.005018    0.989568    0.000804    0.004610    
0.001371    0.007539    0.002430    0.988659    
0.001686    0.992039    0.002898    0.003378    
0.516097    0.399155    0.057953    0.026795    
0.118858    0.390408    0.146017    0.344717    
0.306387    0.166100    0.132122    0.395391    
0.388407    0.129054    0.288224    0.194315    
0.308085    0.152185    0.160807    0.378924    
Consensus sequence: BDHVCAGTGCTCMBHDD

Reverse complement motif
0.378924    0.152185    0.160807    0.308085    
0.194315    0.129054    0.288224    0.388407    
0.395391    0.166100    0.132122    0.306387    
0.118858    0.146017    0.390408    0.344717    
0.026795    0.399155    0.057953    0.516097    
0.001686    0.002898    0.992039    0.003378    
0.988659    0.007539    0.002430    0.001371    
0.005018    0.000804    0.989568    0.004610    
0.014213    0.981108    0.000681    0.003998    
0.989866    0.001803    0.001788    0.006543    
0.003807    0.985916    0.001797    0.008480    
0.003217    0.009295    0.048527    0.938960    
0.122299    0.078912    0.673789    0.125000    
0.146201    0.199975    0.211839    0.441985    
0.264239    0.260626    0.161738    0.313398    
0.246130    0.333677    0.144776    0.275418    
0.099567    0.195388    0.441928    0.263117    
Consensus sequence: DDHBYGAGCACTGBHHB

Alignment:
BDHVCAGTGCTCMBHDD
----CAGTGC-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00031        Zbtb3_secondary                    Reverse Complement                      Reverse Complement                      Backward       4              6              0.024887       

Species: Mus musculus

Original motif
0.110412    0.519910    0.162398    0.207280    
0.470593    0.172893    0.115202    0.241311    
0.467126    0.160175    0.227365    0.145334    
0.196112    0.169855    0.079068    0.554965    
0.198275    0.671393    0.026094    0.104237    
0.793465    0.046739    0.110258    0.049538    
0.058204    0.867549    0.045603    0.028645    
0.079471    0.027484    0.025248    0.867797    
0.032277    0.065893    0.827417    0.074413    
0.080553    0.119144    0.585050    0.215253    
0.105106    0.470208    0.170921    0.253765    
0.690158    0.033925    0.171121    0.104796    
0.299543    0.155890    0.362586    0.181981    
0.343375    0.213360    0.180067    0.263198    
0.364819    0.149053    0.181128    0.305000    
0.247818    0.143948    0.217882    0.390352    
Consensus sequence: CHVTCACTGGBADHDD

Reverse complement motif
0.390352    0.143948    0.217882    0.247818    
0.305000    0.149053    0.181128    0.364819    
0.263198    0.213360    0.180067    0.343375    
0.299543    0.362586    0.155890    0.181981    
0.104796    0.033925    0.171121    0.690158    
0.105106    0.170921    0.470208    0.253765    
0.080553    0.585050    0.119144    0.215253    
0.032277    0.827417    0.065893    0.074413    
0.867797    0.027484    0.025248    0.079471    
0.058204    0.045603    0.867549    0.028645    
0.049538    0.046739    0.110258    0.793465    
0.198275    0.026094    0.671393    0.104237    
0.554965    0.169855    0.079068    0.196112    
0.145334    0.160175    0.227365    0.467126    
0.241311    0.172893    0.115202    0.470593    
0.110412    0.162398    0.519910    0.207280    
Consensus sequence: DDHHTBCCAGTGABHG

Alignment:
DDHHTBCCAGTGABHG
-------CAGTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00065        Zfp161_secondary                   Original Motif                          Reverse Complement                      Forward        3              6              0.030317       

Species: Mus musculus

Original motif
0.142646    0.070072    0.573757    0.213525    
0.142215    0.493588    0.067040    0.297157    
0.024280    0.923170    0.017567    0.034984    
0.015569    0.033118    0.937202    0.014111    
0.039447    0.888724    0.020074    0.051755    
0.016404    0.008157    0.963367    0.012073    
0.063620    0.860169    0.044753    0.031458    
0.787911    0.122939    0.024389    0.064761    
0.260517    0.103413    0.509585    0.126484    
0.203752    0.216621    0.251506    0.328121    
0.081075    0.040917    0.820854    0.057154    
0.096434    0.760303    0.054942    0.088321    
0.266016    0.190184    0.384583    0.159217    
0.223960    0.243225    0.228688    0.304127    
Consensus sequence: GYCGCGCARBGCVB

Reverse complement motif
0.304127    0.243225    0.228688    0.223960    
0.266016    0.384583    0.190184    0.159217    
0.096434    0.054942    0.760303    0.088321    
0.081075    0.820854    0.040917    0.057154    
0.328121    0.216621    0.251506    0.203752    
0.260517    0.509585    0.103413    0.126484    
0.064761    0.122939    0.024389    0.787911    
0.063620    0.044753    0.860169    0.031458    
0.016404    0.963367    0.008157    0.012073    
0.039447    0.020074    0.888724    0.051755    
0.015569    0.937202    0.033118    0.014111    
0.024280    0.017567    0.923170    0.034984    
0.142215    0.067040    0.493588    0.297157    
0.142646    0.573757    0.070072    0.213525    
Consensus sequence: VVGCVMTGCGCGKC

Alignment:
VVGCVMTGCGCGKC
--GCACTG------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00006        Zic3_secondary                     Reverse Complement                      Reverse Complement                      Backward       3              6              0.042059       

Species: Mus musculus

Original motif
0.225537    0.223459    0.280507    0.270498    
0.332396    0.181810    0.207290    0.278505    
0.309873    0.017922    0.386135    0.286070    
0.101947    0.871607    0.020267    0.006179    
0.541366    0.089100    0.242170    0.127364    
0.003307    0.969997    0.002414    0.024283    
0.903286    0.021590    0.015872    0.059253    
0.039887    0.009732    0.945083    0.005298    
0.001704    0.827209    0.006276    0.164810    
0.723052    0.003102    0.221051    0.052795    
0.011758    0.024398    0.560633    0.403211    
0.003656    0.012952    0.939586    0.043807    
0.477846    0.270399    0.113113    0.138642    
0.225706    0.298505    0.258523    0.217266    
0.365251    0.191780    0.197411    0.245557    
Consensus sequence: DDDCACAGCAKGHVD

Reverse complement motif
0.245557    0.191780    0.197411    0.365251    
0.225706    0.258523    0.298505    0.217266    
0.138642    0.270399    0.113113    0.477846    
0.003656    0.939586    0.012952    0.043807    
0.011758    0.560633    0.024398    0.403211    
0.052795    0.003102    0.221051    0.723052    
0.001704    0.006276    0.827209    0.164810    
0.039887    0.945083    0.009732    0.005298    
0.059253    0.021590    0.015872    0.903286    
0.003307    0.002414    0.969997    0.024283    
0.127364    0.089100    0.242170    0.541366    
0.101947    0.020267    0.871607    0.006179    
0.309873    0.386135    0.017922    0.286070    
0.278505    0.181810    0.207290    0.332396    
0.225537    0.280507    0.223459    0.270498    
Consensus sequence: DVHCYTGCTGTGHDH

Alignment:
DVHCYTGCTGTGHDH
-------CAGTGC--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00102        Zic1_secondary                     Original Motif                          Original Motif                          Forward        3              6              0.049908       

Species: Mus musculus

Original motif
0.161683    0.405114    0.171743    0.261460    
0.259478    0.357988    0.146793    0.235741    
0.371334    0.026439    0.283598    0.318630    
0.092229    0.883389    0.018758    0.005623    
0.419591    0.169874    0.253266    0.157270    
0.002985    0.976375    0.002722    0.017918    
0.909381    0.021357    0.013299    0.055963    
0.039418    0.007014    0.948302    0.005266    
0.001711    0.845894    0.005756    0.146640    
0.803792    0.003049    0.148687    0.044472    
0.015314    0.017153    0.680239    0.287294    
0.003793    0.011414    0.937403    0.047390    
0.431916    0.266291    0.144154    0.157638    
0.269331    0.239338    0.366817    0.124513    
0.395873    0.103980    0.214796    0.285351    
Consensus sequence: BHDCVCAGCAGGHVD

Reverse complement motif
0.285351    0.103980    0.214796    0.395873    
0.269331    0.366817    0.239338    0.124513    
0.157638    0.266291    0.144154    0.431916    
0.003793    0.937403    0.011414    0.047390    
0.015314    0.680239    0.017153    0.287294    
0.044472    0.003049    0.148687    0.803792    
0.001711    0.005756    0.845894    0.146640    
0.039418    0.948302    0.007014    0.005266    
0.055963    0.021357    0.013299    0.909381    
0.002985    0.002722    0.976375    0.017918    
0.157270    0.169874    0.253266    0.419591    
0.092229    0.018758    0.883389    0.005623    
0.318630    0.026439    0.283598    0.371334    
0.259478    0.146793    0.357988    0.235741    
0.161683    0.171743    0.405114    0.261460    
Consensus sequence: DVHCCTGCTGBGDDB

Alignment:
BHDCVCAGCAGGHVD
--GCACTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00231        Nkx2-2                             Reverse Complement                      Reverse Complement                      Forward        8              6              0.050767       

Species: Mus musculus

Original motif
0.299323    0.258429    0.141957    0.300291    
0.267631    0.143882    0.146933    0.441554    
0.482614    0.212022    0.233631    0.071733    
0.430836    0.073912    0.334439    0.160813    
0.124944    0.704331    0.166815    0.003910    
0.001941    0.876479    0.000828    0.120752    
0.920202    0.005985    0.000456    0.073357    
0.023544    0.974093    0.000859    0.001505    
0.005010    0.003098    0.001328    0.990564    
0.003250    0.198149    0.000490    0.798110    
0.134659    0.104976    0.753464    0.006901    
0.932490    0.000724    0.006140    0.060646    
0.504530    0.106203    0.360995    0.028271    
0.673257    0.074893    0.106536    0.145314    
0.356324    0.097610    0.230142    0.315924    
0.129483    0.188353    0.203623    0.478542    
0.289071    0.157675    0.231909    0.321345    
Consensus sequence: HDVRCCACTTGARADBD

Reverse complement motif
0.321345    0.157675    0.231909    0.289071    
0.478542    0.188353    0.203623    0.129483    
0.315924    0.097610    0.230142    0.356324    
0.145314    0.074893    0.106536    0.673257    
0.028271    0.106203    0.360995    0.504530    
0.060646    0.000724    0.006140    0.932490    
0.134659    0.753464    0.104976    0.006901    
0.798110    0.198149    0.000490    0.003250    
0.990564    0.003098    0.001328    0.005010    
0.023544    0.000859    0.974093    0.001505    
0.073357    0.005985    0.000456    0.920202    
0.001941    0.000828    0.876479    0.120752    
0.124944    0.166815    0.704331    0.003910    
0.160813    0.073912    0.334439    0.430836    
0.071733    0.212022    0.233631    0.482614    
0.441554    0.143882    0.146933    0.267631    
0.300291    0.258429    0.141957    0.299323    
Consensus sequence: DVDTKTCAAGTGGKBDH

Alignment:
DVDTKTCAAGTGGKBDH
-------CAGTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00107        Nkx2-4                             Reverse Complement                      Reverse Complement                      Backward       5              6              0.051932       

Species: Mus musculus

Original motif
0.275794    0.208450    0.159913    0.355844    
0.497677    0.116961    0.192392    0.192970    
0.631989    0.046840    0.128233    0.192937    
0.254344    0.174293    0.398254    0.173109    
0.093136    0.758419    0.133433    0.015012    
0.006001    0.821576    0.000980    0.171443    
0.849518    0.014712    0.000851    0.134919    
0.021811    0.974976    0.001053    0.002160    
0.003203    0.004826    0.002014    0.989957    
0.006614    0.218026    0.000597    0.774763    
0.279108    0.177972    0.527161    0.015759    
0.886451    0.002536    0.025740    0.085273    
0.428825    0.384523    0.148566    0.038086    
0.510791    0.162011    0.044233    0.282965    
0.225089    0.190300    0.047629    0.536981    
0.135904    0.254965    0.051167    0.557964    
Consensus sequence: HDAVCCACTTRAMWTT

Reverse complement motif
0.557964    0.254965    0.051167    0.135904    
0.536981    0.190300    0.047629    0.225089    
0.282965    0.162011    0.044233    0.510791    
0.038086    0.384523    0.148566    0.428825    
0.085273    0.002536    0.025740    0.886451    
0.279108    0.527161    0.177972    0.015759    
0.774763    0.218026    0.000597    0.006614    
0.989957    0.004826    0.002014    0.003203    
0.021811    0.001053    0.974976    0.002160    
0.134919    0.014712    0.000851    0.849518    
0.006001    0.000980    0.821576    0.171443    
0.093136    0.133433    0.758419    0.015012    
0.254344    0.398254    0.174293    0.173109    
0.192937    0.046840    0.128233    0.631989    
0.192970    0.116961    0.192392    0.497677    
0.355844    0.208450    0.159913    0.275794    
Consensus sequence: AAWYTMAAGTGGVTDH

Alignment:
AAWYTMAAGTGGVTDH
------CAGTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_2205.1                      Reverse Complement                      Reverse Complement                      Forward        9              6              0.053048       

Species: Mus musculus

Original motif
0.504898    0.140204    0.135418    0.219480    
0.282348    0.244881    0.300572    0.172199    
0.183939    0.100670    0.384783    0.330608    
0.326709    0.269523    0.194043    0.209724    
0.142989    0.557393    0.066826    0.232792    
0.038356    0.014052    0.932450    0.015142    
0.092102    0.778844    0.125082    0.003972    
0.010254    0.001252    0.005231    0.983263    
0.033486    0.000891    0.947486    0.018137    
0.005360    0.007407    0.003729    0.983504    
0.603485    0.007179    0.003482    0.385853    
0.798026    0.029788    0.032370    0.139816    
0.529622    0.100632    0.016507    0.353238    
0.243581    0.126094    0.401402    0.228923    
0.207484    0.285456    0.353715    0.153346    
0.282413    0.188410    0.441463    0.087715    
0.422774    0.152965    0.094106    0.330155    
Consensus sequence: AVDHCGCTGTWAWDVVW

Reverse complement motif
0.330155    0.152965    0.094106    0.422774    
0.282413    0.441463    0.188410    0.087715    
0.207484    0.353715    0.285456    0.153346    
0.243581    0.401402    0.126094    0.228923    
0.353238    0.100632    0.016507    0.529622    
0.139816    0.029788    0.032370    0.798026    
0.385853    0.007179    0.003482    0.603485    
0.983504    0.007407    0.003729    0.005360    
0.033486    0.947486    0.000891    0.018137    
0.983263    0.001252    0.005231    0.010254    
0.092102    0.125082    0.778844    0.003972    
0.038356    0.932450    0.014052    0.015142    
0.142989    0.066826    0.557393    0.232792    
0.209724    0.269523    0.194043    0.326709    
0.183939    0.384783    0.100670    0.330608    
0.282348    0.300572    0.244881    0.172199    
0.219480    0.140204    0.135418    0.504898    
Consensus sequence: WVVHWTWACAGCGHHVT

Alignment:
WVVHWTWACAGCGHHVT
--------CAGTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00057        Zic2_secondary                     Original Motif                          Original Motif                          Backward       8              6              0.053907       

Species: Mus musculus

Original motif
0.201522    0.336845    0.183740    0.277892    
0.238705    0.354378    0.165332    0.241585    
0.350858    0.031427    0.308482    0.309233    
0.104423    0.870794    0.018676    0.006107    
0.313246    0.259944    0.277570    0.149241    
0.003590    0.973377    0.002520    0.020513    
0.899716    0.025489    0.015458    0.059336    
0.049224    0.006415    0.938214    0.006147    
0.002021    0.859631    0.007903    0.130445    
0.772818    0.002659    0.187334    0.037190    
0.008456    0.015170    0.594695    0.381679    
0.004118    0.009188    0.961506    0.025188    
0.367151    0.230955    0.204475    0.197419    
0.267508    0.193660    0.430070    0.108762    
0.444449    0.099127    0.212182    0.244241    
Consensus sequence: HHDCVCAGCAKGVVD

Reverse complement motif
0.244241    0.099127    0.212182    0.444449    
0.267508    0.430070    0.193660    0.108762    
0.197419    0.230955    0.204475    0.367151    
0.004118    0.961506    0.009188    0.025188    
0.008456    0.594695    0.015170    0.381679    
0.037190    0.002659    0.187334    0.772818    
0.002021    0.007903    0.859631    0.130445    
0.049224    0.938214    0.006415    0.006147    
0.059336    0.025489    0.015458    0.899716    
0.003590    0.002520    0.973377    0.020513    
0.149241    0.259944    0.277570    0.313246    
0.104423    0.018676    0.870794    0.006107    
0.309233    0.031427    0.308482    0.350858    
0.238705    0.165332    0.354378    0.241585    
0.201522    0.183740    0.336845    0.277892    
Consensus sequence: DVBCYTGCTGBGDDD

Alignment:
HHDCVCAGCAKGVVD
--GCACTG-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 85		Motif name: TFW1

Original motif
0.000000    0.000000    0.025000    0.975000    
0.000000    0.000000    0.000000    1.000000    
0.100000    0.025000    0.825000    0.050000    
0.150000    0.625000    0.050000    0.175000    
0.175000    0.050000    0.625000    0.150000    
0.050000    0.825000    0.025000    0.100000    
1.000000    0.000000    0.000000    0.000000    
0.975000    0.025000    0.000000    0.000000    
Consensus sequence: TTGCGCAA

Reserve complement motif
0.000000    0.025000    0.000000    0.975000    
0.000000    0.000000    0.000000    1.000000    
0.050000    0.025000    0.825000    0.100000    
0.175000    0.625000    0.050000    0.150000    
0.150000    0.050000    0.625000    0.175000    
0.100000    0.825000    0.025000    0.050000    
1.000000    0.000000    0.000000    0.000000    
0.975000    0.000000    0.025000    0.000000    
Consensus sequence: TTGCGCAA


************************************************************************ Best Matches for Motif ID 85 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00045        Mafb_secondary                     Original Motif                          Reverse Complement                      Forward        5              8              0.009570       

Species: Mus musculus

Original motif
0.252282    0.327541    0.191496    0.228681    
0.414891    0.181997    0.235538    0.167574    
0.369812    0.192315    0.212893    0.224980    
0.081917    0.107880    0.138544    0.671658    
0.047759    0.100595    0.120673    0.730973    
0.047381    0.062772    0.828041    0.061806    
0.072158    0.761630    0.036201    0.130011    
0.864499    0.033229    0.075644    0.026628    
0.582375    0.061546    0.165161    0.190919    
0.759130    0.069223    0.042608    0.129039    
0.876128    0.026080    0.044094    0.053698    
0.591029    0.038029    0.042683    0.328259    
0.386455    0.121389    0.078693    0.413463    
0.325396    0.158893    0.282102    0.233609    
0.218806    0.187059    0.151824    0.442312    
Consensus sequence: HVDTTGCAAAAWWDH

Reverse complement motif
0.442312    0.187059    0.151824    0.218806    
0.233609    0.158893    0.282102    0.325396    
0.413463    0.121389    0.078693    0.386455    
0.328259    0.038029    0.042683    0.591029    
0.053698    0.026080    0.044094    0.876128    
0.129039    0.069223    0.042608    0.759130    
0.190919    0.061546    0.165161    0.582375    
0.026628    0.033229    0.075644    0.864499    
0.072158    0.036201    0.761630    0.130011    
0.047381    0.828041    0.062772    0.061806    
0.730973    0.100595    0.120673    0.047759    
0.671658    0.107880    0.138544    0.081917    
0.224980    0.192315    0.212893    0.369812    
0.167574    0.181997    0.235538    0.414891    
0.252282    0.191496    0.327541    0.228681    
Consensus sequence: HDWWTTTTGCAADBD

Alignment:
HDWWTTTTGCAADBD
----TTGCGCAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00097        Mtf1_primary                       Original Motif                          Original Motif                          Backward       4              8              0.018462       

Species: Mus musculus

Original motif
0.220880    0.102939    0.418146    0.258035    
0.154303    0.210788    0.420671    0.214238    
0.229141    0.160788    0.412818    0.197253    
0.167193    0.404248    0.092489    0.336070    
0.025978    0.931335    0.023830    0.018857    
0.009150    0.002023    0.977342    0.011485    
0.044768    0.024113    0.039091    0.892028    
0.007577    0.008370    0.973767    0.010286    
0.005251    0.264996    0.004018    0.725735    
0.009165    0.002428    0.980566    0.007841    
0.021296    0.956027    0.008893    0.013784    
0.982532    0.003341    0.005773    0.008353    
0.500983    0.226027    0.143944    0.129045    
0.544466    0.285936    0.044719    0.124879    
0.321158    0.168428    0.261827    0.248587    
0.271460    0.263221    0.199083    0.266236    
Consensus sequence: DBDHCGTGTGCAAMDH

Reverse complement motif
0.266236    0.263221    0.199083    0.271460    
0.248587    0.168428    0.261827    0.321158    
0.124879    0.285936    0.044719    0.544466    
0.129045    0.226027    0.143944    0.500983    
0.008353    0.003341    0.005773    0.982532    
0.021296    0.008893    0.956027    0.013784    
0.009165    0.980566    0.002428    0.007841    
0.725735    0.264996    0.004018    0.005251    
0.007577    0.973767    0.008370    0.010286    
0.892028    0.024113    0.039091    0.044768    
0.009150    0.977342    0.002023    0.011485    
0.025978    0.023830    0.931335    0.018857    
0.167193    0.092489    0.404248    0.336070    
0.229141    0.412818    0.160788    0.197253    
0.154303    0.420671    0.210788    0.214238    
0.220880    0.418146    0.102939    0.258035    
Consensus sequence: HDYTTGCACACGDHBH

Alignment:
DBDHCGTGTGCAAMDH
-----TTGCGCAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00259        Hoxb6                              Original Motif                          Original Motif                          Backward       8              8              0.022600       

Species: Mus musculus

Original motif
0.285750    0.141861    0.055341    0.517047    
0.548840    0.096589    0.075248    0.279324    
0.181874    0.041138    0.180661    0.596326    
0.176788    0.096024    0.346904    0.380283    
0.171188    0.295681    0.330641    0.202489    
0.074696    0.111978    0.671994    0.141332    
0.022223    0.197771    0.015214    0.764793    
0.833470    0.118870    0.018756    0.028904    
0.953513    0.012047    0.011588    0.022853    
0.022853    0.011588    0.012047    0.953513    
0.028904    0.018756    0.118870    0.833470    
0.764793    0.015214    0.197771    0.022223    
0.112355    0.737510    0.058135    0.092001    
0.202489    0.330641    0.295681    0.171188    
0.257218    0.134472    0.290939    0.317371    
0.178633    0.246536    0.240081    0.334751    
Consensus sequence: WWTDBGTAATTACVDB

Reverse complement motif
0.334751    0.246536    0.240081    0.178633    
0.317371    0.134472    0.290939    0.257218    
0.202489    0.295681    0.330641    0.171188    
0.112355    0.058135    0.737510    0.092001    
0.022223    0.015214    0.197771    0.764793    
0.833470    0.018756    0.118870    0.028904    
0.953513    0.011588    0.012047    0.022853    
0.022853    0.012047    0.011588    0.953513    
0.028904    0.118870    0.018756    0.833470    
0.764793    0.197771    0.015214    0.022223    
0.074696    0.671994    0.111978    0.141332    
0.171188    0.330641    0.295681    0.202489    
0.380283    0.096024    0.346904    0.176788    
0.596326    0.041138    0.180661    0.181874    
0.279324    0.096589    0.075248    0.548840    
0.517047    0.141861    0.055341    0.285750    
Consensus sequence: VDVGTAATTACBDAWW

Alignment:
WWTDBGTAATTACVDB
-TTGCGCAA-------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Original Motif                          Reverse Complement                      Forward        6              8              0.023996       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
DCATDBTGHGCATKMTTBRSWR
-----TTGCGCAA---------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00035        Hic1_secondary                     Reverse Complement                      Reverse Complement                      Backward       5              8              0.026147       

Species: Mus musculus

Original motif
0.204898    0.149951    0.363373    0.281778    
0.112946    0.243700    0.437938    0.205417    
0.205232    0.182319    0.383143    0.229305    
0.242063    0.152491    0.296426    0.309020    
0.312922    0.028523    0.585026    0.073529    
0.006754    0.011178    0.005346    0.976723    
0.127589    0.005562    0.859436    0.007414    
0.010046    0.974694    0.007001    0.008259    
0.010262    0.974769    0.006069    0.008899    
0.015122    0.966101    0.007970    0.010807    
0.556511    0.167389    0.114635    0.161465    
0.586459    0.044786    0.073450    0.295305    
0.297710    0.194666    0.223655    0.283969    
0.303202    0.250809    0.206475    0.239514    
0.279338    0.160655    0.314457    0.245550    
0.266477    0.266890    0.299970    0.166662    
Consensus sequence: DBDDRTGCCCAWDHDV

Reverse complement motif
0.266477    0.299970    0.266890    0.166662    
0.279338    0.314457    0.160655    0.245550    
0.239514    0.250809    0.206475    0.303202    
0.283969    0.194666    0.223655    0.297710    
0.295305    0.044786    0.073450    0.586459    
0.161465    0.167389    0.114635    0.556511    
0.015122    0.007970    0.966101    0.010807    
0.010262    0.006069    0.974769    0.008899    
0.010046    0.007001    0.974694    0.008259    
0.127589    0.859436    0.005562    0.007414    
0.976723    0.011178    0.005346    0.006754    
0.312922    0.585026    0.028523    0.073529    
0.309020    0.152491    0.296426    0.242063    
0.205232    0.383143    0.182319    0.229305    
0.112946    0.437938    0.243700    0.205417    
0.204898    0.363373    0.149951    0.281778    
Consensus sequence: VHHDWTGGGCAMDHBH

Alignment:
VHHDWTGGGCAMDHBH
----TTGCGCAA----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00004        Sox14_secondary                    Original Motif                          Original Motif                          Forward        2              8              0.027231       

Species: Mus musculus

Original motif
0.191264    0.345487    0.212142    0.251106    
0.105033    0.130838    0.338939    0.425191    
0.126539    0.333031    0.233364    0.307066    
0.641901    0.114039    0.195933    0.048127    
0.153349    0.532437    0.272427    0.041786    
0.934680    0.009395    0.019668    0.036257    
0.013611    0.927298    0.037729    0.021361    
0.964293    0.018416    0.006724    0.010568    
0.962181    0.018004    0.014592    0.005223    
0.229593    0.016301    0.007632    0.746474    
0.268456    0.030092    0.519349    0.182102    
0.201484    0.107350    0.588833    0.102334    
0.253726    0.259057    0.242924    0.244293    
0.168663    0.203061    0.347898    0.280378    
0.175853    0.339716    0.301724    0.182707    
Consensus sequence: BKBASACAATRGHBB

Reverse complement motif
0.175853    0.301724    0.339716    0.182707    
0.168663    0.347898    0.203061    0.280378    
0.253726    0.242924    0.259057    0.244293    
0.201484    0.588833    0.107350    0.102334    
0.268456    0.519349    0.030092    0.182102    
0.746474    0.016301    0.007632    0.229593    
0.005223    0.018004    0.014592    0.962181    
0.010568    0.018416    0.006724    0.964293    
0.013611    0.037729    0.927298    0.021361    
0.036257    0.009395    0.019668    0.934680    
0.153349    0.272427    0.532437    0.041786    
0.048127    0.114039    0.195933    0.641901    
0.126539    0.233364    0.333031    0.307066    
0.425191    0.130838    0.338939    0.105033    
0.191264    0.212142    0.345487    0.251106    
Consensus sequence: BBDCMATTGTSTBRB

Alignment:
BKBASACAATRGHBB
-TTGCGCAA------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00055        Hbp1_secondary                     Original Motif                          Reverse Complement                      Backward       9              8              0.027878       

Species: Mus musculus

Original motif
0.313621    0.149049    0.200899    0.336432    
0.262644    0.147616    0.334882    0.254859    
0.175848    0.137857    0.292272    0.394023    
0.045910    0.364107    0.180535    0.409448    
0.093235    0.718630    0.093516    0.094619    
0.095552    0.724866    0.044589    0.134993    
0.058227    0.785149    0.029814    0.126810    
0.897368    0.023735    0.019064    0.059832    
0.043826    0.041750    0.020731    0.893692    
0.044268    0.013557    0.014689    0.927487    
0.102208    0.026005    0.709573    0.162214    
0.058404    0.046118    0.135257    0.760221    
0.303689    0.280676    0.320259    0.095375    
0.258633    0.262177    0.197029    0.282161    
0.564761    0.122466    0.194691    0.118082    
0.104738    0.358061    0.310533    0.226668    
0.267450    0.230099    0.197859    0.304593    
Consensus sequence: DDDYCCCATTGTVHABH

Reverse complement motif
0.304593    0.230099    0.197859    0.267450    
0.104738    0.310533    0.358061    0.226668    
0.118082    0.122466    0.194691    0.564761    
0.282161    0.262177    0.197029    0.258633    
0.303689    0.320259    0.280676    0.095375    
0.760221    0.046118    0.135257    0.058404    
0.102208    0.709573    0.026005    0.162214    
0.927487    0.013557    0.014689    0.044268    
0.893692    0.041750    0.020731    0.043826    
0.059832    0.023735    0.019064    0.897368    
0.058227    0.029814    0.785149    0.126810    
0.095552    0.044589    0.724866    0.134993    
0.093235    0.093516    0.718630    0.094619    
0.409448    0.364107    0.180535    0.045910    
0.394023    0.137857    0.292272    0.175848    
0.262644    0.334882    0.147616    0.254859    
0.336432    0.149049    0.200899    0.313621    
Consensus sequence: HBTHVACAATGGGMDHD

Alignment:
HBTHVACAATGGGMDHD
-TTGCGCAA--------

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00138        Bsx                                Original Motif                          Original Motif                          Forward        8              8              0.028162       

Species: Mus musculus

Original motif
0.300810    0.361653    0.277518    0.060019    
0.415580    0.269576    0.248677    0.066167    
0.276307    0.071112    0.495444    0.157137    
0.205201    0.128060    0.449377    0.217362    
0.005975    0.454761    0.000446    0.538819    
0.923080    0.052108    0.022468    0.002344    
0.980320    0.011144    0.004548    0.003988    
0.003988    0.004548    0.011144    0.980320    
0.002344    0.022468    0.052108    0.923080    
0.538819    0.000446    0.454761    0.005975    
0.198577    0.320840    0.276798    0.203784    
0.157137    0.495444    0.071112    0.276307    
0.138722    0.188316    0.180010    0.492952    
0.211637    0.368966    0.311498    0.107899    
0.746067    0.051554    0.127512    0.074866    
0.287674    0.124689    0.315447    0.272190    
Consensus sequence: VVRDYAATTRBYBVAD

Reverse complement motif
0.287674    0.315447    0.124689    0.272190    
0.074866    0.051554    0.127512    0.746067    
0.211637    0.311498    0.368966    0.107899    
0.492952    0.188316    0.180010    0.138722    
0.157137    0.071112    0.495444    0.276307    
0.198577    0.276798    0.320840    0.203784    
0.005975    0.000446    0.454761    0.538819    
0.923080    0.022468    0.052108    0.002344    
0.980320    0.004548    0.011144    0.003988    
0.003988    0.011144    0.004548    0.980320    
0.002344    0.052108    0.022468    0.923080    
0.538819    0.454761    0.000446    0.005975    
0.205201    0.449377    0.128060    0.217362    
0.276307    0.495444    0.071112    0.157137    
0.066167    0.269576    0.248677    0.415580    
0.300810    0.277518    0.361653    0.060019    
Consensus sequence: HTVVKBKAATTMHMBV

Alignment:
VVRDYAATTRBYBVAD
-------TTGCGCAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00126        Dlx2                               Original Motif                          Original Motif                          Backward       2              8              0.030109       

Species: Mus musculus

Original motif
0.325237    0.286661    0.343859    0.044243    
0.268070    0.236142    0.380964    0.114824    
0.314889    0.078265    0.310443    0.296403    
0.488521    0.091236    0.312895    0.107348    
0.011042    0.293634    0.000384    0.694940    
0.974839    0.008852    0.008637    0.007673    
0.979637    0.003933    0.001610    0.014820    
0.014820    0.001610    0.003933    0.979637    
0.007673    0.008637    0.008852    0.974839    
0.694940    0.000384    0.293634    0.011042    
0.081356    0.369572    0.282530    0.266541    
0.296403    0.310443    0.078265    0.314889    
0.177909    0.317594    0.080845    0.423652    
0.254519    0.435683    0.118544    0.191255    
0.618085    0.106442    0.153195    0.122279    
0.172720    0.190763    0.450827    0.185690    
Consensus sequence: VVDRTAATTABHHHAB

Reverse complement motif
0.172720    0.450827    0.190763    0.185690    
0.122279    0.106442    0.153195    0.618085    
0.254519    0.118544    0.435683    0.191255    
0.423652    0.317594    0.080845    0.177909    
0.314889    0.310443    0.078265    0.296403    
0.081356    0.282530    0.369572    0.266541    
0.011042    0.000384    0.293634    0.694940    
0.974839    0.008637    0.008852    0.007673    
0.979637    0.001610    0.003933    0.014820    
0.014820    0.003933    0.001610    0.979637    
0.007673    0.008852    0.008637    0.974839    
0.694940    0.293634    0.000384    0.011042    
0.107348    0.091236    0.312895    0.488521    
0.296403    0.078265    0.310443    0.314889    
0.268070    0.380964    0.236142    0.114824    
0.325237    0.343859    0.286661    0.044243    
Consensus sequence: BTDHHBTAATTAKDVV

Alignment:
VVDRTAATTABHHHAB
-------TTGCGCAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00182        Hoxa6                              Original Motif                          Original Motif                          Backward       2              8              0.030852       

Species: Mus musculus

Original motif
0.583501    0.146680    0.197544    0.072276    
0.427857    0.353560    0.089642    0.128941    
0.195697    0.096442    0.593720    0.114140    
0.189276    0.048267    0.483269    0.279188    
0.005990    0.090620    0.000813    0.902576    
0.949399    0.035300    0.001844    0.013457    
0.984085    0.006313    0.001863    0.007739    
0.007739    0.001863    0.006313    0.984085    
0.013457    0.001844    0.035300    0.949399    
0.902576    0.000813    0.090620    0.005990    
0.152255    0.677055    0.087732    0.082958    
0.114140    0.593720    0.096442    0.195697    
0.234649    0.271494    0.063511    0.430347    
0.334155    0.324603    0.120490    0.220751    
0.602114    0.075922    0.081032    0.240932    
0.219592    0.167291    0.277257    0.335860    
Consensus sequence: AMGKTAATTACCHHAD

Reverse complement motif
0.335860    0.167291    0.277257    0.219592    
0.240932    0.075922    0.081032    0.602114    
0.220751    0.324603    0.120490    0.334155    
0.430347    0.271494    0.063511    0.234649    
0.114140    0.096442    0.593720    0.195697    
0.152255    0.087732    0.677055    0.082958    
0.005990    0.000813    0.090620    0.902576    
0.949399    0.001844    0.035300    0.013457    
0.984085    0.001863    0.006313    0.007739    
0.007739    0.006313    0.001863    0.984085    
0.013457    0.035300    0.001844    0.949399    
0.902576    0.090620    0.000813    0.005990    
0.189276    0.483269    0.048267    0.279188    
0.195697    0.593720    0.096442    0.114140    
0.128941    0.353560    0.089642    0.427857    
0.072276    0.146680    0.197544    0.583501    
Consensus sequence: DTHHGGTAATTAYCYT

Alignment:
AMGKTAATTACCHHAD
-------TTGCGCAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 86		Motif name: TFW2

Original motif
0.222222    0.444444    0.000000    0.333333    
0.000000    0.000000    0.888889    0.111111    
0.000000    0.000000    1.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.111111    0.000000    0.888889    
0.888889    0.000000    0.111111    0.000000    
0.222222    0.666667    0.111111    0.000000    
0.000000    0.333333    0.666667    0.000000    
Consensus sequence: YGGACTTACG

Reserve complement motif
0.000000    0.666667    0.333333    0.000000    
0.222222    0.111111    0.666667    0.000000    
0.000000    0.000000    0.111111    0.888889    
0.888889    0.111111    0.000000    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.000000    1.000000    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.000000    1.000000    0.000000    0.000000    
0.000000    0.888889    0.000000    0.111111    
0.222222    0.000000    0.444444    0.333333    
Consensus sequence: CGTAAGTCCK


************************************************************************ Best Matches for Motif ID 86 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00066        Hnf4a_secondary                    Original Motif                          Reverse Complement                      Forward        5              10             0.000000       

Species: Mus musculus

Original motif
0.131680    0.169949    0.346277    0.352094    
0.109910    0.144258    0.373681    0.372151    
0.196671    0.411335    0.159689    0.232305    
0.311086    0.307077    0.122332    0.259505    
0.895155    0.013238    0.038874    0.052733    
0.779629    0.018399    0.171269    0.030703    
0.950546    0.002649    0.041825    0.004980    
0.004769    0.002646    0.985847    0.006739    
0.004458    0.002117    0.012011    0.981414    
0.016789    0.969626    0.003890    0.009695    
0.002468    0.982852    0.004754    0.009926    
0.891448    0.003193    0.097548    0.007811    
0.513330    0.308971    0.070467    0.107232    
0.179371    0.115514    0.130898    0.574217    
0.285826    0.277536    0.166982    0.269655    
0.319407    0.227783    0.129020    0.323790    
Consensus sequence: BBHHAAAGTCCAMTHH

Reverse complement motif
0.323790    0.227783    0.129020    0.319407    
0.269655    0.277536    0.166982    0.285826    
0.574217    0.115514    0.130898    0.179371    
0.107232    0.308971    0.070467    0.513330    
0.007811    0.003193    0.097548    0.891448    
0.002468    0.004754    0.982852    0.009926    
0.016789    0.003890    0.969626    0.009695    
0.981414    0.002117    0.012011    0.004458    
0.004769    0.985847    0.002646    0.006739    
0.004980    0.002649    0.041825    0.950546    
0.030703    0.018399    0.171269    0.779629    
0.052733    0.013238    0.038874    0.895155    
0.259505    0.307077    0.122332    0.311086    
0.196671    0.159689    0.411335    0.232305    
0.109910    0.373681    0.144258    0.372151    
0.352094    0.169949    0.346277    0.131680    
Consensus sequence: HHAYTGGACTTTHDBV

Alignment:
HHAYTGGACTTTHDBV
----YGGACTTACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00259        Hoxb6                              Original Motif                          Reverse Complement                      Backward       5              10             0.013327       

Species: Mus musculus

Original motif
0.285750    0.141861    0.055341    0.517047    
0.548840    0.096589    0.075248    0.279324    
0.181874    0.041138    0.180661    0.596326    
0.176788    0.096024    0.346904    0.380283    
0.171188    0.295681    0.330641    0.202489    
0.074696    0.111978    0.671994    0.141332    
0.022223    0.197771    0.015214    0.764793    
0.833470    0.118870    0.018756    0.028904    
0.953513    0.012047    0.011588    0.022853    
0.022853    0.011588    0.012047    0.953513    
0.028904    0.018756    0.118870    0.833470    
0.764793    0.015214    0.197771    0.022223    
0.112355    0.737510    0.058135    0.092001    
0.202489    0.330641    0.295681    0.171188    
0.257218    0.134472    0.290939    0.317371    
0.178633    0.246536    0.240081    0.334751    
Consensus sequence: WWTDBGTAATTACVDB

Reverse complement motif
0.334751    0.246536    0.240081    0.178633    
0.317371    0.134472    0.290939    0.257218    
0.202489    0.295681    0.330641    0.171188    
0.112355    0.058135    0.737510    0.092001    
0.022223    0.015214    0.197771    0.764793    
0.833470    0.018756    0.118870    0.028904    
0.953513    0.011588    0.012047    0.022853    
0.022853    0.012047    0.011588    0.953513    
0.028904    0.118870    0.018756    0.833470    
0.764793    0.197771    0.015214    0.022223    
0.074696    0.671994    0.111978    0.141332    
0.171188    0.330641    0.295681    0.202489    
0.380283    0.096024    0.346904    0.176788    
0.596326    0.041138    0.180661    0.181874    
0.279324    0.096589    0.075248    0.548840    
0.517047    0.141861    0.055341    0.285750    
Consensus sequence: VDVGTAATTACBDAWW

Alignment:
VDVGTAATTACBDAWW
--YGGACTTACG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00228        Bapx1                              Reverse Complement                      Reverse Complement                      Backward       5              10             0.014535       

Species: Mus musculus

Original motif
0.301697    0.347856    0.239075    0.111372    
0.364458    0.225587    0.074842    0.335112    
0.228472    0.141747    0.139010    0.490770    
0.559532    0.164793    0.197557    0.078118    
0.506611    0.130882    0.113226    0.249281    
0.054222    0.680706    0.257913    0.007160    
0.001978    0.899030    0.000622    0.098369    
0.950561    0.002121    0.000888    0.046429    
0.037529    0.960534    0.000660    0.001278    
0.001571    0.005538    0.001403    0.991487    
0.001274    0.052527    0.000520    0.945679    
0.926306    0.006886    0.003823    0.062985    
0.638246    0.038639    0.145042    0.178072    
0.266452    0.337698    0.283972    0.111878    
0.307019    0.250170    0.243307    0.199504    
0.550380    0.190997    0.122920    0.135703    
0.187982    0.330356    0.168897    0.312765    
Consensus sequence: VHHAACCACTTAAVVAH

Reverse complement motif
0.187982    0.168897    0.330356    0.312765    
0.135703    0.190997    0.122920    0.550380    
0.199504    0.250170    0.243307    0.307019    
0.266452    0.283972    0.337698    0.111878    
0.178072    0.038639    0.145042    0.638246    
0.062985    0.006886    0.003823    0.926306    
0.945679    0.052527    0.000520    0.001274    
0.991487    0.005538    0.001403    0.001571    
0.037529    0.000660    0.960534    0.001278    
0.046429    0.002121    0.000888    0.950561    
0.001978    0.000622    0.899030    0.098369    
0.054222    0.257913    0.680706    0.007160    
0.249281    0.130882    0.113226    0.506611    
0.078118    0.164793    0.197557    0.559532    
0.490770    0.141747    0.139010    0.228472    
0.335112    0.225587    0.074842    0.364458    
0.301697    0.239075    0.347856    0.111372    
Consensus sequence: DTBVTTAAGTGGTTHHV

Alignment:
DTBVTTAAGTGGTTHHV
---CGTAAGTCCK----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00190        Nkx2-3                             Reverse Complement                      Reverse Complement                      Backward       6              10             0.016742       

Species: Mus musculus

Original motif
0.112665    0.429746    0.074033    0.383556    
0.100414    0.366064    0.135644    0.397877    
0.083598    0.139792    0.093637    0.682973    
0.157091    0.151456    0.101963    0.589490    
0.804069    0.003353    0.166845    0.025733    
0.880173    0.006767    0.091214    0.021845    
0.009561    0.018555    0.963617    0.008268    
0.001409    0.250669    0.002497    0.745425    
0.745425    0.002497    0.250669    0.001409    
0.008268    0.963617    0.018555    0.009561    
0.021845    0.091214    0.006767    0.880173    
0.025733    0.166845    0.003353    0.804069    
0.534325    0.173500    0.200024    0.092151    
0.581546    0.078557    0.226846    0.113051    
0.210085    0.208523    0.190951    0.390441    
0.231700    0.168938    0.404360    0.195002    
Consensus sequence: YYTTAAGTACTTAAHD

Reverse complement motif
0.231700    0.404360    0.168938    0.195002    
0.390441    0.208523    0.190951    0.210085    
0.113051    0.078557    0.226846    0.581546    
0.092151    0.173500    0.200024    0.534325    
0.804069    0.166845    0.003353    0.025733    
0.880173    0.091214    0.006767    0.021845    
0.008268    0.018555    0.963617    0.009561    
0.001409    0.002497    0.250669    0.745425    
0.745425    0.250669    0.002497    0.001409    
0.009561    0.963617    0.018555    0.008268    
0.021845    0.006767    0.091214    0.880173    
0.025733    0.003353    0.166845    0.804069    
0.589490    0.151456    0.101963    0.157091    
0.682973    0.139792    0.093637    0.083598    
0.397877    0.366064    0.135644    0.100414    
0.112665    0.074033    0.429746    0.383556    
Consensus sequence: HHTTAAGTACTTAAMK

Alignment:
HHTTAAGTACTTAAMK
-CGTAAGTCCK-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00389        Nkx3-1                             Reverse Complement                      Reverse Complement                      Forward        3              10             0.020167       

Species: Mus musculus

Original motif
0.230343    0.129202    0.214468    0.425986    
0.359358    0.121340    0.162570    0.356732    
0.227575    0.345211    0.162386    0.264827    
0.285383    0.076814    0.227804    0.409998    
0.760754    0.004039    0.216886    0.018321    
0.850903    0.006399    0.121474    0.021224    
0.007291    0.042579    0.943324    0.006806    
0.001583    0.137946    0.005502    0.854969    
0.854969    0.005502    0.137946    0.001583    
0.006806    0.943324    0.042579    0.007291    
0.021224    0.121474    0.006399    0.850903    
0.018321    0.216886    0.004039    0.760754    
0.691606    0.099604    0.051045    0.157745    
0.629431    0.051419    0.224807    0.094342    
0.570121    0.143534    0.137491    0.148853    
0.303064    0.084741    0.174009    0.438186    
0.202801    0.252788    0.303231    0.241180    
Consensus sequence: DDHDAAGTACTTAAADB

Reverse complement motif
0.202801    0.303231    0.252788    0.241180    
0.438186    0.084741    0.174009    0.303064    
0.148853    0.143534    0.137491    0.570121    
0.094342    0.051419    0.224807    0.629431    
0.157745    0.099604    0.051045    0.691606    
0.760754    0.216886    0.004039    0.018321    
0.850903    0.121474    0.006399    0.021224    
0.006806    0.042579    0.943324    0.007291    
0.001583    0.005502    0.137946    0.854969    
0.854969    0.137946    0.005502    0.001583    
0.007291    0.943324    0.042579    0.006806    
0.021224    0.006399    0.121474    0.850903    
0.018321    0.004039    0.216886    0.760754    
0.409998    0.076814    0.227804    0.285383    
0.227575    0.162386    0.345211    0.264827    
0.356732    0.121340    0.162570    0.359358    
0.425986    0.129202    0.214468    0.230343    
Consensus sequence: BDTTTAAGTACTTDDDD

Alignment:
BDTTTAAGTACTTDDDD
--CGTAAGTCCK-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00418        Etv6                               Original Motif                          Reverse Complement                      Forward        6              10             0.020661       

Species: Mus musculus

Original motif
0.354972    0.069107    0.299350    0.276571    
0.209701    0.408003    0.227382    0.154914    
0.284336    0.375266    0.162604    0.177794    
0.176569    0.181438    0.342172    0.299820    
0.106551    0.204378    0.060299    0.628772    
0.884088    0.003252    0.103113    0.009546    
0.001110    0.704391    0.006294    0.288205    
0.014992    0.000892    0.001401    0.982714    
0.004842    0.001887    0.002470    0.990801    
0.002724    0.992864    0.002206    0.002206    
0.001792    0.991200    0.001615    0.005393    
0.005151    0.010157    0.940259    0.044433    
0.017780    0.199839    0.761921    0.020459    
0.230834    0.269936    0.119652    0.379577    
0.233019    0.093692    0.034743    0.638546    
0.194739    0.181763    0.175340    0.448159    
0.145452    0.293709    0.335917    0.224922    
Consensus sequence: DVHBTACTTCCGGHTHB

Reverse complement motif
0.145452    0.335917    0.293709    0.224922    
0.448159    0.181763    0.175340    0.194739    
0.638546    0.093692    0.034743    0.233019    
0.379577    0.269936    0.119652    0.230834    
0.017780    0.761921    0.199839    0.020459    
0.005151    0.940259    0.010157    0.044433    
0.001792    0.001615    0.991200    0.005393    
0.002724    0.002206    0.992864    0.002206    
0.990801    0.001887    0.002470    0.004842    
0.982714    0.000892    0.001401    0.014992    
0.001110    0.006294    0.704391    0.288205    
0.009546    0.003252    0.103113    0.884088    
0.628772    0.204378    0.060299    0.106551    
0.176569    0.342172    0.181438    0.299820    
0.284336    0.162604    0.375266    0.177794    
0.209701    0.227382    0.408003    0.154914    
0.276571    0.069107    0.299350    0.354972    
Consensus sequence: BHAHCCGGAAGTABDVD

Alignment:
BHAHCCGGAAGTABDVD
-----YGGACTTACG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00112        Gsc                                Original Motif                          Reverse Complement                      Backward       4              10             0.020843       

Species: Mus musculus

Original motif
0.471765    0.155805    0.130216    0.242214    
0.336226    0.217033    0.236748    0.209992    
0.397939    0.127567    0.045155    0.429339    
0.262638    0.456883    0.100119    0.180360    
0.277939    0.114100    0.520395    0.087567    
0.069718    0.401925    0.012565    0.515792    
0.026036    0.001115    0.000374    0.972475    
0.985609    0.000281    0.009340    0.004771    
0.992498    0.001751    0.001641    0.004110    
0.003048    0.000589    0.009260    0.987104    
0.005338    0.968427    0.001002    0.025233    
0.001736    0.954156    0.002782    0.041326    
0.030103    0.441404    0.400145    0.128348    
0.083495    0.360697    0.075527    0.480281    
0.219244    0.119908    0.236702    0.424146    
0.256872    0.229901    0.124714    0.388513    
0.313903    0.308509    0.263518    0.114070    
Consensus sequence: HVWHRYTAATCCSYDHV

Reverse complement motif
0.114070    0.308509    0.263518    0.313903    
0.388513    0.229901    0.124714    0.256872    
0.424146    0.119908    0.236702    0.219244    
0.480281    0.360697    0.075527    0.083495    
0.030103    0.400145    0.441404    0.128348    
0.001736    0.002782    0.954156    0.041326    
0.005338    0.001002    0.968427    0.025233    
0.987104    0.000589    0.009260    0.003048    
0.004110    0.001751    0.001641    0.992498    
0.004771    0.000281    0.009340    0.985609    
0.972475    0.001115    0.000374    0.026036    
0.515792    0.401925    0.012565    0.069718    
0.277939    0.520395    0.114100    0.087567    
0.262638    0.100119    0.456883    0.180360    
0.429339    0.127567    0.045155    0.397939    
0.209992    0.217033    0.236748    0.336226    
0.242214    0.155805    0.130216    0.471765    
Consensus sequence: BHDMSGGATTAMMDWBH

Alignment:
BHDMSGGATTAMMDWBH
----YGGACTTACG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00093        Klf7_secondary                     Original Motif                          Reverse Complement                      Backward       4              10             0.021800       

Species: Mus musculus

Original motif
0.386646    0.259902    0.253791    0.099661    
0.421388    0.207885    0.231243    0.139483    
0.257377    0.193145    0.314893    0.234586    
0.061783    0.371675    0.214607    0.351935    
0.610889    0.007047    0.106287    0.275777    
0.181496    0.007153    0.071824    0.739527    
0.759998    0.222078    0.005710    0.012214    
0.003816    0.977244    0.004175    0.014765    
0.037124    0.002582    0.946042    0.014252    
0.009124    0.982167    0.005065    0.003644    
0.007023    0.980091    0.008044    0.004842    
0.005328    0.930742    0.002828    0.061102    
0.389804    0.299794    0.050877    0.259525    
0.507764    0.121280    0.163196    0.207759    
0.296269    0.307462    0.196230    0.200039    
0.301339    0.231088    0.150226    0.317347    
0.185149    0.176068    0.292944    0.345838    
Consensus sequence: VVDBATACGCCCHAHHD

Reverse complement motif
0.345838    0.176068    0.292944    0.185149    
0.317347    0.231088    0.150226    0.301339    
0.296269    0.196230    0.307462    0.200039    
0.207759    0.121280    0.163196    0.507764    
0.259525    0.299794    0.050877    0.389804    
0.005328    0.002828    0.930742    0.061102    
0.007023    0.008044    0.980091    0.004842    
0.009124    0.005065    0.982167    0.003644    
0.037124    0.946042    0.002582    0.014252    
0.003816    0.004175    0.977244    0.014765    
0.012214    0.222078    0.005710    0.759998    
0.739527    0.007153    0.071824    0.181496    
0.275777    0.007047    0.106287    0.610889    
0.061783    0.214607    0.371675    0.351935    
0.257377    0.314893    0.193145    0.234586    
0.139483    0.207885    0.231243    0.421388    
0.099661    0.259902    0.253791    0.386646    
Consensus sequence: DHDTHGGGCGTATBHBB

Alignment:
DHDTHGGGCGTATBHBB
----YGGACTTACG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00404        Elf2                               Reverse Complement                      Reverse Complement                      Forward        6              10             0.022068       

Species: Mus musculus

Original motif
0.381592    0.198656    0.201326    0.218426    
0.091509    0.331644    0.302830    0.274017    
0.165404    0.272650    0.352528    0.209418    
0.322145    0.255685    0.129399    0.292771    
0.853490    0.012857    0.078563    0.055090    
0.002655    0.792907    0.026436    0.178002    
0.058923    0.001063    0.002976    0.937038    
0.014944    0.001369    0.002865    0.980822    
0.003786    0.992305    0.002102    0.001807    
0.001365    0.988969    0.001554    0.008111    
0.001527    0.009592    0.891056    0.097824    
0.003671    0.143708    0.836117    0.016503    
0.242982    0.061527    0.305342    0.390148    
0.426709    0.117673    0.096260    0.359357    
0.202520    0.113885    0.262005    0.421589    
0.137957    0.359367    0.163919    0.338758    
Consensus sequence: DBBHACTTCCGGDWDB

Reverse complement motif
0.137957    0.163919    0.359367    0.338758    
0.421589    0.113885    0.262005    0.202520    
0.359357    0.117673    0.096260    0.426709    
0.390148    0.061527    0.305342    0.242982    
0.003671    0.836117    0.143708    0.016503    
0.001527    0.891056    0.009592    0.097824    
0.001365    0.001554    0.988969    0.008111    
0.003786    0.002102    0.992305    0.001807    
0.980822    0.001369    0.002865    0.014944    
0.937038    0.001063    0.002976    0.058923    
0.002655    0.026436    0.792907    0.178002    
0.055090    0.012857    0.078563    0.853490    
0.292771    0.255685    0.129399    0.322145    
0.165404    0.352528    0.272650    0.209418    
0.091509    0.302830    0.331644    0.274017    
0.218426    0.198656    0.201326    0.381592    
Consensus sequence: BDWDCCGGAAGTHBBD

Alignment:
BDWDCCGGAAGTHBBD
-----CGTAAGTCCK-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00413        Elf4                               Reverse Complement                      Reverse Complement                      Forward        6              10             0.022142       

Species: Mus musculus

Original motif
0.349744    0.139466    0.209326    0.301464    
0.080478    0.359482    0.307083    0.252956    
0.145756    0.213763    0.350557    0.289924    
0.317307    0.199359    0.096089    0.387245    
0.868576    0.009724    0.088821    0.032878    
0.001975    0.827004    0.014159    0.156862    
0.045494    0.000985    0.001907    0.951615    
0.011012    0.001203    0.002186    0.985599    
0.002743    0.992908    0.002226    0.002123    
0.001498    0.990840    0.001556    0.006106    
0.000951    0.005138    0.880591    0.113319    
0.003127    0.107962    0.867980    0.020930    
0.156602    0.055355    0.396563    0.391480    
0.421246    0.049379    0.084495    0.444880    
0.223879    0.068063    0.203809    0.504249    
0.144100    0.323579    0.131544    0.400777    
Consensus sequence: DBBHACTTCCGGKWTH

Reverse complement motif
0.400777    0.323579    0.131544    0.144100    
0.504249    0.068063    0.203809    0.223879    
0.444880    0.049379    0.084495    0.421246    
0.156602    0.396563    0.055355    0.391480    
0.003127    0.867980    0.107962    0.020930    
0.000951    0.880591    0.005138    0.113319    
0.001498    0.001556    0.990840    0.006106    
0.002743    0.002226    0.992908    0.002123    
0.985599    0.001203    0.002186    0.011012    
0.951615    0.000985    0.001907    0.045494    
0.001975    0.014159    0.827004    0.156862    
0.032878    0.009724    0.088821    0.868576    
0.387245    0.199359    0.096089    0.317307    
0.145756    0.350557    0.213763    0.289924    
0.080478    0.307083    0.359482    0.252956    
0.301464    0.139466    0.209326    0.349744    
Consensus sequence: HAWYCCGGAAGTHBBD

Alignment:
HAWYCCGGAAGTHBBD
-----CGTAAGTCCK-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 87		Motif name: TFF1

Original motif
0.894366    0.007042    0.056338    0.042254    
0.021127    0.042254    0.922535    0.014085    
0.161972    0.091549    0.661972    0.084507    
0.535211    0.140845    0.126761    0.197183    
0.007042    0.957746    0.028169    0.007042    
0.957746    0.007042    0.035211    0.000000    
0.612676    0.225352    0.091549    0.070423    
0.732394    0.028169    0.133803    0.105634    
0.084507    0.183099    0.676056    0.056338    
0.514085    0.154930    0.176056    0.154930    
0.225352    0.190141    0.443662    0.140845    
0.232394    0.352113    0.232394    0.183099    
Consensus sequence: AGGACAAAGAVV

Reserve complement motif
0.232394    0.232394    0.352113    0.183099    
0.225352    0.443662    0.190141    0.140845    
0.154930    0.154930    0.176056    0.514085    
0.084507    0.676056    0.183099    0.056338    
0.105634    0.028169    0.133803    0.732394    
0.070423    0.225352    0.091549    0.612676    
0.000000    0.007042    0.035211    0.957746    
0.007042    0.028169    0.957746    0.007042    
0.197183    0.140845    0.126761    0.535211    
0.161972    0.661972    0.091549    0.084507    
0.021127    0.922535    0.042254    0.014085    
0.042254    0.007042    0.056338    0.894366    
Consensus sequence: VVTCTTTGTCCT


************************************************************************ Best Matches for Motif ID 87 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00062        Sox4_primary                       Original Motif                          Original Motif                          Backward       3              12             0.025854       

Species: Mus musculus

Original motif
0.427843    0.231210    0.119424    0.221523    
0.196506    0.239531    0.304906    0.259057    
0.302488    0.156922    0.290190    0.250401    
0.433872    0.149126    0.196496    0.220506    
0.258426    0.076511    0.475100    0.189963    
0.841714    0.046453    0.099915    0.011918    
0.983853    0.001612    0.001362    0.013174    
0.003460    0.982032    0.005728    0.008780    
0.989743    0.002253    0.002020    0.005984    
0.990761    0.003397    0.002843    0.003000    
0.770864    0.003540    0.001549    0.224048    
0.235342    0.002598    0.757383    0.004677    
0.371426    0.089574    0.529959    0.009040    
0.480804    0.196949    0.240413    0.081833    
0.187158    0.355102    0.216599    0.241142    
0.248006    0.232182    0.157452    0.362360    
0.403367    0.177684    0.164649    0.254300    
Consensus sequence: HBDDDAACAAAGRVBHH

Reverse complement motif
0.254300    0.177684    0.164649    0.403367    
0.362360    0.232182    0.157452    0.248006    
0.187158    0.216599    0.355102    0.241142    
0.081833    0.196949    0.240413    0.480804    
0.371426    0.529959    0.089574    0.009040    
0.235342    0.757383    0.002598    0.004677    
0.224048    0.003540    0.001549    0.770864    
0.003000    0.003397    0.002843    0.990761    
0.005984    0.002253    0.002020    0.989743    
0.003460    0.005728    0.982032    0.008780    
0.013174    0.001612    0.001362    0.983853    
0.011918    0.046453    0.099915    0.841714    
0.258426    0.475100    0.076511    0.189963    
0.220506    0.149126    0.196496    0.433872    
0.250401    0.156922    0.290190    0.302488    
0.196506    0.304906    0.239531    0.259057    
0.221523    0.231210    0.119424    0.427843    
Consensus sequence: HHBBMCTTTGTTHDDBH

Alignment:
HBDDDAACAAAGRVBHH
---AGGACAAAGAVV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00072        IRC900814_primary                  Original Motif                          Original Motif                          Backward       1              12             0.025858       

Species: Mus musculus

Original motif
0.365594    0.139520    0.170474    0.324412    
0.273874    0.192800    0.250453    0.282872    
0.161547    0.330332    0.098428    0.409694    
0.084003    0.205596    0.098191    0.612210    
0.953705    0.016367    0.006314    0.023614    
0.003494    0.989648    0.003278    0.003580    
0.004722    0.003156    0.988805    0.003317    
0.939828    0.001925    0.052151    0.006096    
0.183998    0.760396    0.030845    0.024762    
0.917564    0.003661    0.065438    0.013337    
0.965452    0.006559    0.005183    0.022807    
0.730611    0.054369    0.006576    0.208444    
0.266519    0.133801    0.067418    0.532262    
0.329952    0.210903    0.220319    0.238826    
0.250220    0.197954    0.314202    0.237625    
0.172311    0.401218    0.189340    0.237131    
Consensus sequence: DDHTACGACAAAWDDB

Reverse complement motif
0.172311    0.189340    0.401218    0.237131    
0.250220    0.314202    0.197954    0.237625    
0.238826    0.210903    0.220319    0.329952    
0.532262    0.133801    0.067418    0.266519    
0.208444    0.054369    0.006576    0.730611    
0.022807    0.006559    0.005183    0.965452    
0.013337    0.003661    0.065438    0.917564    
0.183998    0.030845    0.760396    0.024762    
0.006096    0.001925    0.052151    0.939828    
0.004722    0.988805    0.003156    0.003317    
0.003494    0.003278    0.989648    0.003580    
0.023614    0.016367    0.006314    0.953705    
0.612210    0.205596    0.098191    0.084003    
0.409694    0.330332    0.098428    0.161547    
0.282872    0.192800    0.250453    0.273874    
0.324412    0.139520    0.170474    0.365594    
Consensus sequence: BHDWTTTGTCGTAHDD

Alignment:
DDHTACGACAAAWDDB
----AGGACAAAGAVV

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00030        Sox11_primary                      Original Motif                          Original Motif                          Backward       3              12             0.028417       

Species: Mus musculus

Original motif
0.351812    0.238467    0.143954    0.265768    
0.195246    0.235838    0.281473    0.287443    
0.349478    0.172616    0.210739    0.267167    
0.484061    0.110438    0.173131    0.232370    
0.276692    0.070713    0.479604    0.172991    
0.859124    0.044167    0.083951    0.012758    
0.975608    0.002029    0.002285    0.020079    
0.006422    0.978485    0.007124    0.007969    
0.987489    0.003025    0.002868    0.006617    
0.987739    0.005463    0.002730    0.004067    
0.693013    0.004067    0.002445    0.300475    
0.189100    0.003677    0.801408    0.005814    
0.352090    0.072517    0.567737    0.007656    
0.542316    0.176545    0.192768    0.088371    
0.196382    0.304176    0.205985    0.293457    
0.289415    0.201358    0.182937    0.326290    
0.385801    0.216362    0.152363    0.245475    
Consensus sequence: HBDDRAACAAAGRABHH

Reverse complement motif
0.245475    0.216362    0.152363    0.385801    
0.326290    0.201358    0.182937    0.289415    
0.196382    0.205985    0.304176    0.293457    
0.088371    0.176545    0.192768    0.542316    
0.352090    0.567737    0.072517    0.007656    
0.189100    0.801408    0.003677    0.005814    
0.300475    0.004067    0.002445    0.693013    
0.004067    0.005463    0.002730    0.987739    
0.006617    0.003025    0.002868    0.987489    
0.006422    0.007124    0.978485    0.007969    
0.020079    0.002029    0.002285    0.975608    
0.012758    0.044167    0.083951    0.859124    
0.276692    0.479604    0.070713    0.172991    
0.232370    0.110438    0.173131    0.484061    
0.267167    0.172616    0.210739    0.349478    
0.287443    0.235838    0.281473    0.195246    
0.265768    0.238467    0.143954    0.351812    
Consensus sequence: HHBTMCTTTGTTMDDVH

Alignment:
HBDDRAACAAAGRABHH
---AGGACAAAGAVV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00101        Sox12_secondary                    Original Motif                          Original Motif                          Backward       2              12             0.031787       

Species: Mus musculus

Original motif
0.378898    0.318901    0.205859    0.096341    
0.352524    0.321236    0.224504    0.101736    
0.323551    0.182056    0.210897    0.283496    
0.135539    0.325230    0.208031    0.331200    
0.663106    0.055471    0.154459    0.126963    
0.051748    0.292567    0.537307    0.118378    
0.886489    0.042361    0.035742    0.035408    
0.043647    0.688744    0.094358    0.173252    
0.882052    0.039818    0.018899    0.059231    
0.864171    0.036011    0.068363    0.031455    
0.790158    0.046868    0.041594    0.121379    
0.087447    0.143905    0.707798    0.060849    
0.295919    0.132479    0.485703    0.085899    
0.653156    0.133004    0.110012    0.103828    
0.351764    0.131771    0.217730    0.298736    
0.203977    0.196773    0.099958    0.499292    
Consensus sequence: VVDBASACAAAGRADH

Reverse complement motif
0.499292    0.196773    0.099958    0.203977    
0.298736    0.131771    0.217730    0.351764    
0.103828    0.133004    0.110012    0.653156    
0.295919    0.485703    0.132479    0.085899    
0.087447    0.707798    0.143905    0.060849    
0.121379    0.046868    0.041594    0.790158    
0.031455    0.036011    0.068363    0.864171    
0.059231    0.039818    0.018899    0.882052    
0.043647    0.094358    0.688744    0.173252    
0.035408    0.042361    0.035742    0.886489    
0.051748    0.537307    0.292567    0.118378    
0.126963    0.055471    0.154459    0.663106    
0.331200    0.325230    0.208031    0.135539    
0.283496    0.182056    0.210897    0.323551    
0.101736    0.321236    0.224504    0.352524    
0.096341    0.318901    0.205859    0.378898    
Consensus sequence: HDTMCTTTGTSTVDBB

Alignment:
VVDBASACAAAGRADH
---AGGACAAAGAVV-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00067        Lef1_primary                       Original Motif                          Reverse Complement                      Backward       3              12             0.031804       

Species: Mus musculus

Original motif
0.281920    0.214207    0.278077    0.225796    
0.325566    0.151435    0.298797    0.224202    
0.290253    0.145824    0.243443    0.320480    
0.069286    0.404645    0.141614    0.384454    
0.070044    0.621448    0.142647    0.165862    
0.007295    0.907657    0.038110    0.046938    
0.015587    0.018273    0.000658    0.965482    
0.005527    0.005886    0.001905    0.986682    
0.024512    0.001189    0.001344    0.972955    
0.007384    0.025221    0.952270    0.015125    
0.966438    0.000630    0.002693    0.030239    
0.082252    0.001173    0.001495    0.915080    
0.030255    0.677155    0.275323    0.017267    
0.199467    0.118815    0.056814    0.624905    
0.345445    0.169597    0.216831    0.268127    
0.278106    0.150864    0.173693    0.397336    
0.251834    0.339733    0.219703    0.188730    
Consensus sequence: DDDYCCTTTGATCTDDV

Reverse complement motif
0.251834    0.219703    0.339733    0.188730    
0.397336    0.150864    0.173693    0.278106    
0.268127    0.169597    0.216831    0.345445    
0.624905    0.118815    0.056814    0.199467    
0.030255    0.275323    0.677155    0.017267    
0.915080    0.001173    0.001495    0.082252    
0.030239    0.000630    0.002693    0.966438    
0.007384    0.952270    0.025221    0.015125    
0.972955    0.001189    0.001344    0.024512    
0.986682    0.005886    0.001905    0.005527    
0.965482    0.018273    0.000658    0.015587    
0.007295    0.038110    0.907657    0.046938    
0.070044    0.142647    0.621448    0.165862    
0.069286    0.141614    0.404645    0.384454    
0.320480    0.145824    0.243443    0.290253    
0.224202    0.151435    0.298797    0.325566    
0.225796    0.214207    0.278077    0.281920    
Consensus sequence: VDDAGATCAAAGGKDDD

Alignment:
VDDAGATCAAAGGKDDD
---AGGACAAAGAVV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00058        Tcf3_primary                       Original Motif                          Original Motif                          Forward        4              12             0.032939       

Species: Mus musculus

Original motif
0.185864    0.201179    0.183663    0.429294    
0.371100    0.233868    0.122934    0.272098    
0.249563    0.171285    0.128851    0.450301    
0.582940    0.043382    0.129099    0.244578    
0.041400    0.395349    0.497087    0.066163    
0.759123    0.009670    0.005936    0.225270    
0.056579    0.008662    0.003986    0.930772    
0.043968    0.865783    0.056001    0.034249    
0.962748    0.003731    0.003265    0.030256    
0.971318    0.003542    0.012299    0.012841    
0.937558    0.003991    0.020195    0.038256    
0.125931    0.057976    0.798081    0.018012    
0.209401    0.172342    0.483980    0.134277    
0.485703    0.129227    0.309936    0.075134    
0.397027    0.195902    0.152395    0.254676    
0.311636    0.231510    0.157732    0.299122    
0.320965    0.206031    0.164299    0.308705    
Consensus sequence: HHHASATCAAAGVRHHH

Reverse complement motif
0.308705    0.206031    0.164299    0.320965    
0.299122    0.231510    0.157732    0.311636    
0.254676    0.195902    0.152395    0.397027    
0.075134    0.129227    0.309936    0.485703    
0.209401    0.483980    0.172342    0.134277    
0.125931    0.798081    0.057976    0.018012    
0.038256    0.003991    0.020195    0.937558    
0.012841    0.003542    0.012299    0.971318    
0.030256    0.003731    0.003265    0.962748    
0.043968    0.056001    0.865783    0.034249    
0.930772    0.008662    0.003986    0.056579    
0.225270    0.009670    0.005936    0.759123    
0.041400    0.497087    0.395349    0.066163    
0.244578    0.043382    0.129099    0.582940    
0.450301    0.171285    0.128851    0.249563    
0.272098    0.233868    0.122934    0.371100    
0.429294    0.201179    0.183663    0.185864    
Consensus sequence: HHHKVCTTTGATSTHHH

Alignment:
HHHASATCAAAGVRHHH
---AGGACAAAGAVV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00054        Tcf7_primary                       Original Motif                          Original Motif                          Forward        4              12             0.034480       

Species: Mus musculus

Original motif
0.170811    0.196976    0.220503    0.411710    
0.337231    0.228482    0.140137    0.294150    
0.299312    0.173780    0.143426    0.383481    
0.603957    0.053557    0.128214    0.214271    
0.036338    0.377925    0.534647    0.051091    
0.725865    0.010314    0.008501    0.255320    
0.067855    0.007849    0.004559    0.919737    
0.049387    0.815496    0.098330    0.036787    
0.960514    0.005036    0.005137    0.029313    
0.960631    0.004550    0.018815    0.016004    
0.935245    0.005169    0.023866    0.035720    
0.159760    0.060340    0.761341    0.018559    
0.228534    0.153897    0.523052    0.094517    
0.557984    0.123512    0.254154    0.064350    
0.490252    0.211976    0.124557    0.173215    
0.310463    0.250279    0.132612    0.306646    
0.332720    0.248937    0.120633    0.297711    
Consensus sequence: BHHASATCAAAGGAHHH

Reverse complement motif
0.297711    0.248937    0.120633    0.332720    
0.306646    0.250279    0.132612    0.310463    
0.173215    0.211976    0.124557    0.490252    
0.064350    0.123512    0.254154    0.557984    
0.228534    0.523052    0.153897    0.094517    
0.159760    0.761341    0.060340    0.018559    
0.035720    0.005169    0.023866    0.935245    
0.016004    0.004550    0.018815    0.960631    
0.029313    0.005036    0.005137    0.960514    
0.049387    0.098330    0.815496    0.036787    
0.919737    0.007849    0.004559    0.067855    
0.255320    0.010314    0.008501    0.725865    
0.036338    0.534647    0.377925    0.051091    
0.214271    0.053557    0.128214    0.603957    
0.383481    0.173780    0.143426    0.299312    
0.294150    0.228482    0.140137    0.337231    
0.411710    0.196976    0.220503    0.170811    
Consensus sequence: HHHTCCTTTGATSTHHV

Alignment:
BHHASATCAAAGGAHHH
---AGGACAAAGAVV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00026        Zscan4_secondary                   Reverse Complement                      Reverse Complement                      Backward       4              12             0.034481       

Species: Mus musculus

Original motif
0.275231    0.387763    0.112851    0.224155    
0.269193    0.327669    0.360934    0.042204    
0.439403    0.233641    0.022359    0.304596    
0.409796    0.139856    0.390450    0.059899    
0.038409    0.011231    0.936209    0.014150    
0.067382    0.909014    0.021244    0.002359    
0.962897    0.009563    0.009687    0.017854    
0.043757    0.937596    0.007648    0.010999    
0.970698    0.005379    0.016825    0.007098    
0.066033    0.636556    0.043955    0.253456    
0.797406    0.066726    0.011988    0.123879    
0.774632    0.121694    0.017773    0.085901    
0.324017    0.235408    0.213365    0.227210    
0.365796    0.192247    0.134547    0.307410    
0.299601    0.246867    0.098395    0.355137    
0.328229    0.242048    0.251143    0.178579    
Consensus sequence: HVHRGCACACAAHHHV

Reverse complement motif
0.178579    0.242048    0.251143    0.328229    
0.355137    0.246867    0.098395    0.299601    
0.307410    0.192247    0.134547    0.365796    
0.227210    0.235408    0.213365    0.324017    
0.085901    0.121694    0.017773    0.774632    
0.123879    0.066726    0.011988    0.797406    
0.066033    0.043955    0.636556    0.253456    
0.007098    0.005379    0.016825    0.970698    
0.043757    0.007648    0.937596    0.010999    
0.017854    0.009563    0.009687    0.962897    
0.067382    0.021244    0.909014    0.002359    
0.038409    0.936209    0.011231    0.014150    
0.059899    0.139856    0.390450    0.409796    
0.304596    0.233641    0.022359    0.439403    
0.269193    0.360934    0.327669    0.042204    
0.275231    0.112851    0.387763    0.224155    
Consensus sequence: BHHHTTGTGTGCKHVD

Alignment:
BHHHTTGTGTGCKHVD
-VVTCTTTGTCCT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00083        Tcf7l2_primary                     Reverse Complement                      Original Motif                          Backward       4              12             0.034488       

Species: Mus musculus

Original motif
0.285725    0.187143    0.254855    0.272277    
0.276264    0.157893    0.258178    0.307665    
0.238788    0.161120    0.254018    0.346074    
0.076041    0.333901    0.150903    0.439156    
0.093376    0.526578    0.180529    0.199517    
0.010827    0.880320    0.034150    0.074703    
0.016546    0.023834    0.000940    0.958680    
0.007166    0.008215    0.001941    0.982678    
0.029634    0.001363    0.001379    0.967625    
0.010872    0.031751    0.926186    0.031190    
0.949407    0.000760    0.002581    0.047253    
0.109203    0.001362    0.002094    0.887341    
0.044198    0.567994    0.353059    0.034749    
0.222623    0.142360    0.041281    0.593736    
0.358872    0.167597    0.220534    0.252997    
0.233072    0.141480    0.230985    0.394463    
0.350703    0.243129    0.233961    0.172207    
Consensus sequence: DDDYCCTTTGATSTDDV

Reverse complement motif
0.172207    0.243129    0.233961    0.350703    
0.394463    0.141480    0.230985    0.233072    
0.252997    0.167597    0.220534    0.358872    
0.593736    0.142360    0.041281    0.222623    
0.044198    0.353059    0.567994    0.034749    
0.887341    0.001362    0.002094    0.109203    
0.047253    0.000760    0.002581    0.949407    
0.010872    0.926186    0.031751    0.031190    
0.967625    0.001363    0.001379    0.029634    
0.982678    0.008215    0.001941    0.007166    
0.958680    0.023834    0.000940    0.016546    
0.010827    0.034150    0.880320    0.074703    
0.093376    0.180529    0.526578    0.199517    
0.439156    0.333901    0.150903    0.076041    
0.346074    0.161120    0.254018    0.238788    
0.307665    0.157893    0.258178    0.276264    
0.272277    0.187143    0.254855    0.285725    
Consensus sequence: BDDASATCAAAGGMDDD

Alignment:
DDDYCCTTTGATSTDDV
--VVTCTTTGTCCT---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00020        Atf1_secondary                     Original Motif                          Original Motif                          Backward       1              12             0.035204       

Species: Mus musculus

Original motif
0.190871    0.208590    0.418111    0.182428    
0.317846    0.111669    0.286306    0.284179    
0.648958    0.110707    0.203307    0.037028    
0.036931    0.051884    0.046511    0.864674    
0.083831    0.047140    0.807374    0.061655    
0.825537    0.040814    0.065502    0.068147    
0.036229    0.860339    0.049032    0.054400    
0.158667    0.026582    0.782382    0.032369    
0.564584    0.233981    0.083790    0.117646    
0.398929    0.020841    0.349286    0.230944    
0.018357    0.259286    0.208353    0.514004    
0.691640    0.068711    0.099394    0.140256    
0.455948    0.106302    0.180732    0.257017    
0.257719    0.300244    0.204520    0.237517    
Consensus sequence: VDATGACGADYADH

Reverse complement motif
0.257719    0.204520    0.300244    0.237517    
0.257017    0.106302    0.180732    0.455948    
0.140256    0.068711    0.099394    0.691640    
0.514004    0.259286    0.208353    0.018357    
0.230944    0.020841    0.349286    0.398929    
0.117646    0.233981    0.083790    0.564584    
0.158667    0.782382    0.026582    0.032369    
0.036229    0.049032    0.860339    0.054400    
0.068147    0.040814    0.065502    0.825537    
0.083831    0.807374    0.047140    0.061655    
0.864674    0.051884    0.046511    0.036931    
0.037028    0.110707    0.203307    0.648958    
0.284179    0.111669    0.286306    0.317846    
0.190871    0.418111    0.208590    0.182428    
Consensus sequence: DDTMDTCGTCATDV

Alignment:
VDATGACGADYADH
--AGGACAAAGAVV

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 88		Motif name: TFF11

Original motif
0.098592    0.556338    0.246479    0.098592    
0.281690    0.007042    0.098592    0.612676    
0.007042    0.021127    0.971831    0.000000    
0.007042    0.971831    0.007042    0.014085    
0.007042    0.000000    0.000000    0.992958    
0.000000    0.000000    1.000000    0.000000    
0.176056    0.415493    0.232394    0.176056    
0.267606    0.197183    0.267606    0.267606    
0.119718    0.190141    0.401408    0.288732    
0.098592    0.436620    0.211268    0.253521    
0.239437    0.154930    0.183099    0.422535    
0.126761    0.140845    0.619718    0.112676    
0.190141    0.281690    0.225352    0.302817    
0.232394    0.176056    0.373239    0.218310    
Consensus sequence: CTGCTGBDBBDGBD

Reserve complement motif
0.232394    0.373239    0.176056    0.218310    
0.302817    0.281690    0.225352    0.190141    
0.126761    0.619718    0.140845    0.112676    
0.422535    0.154930    0.183099    0.239437    
0.098592    0.211268    0.436620    0.253521    
0.119718    0.401408    0.190141    0.288732    
0.267606    0.197183    0.267606    0.267606    
0.176056    0.232394    0.415493    0.176056    
0.000000    1.000000    0.000000    0.000000    
0.992958    0.000000    0.000000    0.007042    
0.007042    0.007042    0.971831    0.014085    
0.007042    0.971831    0.021127    0.000000    
0.612676    0.007042    0.098592    0.281690    
0.098592    0.246479    0.556338    0.098592    
Consensus sequence: HVCDBBDBCAGCAG


************************************************************************ Best Matches for Motif ID 88 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_1765.2                      Reverse Complement                      Reverse Complement                      Forward        1              14             0.054015       

Species: Mus musculus

Original motif
0.538735    0.129821    0.147336    0.184107    
0.331267    0.275123    0.227609    0.166001    
0.174654    0.113319    0.383610    0.328417    
0.296734    0.281670    0.230068    0.191527    
0.128222    0.561296    0.062928    0.247554    
0.027028    0.014676    0.949335    0.008962    
0.087209    0.761581    0.147964    0.003246    
0.006796    0.000741    0.006037    0.986427    
0.039496    0.000533    0.943453    0.016517    
0.005541    0.005164    0.002805    0.986489    
0.561957    0.002761    0.004207    0.431075    
0.780197    0.037155    0.031222    0.151425    
0.518642    0.104220    0.012670    0.364468    
0.314451    0.111366    0.333508    0.240676    
0.236936    0.357992    0.280813    0.124259    
0.314846    0.163774    0.426195    0.095185    
0.408340    0.134111    0.102987    0.354562    
Consensus sequence: AVDVCGCTGTWAWDVVW

Reverse complement motif
0.354562    0.134111    0.102987    0.408340    
0.314846    0.426195    0.163774    0.095185    
0.236936    0.280813    0.357992    0.124259    
0.314451    0.333508    0.111366    0.240676    
0.364468    0.104220    0.012670    0.518642    
0.151425    0.037155    0.031222    0.780197    
0.431075    0.002761    0.004207    0.561957    
0.986489    0.005164    0.002805    0.005541    
0.039496    0.943453    0.000533    0.016517    
0.986427    0.000741    0.006037    0.006796    
0.087209    0.147964    0.761581    0.003246    
0.027028    0.949335    0.014676    0.008962    
0.128222    0.062928    0.561296    0.247554    
0.191527    0.281670    0.230068    0.296734    
0.174654    0.383610    0.113319    0.328417    
0.166001    0.275123    0.227609    0.331267    
0.184107    0.129821    0.147336    0.538735    
Consensus sequence: WVVHWTWACAGCGBHBT

Alignment:
WVVHWTWACAGCGBHBT
HVCDBBDBCAGCAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00193        Rhox11_2205.1                      Reverse Complement                      Reverse Complement                      Forward        1              14             0.054385       

Species: Mus musculus

Original motif
0.504898    0.140204    0.135418    0.219480    
0.282348    0.244881    0.300572    0.172199    
0.183939    0.100670    0.384783    0.330608    
0.326709    0.269523    0.194043    0.209724    
0.142989    0.557393    0.066826    0.232792    
0.038356    0.014052    0.932450    0.015142    
0.092102    0.778844    0.125082    0.003972    
0.010254    0.001252    0.005231    0.983263    
0.033486    0.000891    0.947486    0.018137    
0.005360    0.007407    0.003729    0.983504    
0.603485    0.007179    0.003482    0.385853    
0.798026    0.029788    0.032370    0.139816    
0.529622    0.100632    0.016507    0.353238    
0.243581    0.126094    0.401402    0.228923    
0.207484    0.285456    0.353715    0.153346    
0.282413    0.188410    0.441463    0.087715    
0.422774    0.152965    0.094106    0.330155    
Consensus sequence: AVDHCGCTGTWAWDVVW

Reverse complement motif
0.330155    0.152965    0.094106    0.422774    
0.282413    0.441463    0.188410    0.087715    
0.207484    0.353715    0.285456    0.153346    
0.243581    0.401402    0.126094    0.228923    
0.353238    0.100632    0.016507    0.529622    
0.139816    0.029788    0.032370    0.798026    
0.385853    0.007179    0.003482    0.603485    
0.983504    0.007407    0.003729    0.005360    
0.033486    0.947486    0.000891    0.018137    
0.983263    0.001252    0.005231    0.010254    
0.092102    0.125082    0.778844    0.003972    
0.038356    0.932450    0.014052    0.015142    
0.142989    0.066826    0.557393    0.232792    
0.209724    0.269523    0.194043    0.326709    
0.183939    0.384783    0.100670    0.330608    
0.282348    0.300572    0.244881    0.172199    
0.219480    0.140204    0.135418    0.504898    
Consensus sequence: WVVHWTWACAGCGHHVT

Alignment:
WVVHWTWACAGCGHHVT
HVCDBBDBCAGCAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00027        Osr1_primary                       Original Motif                          Reverse Complement                      Backward       1              14             0.055447       

Species: Mus musculus

Original motif
0.260366    0.252887    0.224273    0.262474    
0.239931    0.233883    0.190643    0.335543    
0.257637    0.188706    0.242480    0.311177    
0.323833    0.165978    0.161144    0.349046    
0.824983    0.119267    0.027014    0.028736    
0.009055    0.974108    0.000889    0.015947    
0.659219    0.001516    0.337361    0.001905    
0.002965    0.001643    0.993070    0.002321    
0.047380    0.001758    0.009593    0.941269    
0.974073    0.000741    0.023187    0.001999    
0.006256    0.001341    0.990114    0.002290    
0.001372    0.921382    0.010719    0.066527    
0.449788    0.160658    0.105504    0.284050    
0.392727    0.304490    0.187448    0.115335    
0.361758    0.209213    0.175805    0.253224    
0.420972    0.108912    0.289406    0.180710    
Consensus sequence: HHDHACRGTAGCHVHD

Reverse complement motif
0.180710    0.108912    0.289406    0.420972    
0.253224    0.209213    0.175805    0.361758    
0.115335    0.304490    0.187448    0.392727    
0.284050    0.160658    0.105504    0.449788    
0.001372    0.010719    0.921382    0.066527    
0.006256    0.990114    0.001341    0.002290    
0.001999    0.000741    0.023187    0.974073    
0.941269    0.001758    0.009593    0.047380    
0.002965    0.993070    0.001643    0.002321    
0.001905    0.001516    0.337361    0.659219    
0.009055    0.000889    0.974108    0.015947    
0.028736    0.119267    0.027014    0.824983    
0.349046    0.165978    0.161144    0.323833    
0.311177    0.188706    0.242480    0.257637    
0.335543    0.233883    0.190643    0.239931    
0.262474    0.252887    0.224273    0.260366    
Consensus sequence: DHBHGCTACKGTHDHH

Alignment:
HHDHACRGTAGCHVHD
--CTGCTGBDBBDGBD

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_secondary                     Reverse Complement                      Reverse Complement                      Backward       3              14             0.057641       

Species: Mus musculus

Original motif
0.503814    0.061521    0.249336    0.185328    
0.254929    0.299710    0.169910    0.275451    
0.227652    0.250215    0.156720    0.365413    
0.204377    0.213835    0.124161    0.457627    
0.092364    0.094662    0.750364    0.062611    
0.026436    0.897855    0.038986    0.036722    
0.035250    0.085429    0.030496    0.848825    
0.819775    0.042925    0.032996    0.104304    
0.145642    0.810774    0.021549    0.022035    
0.031252    0.486827    0.015181    0.466740    
0.255316    0.101783    0.039552    0.603348    
0.466712    0.084471    0.436303    0.012514    
0.344321    0.408616    0.064696    0.182367    
0.422210    0.112319    0.109923    0.355548    
0.221064    0.283525    0.217775    0.277636    
0.280658    0.350363    0.211925    0.157054    
Consensus sequence: AHHHGCTACYTRMWHV

Reverse complement motif
0.280658    0.211925    0.350363    0.157054    
0.221064    0.217775    0.283525    0.277636    
0.355548    0.112319    0.109923    0.422210    
0.344321    0.064696    0.408616    0.182367    
0.012514    0.084471    0.436303    0.466712    
0.603348    0.101783    0.039552    0.255316    
0.031252    0.015181    0.486827    0.466740    
0.145642    0.021549    0.810774    0.022035    
0.104304    0.042925    0.032996    0.819775    
0.848825    0.085429    0.030496    0.035250    
0.026436    0.038986    0.897855    0.036722    
0.092364    0.750364    0.094662    0.062611    
0.457627    0.213835    0.124161    0.204377    
0.365413    0.250215    0.156720    0.227652    
0.254929    0.169910    0.299710    0.275451    
0.185328    0.061521    0.249336    0.503814    
Consensus sequence: VDWRKAKGTAGCHHDT

Alignment:
VDWRKAKGTAGCHHDT
HVCDBBDBCAGCAG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00099        Ascl2_primary                      Reverse Complement                      Original Motif                          Forward        1              14             0.058112       

Species: Mus musculus

Original motif
0.168852    0.325948    0.188604    0.316596    
0.150343    0.193286    0.241301    0.415069    
0.091518    0.482905    0.122928    0.302648    
0.472493    0.198776    0.225796    0.102935    
0.294513    0.179919    0.447250    0.078318    
0.014660    0.972080    0.005591    0.007668    
0.954848    0.008107    0.008474    0.028571    
0.006076    0.178912    0.760021    0.054991    
0.052082    0.817415    0.124797    0.005707    
0.019342    0.010406    0.008905    0.961347    
0.005455    0.008073    0.977684    0.008788    
0.042946    0.715551    0.087020    0.154483    
0.116888    0.241739    0.170073    0.471300    
0.315931    0.324343    0.291451    0.068274    
0.199164    0.366921    0.163690    0.270226    
0.218561    0.211076    0.187732    0.382631    
0.145317    0.139808    0.389262    0.325614    
Consensus sequence: BBYVVCAGCTGCBVHHD

Reverse complement motif
0.145317    0.389262    0.139808    0.325614    
0.382631    0.211076    0.187732    0.218561    
0.199164    0.163690    0.366921    0.270226    
0.315931    0.291451    0.324343    0.068274    
0.471300    0.241739    0.170073    0.116888    
0.042946    0.087020    0.715551    0.154483    
0.005455    0.977684    0.008073    0.008788    
0.961347    0.010406    0.008905    0.019342    
0.052082    0.124797    0.817415    0.005707    
0.006076    0.760021    0.178912    0.054991    
0.028571    0.008107    0.008474    0.954848    
0.014660    0.005591    0.972080    0.007668    
0.294513    0.447250    0.179919    0.078318    
0.102935    0.198776    0.225796    0.472493    
0.091518    0.122928    0.482905    0.302648    
0.415069    0.193286    0.241301    0.150343    
0.168852    0.188604    0.325948    0.316596    
Consensus sequence: HHDVVGCAGCTGVBKVB

Alignment:
BBYVVCAGCTGCBVHHD
HVCDBBDBCAGCAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00027        Osr1_secondary                     Reverse Complement                      Reverse Complement                      Forward        1              14             0.058639       

Species: Mus musculus

Original motif
0.454194    0.092676    0.306326    0.146803    
0.183011    0.349823    0.148031    0.319135    
0.402809    0.216433    0.154083    0.226674    
0.211745    0.252049    0.161182    0.375024    
0.136345    0.083690    0.743914    0.036052    
0.026957    0.909549    0.024545    0.038949    
0.029080    0.082100    0.032574    0.856247    
0.787454    0.048202    0.052486    0.111858    
0.073461    0.881278    0.022313    0.022948    
0.026791    0.545542    0.010815    0.416852    
0.322008    0.101565    0.026489    0.549938    
0.458267    0.105781    0.425231    0.010720    
0.432794    0.314870    0.090685    0.161651    
0.260978    0.176097    0.204310    0.358614    
0.282877    0.259359    0.208881    0.248883    
0.274197    0.291831    0.231013    0.202959    
Consensus sequence: RHHHGCTACYWRHDHV

Reverse complement motif
0.274197    0.231013    0.291831    0.202959    
0.248883    0.259359    0.208881    0.282877    
0.358614    0.176097    0.204310    0.260978    
0.161651    0.314870    0.090685    0.432794    
0.010720    0.105781    0.425231    0.458267    
0.549938    0.101565    0.026489    0.322008    
0.026791    0.010815    0.545542    0.416852    
0.073461    0.022313    0.881278    0.022948    
0.111858    0.048202    0.052486    0.787454    
0.856247    0.082100    0.032574    0.029080    
0.026957    0.024545    0.909549    0.038949    
0.136345    0.743914    0.083690    0.036052    
0.375024    0.252049    0.161182    0.211745    
0.226674    0.216433    0.154083    0.402809    
0.183011    0.148031    0.349823    0.319135    
0.146803    0.092676    0.306326    0.454194    
Consensus sequence: VHDHKWKGTAGCHHDK

Alignment:
VHDHKWKGTAGCHHDK
HVCDBBDBCAGCAG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00122        Tgif1                              Reverse Complement                      Original Motif                          Forward        1              14             0.059288       

Species: Mus musculus

Original motif
0.272977    0.158875    0.284742    0.283406    
0.550609    0.124110    0.169608    0.155673    
0.114568    0.207160    0.282464    0.395807    
0.560868    0.052907    0.053508    0.332716    
0.336500    0.068048    0.114050    0.481403    
0.007736    0.003722    0.000495    0.988048    
0.004489    0.000729    0.992211    0.002571    
0.956618    0.000414    0.000890    0.042078    
0.004381    0.990925    0.000538    0.004156    
0.982797    0.000366    0.015539    0.001298    
0.016760    0.002980    0.969991    0.010269    
0.036013    0.725983    0.200022    0.037982    
0.064755    0.104386    0.133891    0.696968    
0.199404    0.263520    0.410228    0.126848    
0.222648    0.351390    0.272575    0.153387    
0.087778    0.206043    0.395671    0.310507    
0.319643    0.144216    0.196041    0.340100    
Consensus sequence: DABWWTGACAGCTVVBD

Reverse complement motif
0.340100    0.144216    0.196041    0.319643    
0.087778    0.395671    0.206043    0.310507    
0.222648    0.272575    0.351390    0.153387    
0.199404    0.410228    0.263520    0.126848    
0.696968    0.104386    0.133891    0.064755    
0.036013    0.200022    0.725983    0.037982    
0.016760    0.969991    0.002980    0.010269    
0.001298    0.000366    0.015539    0.982797    
0.004381    0.000538    0.990925    0.004156    
0.042078    0.000414    0.000890    0.956618    
0.004489    0.992211    0.000729    0.002571    
0.988048    0.003722    0.000495    0.007736    
0.481403    0.068048    0.114050    0.336500    
0.332716    0.052907    0.053508    0.560868    
0.395807    0.207160    0.282464    0.114568    
0.155673    0.124110    0.169608    0.550609    
0.272977    0.284742    0.158875    0.283406    
Consensus sequence: DBVVAGCTGTCAWWVTH

Alignment:
DABWWTGACAGCTVVBD
HVCDBBDBCAGCAG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00052        Osr2_primary                       Original Motif                          Reverse Complement                      Forward        3              14             0.061033       

Species: Mus musculus

Original motif
0.295210    0.230759    0.178832    0.295199    
0.286163    0.186772    0.186150    0.340915    
0.287577    0.235045    0.329453    0.147924    
0.263264    0.191325    0.081978    0.463433    
0.839420    0.118123    0.018788    0.023669    
0.005488    0.984397    0.000830    0.009284    
0.660134    0.001532    0.336574    0.001760    
0.003020    0.001773    0.993144    0.002063    
0.039664    0.001060    0.005054    0.954222    
0.980339    0.000636    0.016776    0.002249    
0.003849    0.001418    0.992166    0.002568    
0.000858    0.950172    0.007228    0.041743    
0.342840    0.230712    0.133570    0.292878    
0.342486    0.316980    0.167294    0.173240    
0.362426    0.178913    0.146709    0.311952    
0.266586    0.140406    0.435643    0.157365    
Consensus sequence: HHVHACRGTAGCHHHD

Reverse complement motif
0.266586    0.435643    0.140406    0.157365    
0.311952    0.178913    0.146709    0.362426    
0.173240    0.316980    0.167294    0.342486    
0.292878    0.230712    0.133570    0.342840    
0.000858    0.007228    0.950172    0.041743    
0.003849    0.992166    0.001418    0.002568    
0.002249    0.000636    0.016776    0.980339    
0.954222    0.001060    0.005054    0.039664    
0.003020    0.993144    0.001773    0.002063    
0.001760    0.001532    0.336574    0.660134    
0.005488    0.000830    0.984397    0.009284    
0.023669    0.118123    0.018788    0.839420    
0.463433    0.191325    0.081978    0.263264    
0.287577    0.329453    0.235045    0.147924    
0.340915    0.186772    0.186150    0.286163    
0.295199    0.230759    0.178832    0.295210    
Consensus sequence: HHHHGCTACKGTHVHH

Alignment:
HHHHGCTACKGTHVHH
--CTGCTGBDBBDGBD

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_primary                       Original Motif                          Reverse Complement                      Forward        9              14             0.062845       

Species: Mus musculus

Original motif
0.218345    0.231533    0.152528    0.397594    
0.264604    0.126115    0.320860    0.288421    
0.117304    0.186844    0.172946    0.522906    
0.111929    0.277908    0.409084    0.201079    
0.343319    0.311376    0.123612    0.221692    
0.193354    0.374280    0.157338    0.275028    
0.166348    0.578991    0.130872    0.123789    
0.006937    0.931183    0.046809    0.015072    
0.255581    0.289587    0.125513    0.329319    
0.002582    0.012615    0.002782    0.982021    
0.850584    0.007973    0.140639    0.000803    
0.037792    0.002285    0.957277    0.002646    
0.009414    0.921481    0.001636    0.067469    
0.943403    0.000980    0.042401    0.013216    
0.991166    0.002931    0.003540    0.002364    
0.003651    0.987110    0.001106    0.008133    
0.208873    0.369705    0.319129    0.102292    
0.322535    0.186617    0.374187    0.116660    
0.326738    0.179486    0.226374    0.267402    
0.299697    0.185329    0.133025    0.381949    
0.300824    0.266836    0.096437    0.335904    
0.418443    0.191068    0.127183    0.263306    
0.386727    0.204062    0.126050    0.283161    
Consensus sequence: HDTBHHCCHTAGCAACVVDHHHH

Reverse complement motif
0.283161    0.204062    0.126050    0.386727    
0.263306    0.191068    0.127183    0.418443    
0.335904    0.266836    0.096437    0.300824    
0.381949    0.185329    0.133025    0.299697    
0.267402    0.179486    0.226374    0.326738    
0.322535    0.374187    0.186617    0.116660    
0.208873    0.319129    0.369705    0.102292    
0.003651    0.001106    0.987110    0.008133    
0.002364    0.002931    0.003540    0.991166    
0.013216    0.000980    0.042401    0.943403    
0.009414    0.001636    0.921481    0.067469    
0.037792    0.957277    0.002285    0.002646    
0.000803    0.007973    0.140639    0.850584    
0.982021    0.012615    0.002782    0.002582    
0.329319    0.289587    0.125513    0.255581    
0.006937    0.046809    0.931183    0.015072    
0.166348    0.130872    0.578991    0.123789    
0.193354    0.157338    0.374280    0.275028    
0.221692    0.311376    0.123612    0.343319    
0.111929    0.409084    0.277908    0.201079    
0.522906    0.186844    0.172946    0.117304    
0.264604    0.320860    0.126115    0.288421    
0.397594    0.231533    0.152528    0.218345    
Consensus sequence: HHHHDVVGTTGCTAHGGDHBAHH

Alignment:
HHHHDVVGTTGCTAHGGDHBAHH
--------CTGCTGBDBBDGBD-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00047        Zbtb7b_secondary                   Original Motif                          Reverse Complement                      Backward       1              14             0.063294       

Species: Mus musculus

Original motif
0.203365    0.307129    0.203712    0.285795    
0.306328    0.182359    0.203143    0.308170    
0.220878    0.174035    0.265341    0.339746    
0.475421    0.085294    0.281054    0.158231    
0.395971    0.330114    0.260810    0.013104    
0.001970    0.006366    0.962058    0.029606    
0.907785    0.081900    0.001279    0.009036    
0.008745    0.981422    0.002970    0.006863    
0.006791    0.966163    0.017605    0.009441    
0.894233    0.081139    0.004949    0.019679    
0.007553    0.970771    0.004892    0.016783    
0.016719    0.797465    0.011842    0.173974    
0.415678    0.189952    0.165207    0.229163    
0.092707    0.182206    0.346121    0.378967    
0.175722    0.130498    0.215118    0.478662    
0.365762    0.163282    0.315788    0.155168    
0.214734    0.272805    0.243194    0.269267    
Consensus sequence: BDDRVGACCACCHBDVB

Reverse complement motif
0.214734    0.243194    0.272805    0.269267    
0.155168    0.163282    0.315788    0.365762    
0.478662    0.130498    0.215118    0.175722    
0.378967    0.182206    0.346121    0.092707    
0.229163    0.189952    0.165207    0.415678    
0.016719    0.011842    0.797465    0.173974    
0.007553    0.004892    0.970771    0.016783    
0.019679    0.081139    0.004949    0.894233    
0.006791    0.017605    0.966163    0.009441    
0.008745    0.002970    0.981422    0.006863    
0.009036    0.081900    0.001279    0.907785    
0.001970    0.962058    0.006366    0.029606    
0.013104    0.330114    0.260810    0.395971    
0.158231    0.085294    0.281054    0.475421    
0.339746    0.174035    0.265341    0.220878    
0.308170    0.182359    0.203143    0.306328    
0.203365    0.203712    0.307129    0.285795    
Consensus sequence: BBDVHGGTGGTCBKDDB

Alignment:
BBDVHGGTGGTCBKDDB
---CTGCTGBDBBDGBD

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 89		Motif name: TFM1

Original motif
0.107143    0.642857    0.000000    0.250000    
0.785714    0.035714    0.071429    0.107143    
0.250000    0.714286    0.035714    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.000000    0.892857    0.107143    0.000000    
0.821429    0.142857    0.000000    0.035714    
0.107143    0.785714    0.071429    0.035714    
0.857143    0.000000    0.000000    0.142857    
0.000000    0.928571    0.035714    0.035714    
0.785714    0.000000    0.071429    0.142857    
0.142857    0.571429    0.000000    0.285714    
0.500000    0.000000    0.214286    0.285714    
0.000000    0.821429    0.178571    0.000000    
0.750000    0.178571    0.000000    0.071429    
0.035714    0.821429    0.000000    0.142857    
0.857143    0.035714    0.107143    0.000000    
0.178571    0.642857    0.178571    0.000000    
0.964286    0.000000    0.035714    0.000000    
Consensus sequence: CACACACACACWCACACA

Reserve complement motif
0.000000    0.000000    0.035714    0.964286    
0.178571    0.178571    0.642857    0.000000    
0.000000    0.035714    0.107143    0.857143    
0.035714    0.000000    0.821429    0.142857    
0.071429    0.178571    0.000000    0.750000    
0.000000    0.178571    0.821429    0.000000    
0.285714    0.000000    0.214286    0.500000    
0.142857    0.000000    0.571429    0.285714    
0.142857    0.000000    0.071429    0.785714    
0.000000    0.035714    0.928571    0.035714    
0.142857    0.000000    0.000000    0.857143    
0.107143    0.071429    0.785714    0.035714    
0.035714    0.142857    0.000000    0.821429    
0.000000    0.107143    0.892857    0.000000    
0.000000    0.000000    0.000000    1.000000    
0.250000    0.035714    0.714286    0.000000    
0.107143    0.035714    0.071429    0.785714    
0.107143    0.000000    0.642857    0.250000    
Consensus sequence: TGTGTGWGTGTGTGTGTG


************************************************************************ Best Matches for Motif ID 89 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Backward       1              18             0.044206       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
-----CACACACACACWCACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Reverse Complement                      Original Motif                          Forward        1              18             0.044812       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
TGTGTGWGTGTGTGTGTG-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Reverse Complement                      Original Motif                          Forward        1              18             0.046994       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
TGTGTGWGTGTGTGTGTG----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Original Motif                          Forward        3              18             0.047476       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
MHHHWHYTMCCHCCCACVAABVH
--CACACACACACWCACACA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Original Motif                          Original Motif                          Backward       2              18             0.048357       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
---CACACACACACWCACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Original Motif                          Forward        6              18             0.050201       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
-----CACACACACACWCACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_secondary                    Reverse Complement                      Reverse Complement                      Forward        4              18             0.055757       

Species: Mus musculus

Original motif
0.477863    0.106306    0.184102    0.231729    
0.304951    0.149020    0.361418    0.184612    
0.548996    0.056128    0.348902    0.045974    
0.385727    0.477782    0.086218    0.050273    
0.409556    0.232265    0.173851    0.184328    
0.174550    0.312880    0.307123    0.205448    
0.850398    0.047204    0.041665    0.060734    
0.141234    0.548534    0.142230    0.168002    
0.059462    0.026354    0.892948    0.021236    
0.053714    0.870297    0.028935    0.047055    
0.086273    0.069147    0.805284    0.039296    
0.033781    0.573881    0.034115    0.358223    
0.035191    0.079663    0.824970    0.060176    
0.051830    0.862631    0.019359    0.066180    
0.178685    0.015738    0.762485    0.043092    
0.058988    0.042615    0.017608    0.880789    
0.202382    0.173360    0.284095    0.340163    
0.098493    0.234651    0.506524    0.160333    
0.109087    0.336204    0.250510    0.304198    
0.130945    0.250843    0.177122    0.441090    
0.353830    0.138838    0.162784    0.344548    
0.114290    0.417163    0.160662    0.307885    
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB

Reverse complement motif
0.114290    0.160662    0.417163    0.307885    
0.344548    0.138838    0.162784    0.353830    
0.441090    0.250843    0.177122    0.130945    
0.109087    0.250510    0.336204    0.304198    
0.098493    0.506524    0.234651    0.160333    
0.340163    0.173360    0.284095    0.202382    
0.880789    0.042615    0.017608    0.058988    
0.178685    0.762485    0.015738    0.043092    
0.051830    0.019359    0.862631    0.066180    
0.035191    0.824970    0.079663    0.060176    
0.033781    0.034115    0.573881    0.358223    
0.086273    0.805284    0.069147    0.039296    
0.053714    0.028935    0.870297    0.047055    
0.059462    0.892948    0.026354    0.021236    
0.141234    0.142230    0.548534    0.168002    
0.060734    0.047204    0.041665    0.850398    
0.174550    0.307123    0.312880    0.205448    
0.184328    0.232265    0.173851    0.409556    
0.385727    0.086218    0.477782    0.050273    
0.045974    0.056128    0.348902    0.548996    
0.304951    0.361418    0.149020    0.184612    
0.231729    0.106306    0.184102    0.477863    
Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Alignment:
BDVBCDACGCKCGCGTBHRKHD
---TGTGTGWGTGTGTGTGTG-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00096        Sox13_secondary                    Original Motif                          Reverse Complement                      Backward       1              17             0.549115       

Species: Mus musculus

Original motif
0.262581    0.115233    0.405525    0.216661    
0.246681    0.142854    0.145056    0.465409    
0.341041    0.154355    0.306628    0.197976    
0.242211    0.263918    0.113187    0.380684    
0.119326    0.241913    0.117198    0.521563    
0.054120    0.036135    0.784219    0.125525    
0.076634    0.048399    0.788586    0.086381    
0.215316    0.044119    0.663927    0.076638    
0.248538    0.159141    0.015452    0.576869    
0.047049    0.083570    0.788798    0.080583    
0.071948    0.035098    0.768849    0.124105    
0.123777    0.030383    0.713425    0.132415    
0.294760    0.182119    0.181553    0.341567    
0.516589    0.129377    0.116698    0.237336    
0.350326    0.186505    0.112598    0.350571    
0.311469    0.198085    0.147986    0.342460    
0.185126    0.130721    0.242572    0.441582    
Consensus sequence: DDDHTGGGTGGGHAHHD

Reverse complement motif
0.441582    0.130721    0.242572    0.185126    
0.342460    0.198085    0.147986    0.311469    
0.350571    0.186505    0.112598    0.350326    
0.237336    0.129377    0.116698    0.516589    
0.341567    0.182119    0.181553    0.294760    
0.123777    0.713425    0.030383    0.132415    
0.071948    0.768849    0.035098    0.124105    
0.047049    0.788798    0.083570    0.080583    
0.576869    0.159141    0.015452    0.248538    
0.215316    0.663927    0.044119    0.076638    
0.076634    0.788586    0.048399    0.086381    
0.054120    0.784219    0.036135    0.125525    
0.521563    0.241913    0.117198    0.119326    
0.380684    0.263918    0.113187    0.242211    
0.197976    0.154355    0.306628    0.341041    
0.465409    0.142854    0.145056    0.246681    
0.262581    0.405525    0.115233    0.216661    
Consensus sequence: DHHTHCCCACCCAHDDH

Alignment:
-DHHTHCCCACCCAHDDH
CACACACACACWCACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Original Motif                          Original Motif                          Forward        7              17             0.550082       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
BBBDVVRGACCACCCAVGABBAB-
------CACACACACACWCACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00228        Bapx1                              Original Motif                          Original Motif                          Backward       2              17             0.553591       

Species: Mus musculus

Original motif
0.301697    0.347856    0.239075    0.111372    
0.364458    0.225587    0.074842    0.335112    
0.228472    0.141747    0.139010    0.490770    
0.559532    0.164793    0.197557    0.078118    
0.506611    0.130882    0.113226    0.249281    
0.054222    0.680706    0.257913    0.007160    
0.001978    0.899030    0.000622    0.098369    
0.950561    0.002121    0.000888    0.046429    
0.037529    0.960534    0.000660    0.001278    
0.001571    0.005538    0.001403    0.991487    
0.001274    0.052527    0.000520    0.945679    
0.926306    0.006886    0.003823    0.062985    
0.638246    0.038639    0.145042    0.178072    
0.266452    0.337698    0.283972    0.111878    
0.307019    0.250170    0.243307    0.199504    
0.550380    0.190997    0.122920    0.135703    
0.187982    0.330356    0.168897    0.312765    
Consensus sequence: VHHAACCACTTAAVVAH

Reverse complement motif
0.187982    0.168897    0.330356    0.312765    
0.135703    0.190997    0.122920    0.550380    
0.199504    0.250170    0.243307    0.307019    
0.266452    0.283972    0.337698    0.111878    
0.178072    0.038639    0.145042    0.638246    
0.062985    0.006886    0.003823    0.926306    
0.945679    0.052527    0.000520    0.001274    
0.991487    0.005538    0.001403    0.001571    
0.037529    0.000660    0.960534    0.001278    
0.046429    0.002121    0.000888    0.950561    
0.001978    0.000622    0.899030    0.098369    
0.054222    0.257913    0.680706    0.007160    
0.249281    0.130882    0.113226    0.506611    
0.078118    0.164793    0.197557    0.559532    
0.490770    0.141747    0.139010    0.228472    
0.335112    0.225587    0.074842    0.364458    
0.301697    0.239075    0.347856    0.111372    
Consensus sequence: DTBVTTAAGTGGTTHHV

Alignment:
-VHHAACCACTTAAVVAH
CACACACACACWCACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 90		Motif name: TFM2

Original motif
0.105634    0.514085    0.154930    0.225352    
0.239437    0.408451    0.098592    0.253521    
0.302817    0.239437    0.042254    0.415493    
0.147887    0.598592    0.169014    0.084507    
0.316901    0.422535    0.021127    0.239437    
0.049296    0.380282    0.218310    0.352113    
0.183099    0.133803    0.091549    0.591549    
0.000000    0.598592    0.246479    0.154930    
0.070423    0.753521    0.000000    0.176056    
0.232394    0.000000    0.063380    0.704225    
0.000000    0.394366    0.556338    0.049296    
0.035211    0.901408    0.000000    0.063380    
0.056338    0.591549    0.000000    0.352113    
0.119718    0.246479    0.028169    0.605634    
0.028169    0.626761    0.253521    0.091549    
0.211268    0.000000    0.077465    0.711268    
0.063380    0.190141    0.654930    0.091549    
0.126761    0.584507    0.000000    0.288732    
Consensus sequence: CHHCHBTCCTSCYTCTGC

Reserve complement motif
0.126761    0.000000    0.584507    0.288732    
0.063380    0.654930    0.190141    0.091549    
0.711268    0.000000    0.077465    0.211268    
0.028169    0.253521    0.626761    0.091549    
0.605634    0.246479    0.028169    0.119718    
0.056338    0.000000    0.591549    0.352113    
0.035211    0.000000    0.901408    0.063380    
0.000000    0.556338    0.394366    0.049296    
0.704225    0.000000    0.063380    0.232394    
0.070423    0.000000    0.753521    0.176056    
0.000000    0.246479    0.598592    0.154930    
0.591549    0.133803    0.091549    0.183099    
0.049296    0.218310    0.380282    0.352113    
0.316901    0.021127    0.422535    0.239437    
0.147887    0.169014    0.598592    0.084507    
0.415493    0.239437    0.042254    0.302817    
0.239437    0.098592    0.408451    0.253521    
0.105634    0.154930    0.514085    0.225352    
Consensus sequence: GCAGAKGSAGGABDGHDG


************************************************************************ Best Matches for Motif ID 90 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Original Motif                          Original Motif                          Forward        1              18             0.049879       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
CHHCHBTCCTSCYTCTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_primary                      Reverse Complement                      Original Motif                          Backward       1              18             0.056442       

Species: Mus musculus

Original motif
0.402634    0.249702    0.143705    0.203959    
0.709619    0.108953    0.130781    0.050647    
0.334232    0.077498    0.228818    0.359452    
0.131721    0.094794    0.234481    0.539005    
0.170102    0.237609    0.252464    0.339824    
0.244961    0.347304    0.228129    0.179606    
0.612141    0.132244    0.180110    0.075504    
0.472236    0.042388    0.234419    0.250957    
0.125213    0.007413    0.849788    0.017587    
0.702068    0.064216    0.141992    0.091724    
0.008657    0.038238    0.002959    0.950145    
0.007170    0.002244    0.986824    0.003763    
0.002862    0.979956    0.000711    0.016471    
0.971196    0.001954    0.011441    0.015409    
0.105575    0.031482    0.022836    0.840107    
0.031534    0.736742    0.032785    0.198939    
0.479153    0.347558    0.031799    0.141490    
0.056405    0.123140    0.023989    0.796466    
0.111194    0.195344    0.501360    0.192102    
0.376359    0.416820    0.072818    0.134004    
0.225111    0.249460    0.306563    0.218866    
0.405251    0.168478    0.108618    0.317653    
0.165386    0.191749    0.268604    0.374261    
Consensus sequence: HADTBVADGATGCATCMTGMVHB

Reverse complement motif
0.374261    0.191749    0.268604    0.165386    
0.317653    0.168478    0.108618    0.405251    
0.225111    0.306563    0.249460    0.218866    
0.376359    0.072818    0.416820    0.134004    
0.111194    0.501360    0.195344    0.192102    
0.796466    0.123140    0.023989    0.056405    
0.141490    0.347558    0.031799    0.479153    
0.031534    0.032785    0.736742    0.198939    
0.840107    0.031482    0.022836    0.105575    
0.015409    0.001954    0.011441    0.971196    
0.002862    0.000711    0.979956    0.016471    
0.007170    0.986824    0.002244    0.003763    
0.950145    0.038238    0.002959    0.008657    
0.091724    0.064216    0.141992    0.702068    
0.125213    0.849788    0.007413    0.017587    
0.250957    0.042388    0.234419    0.472236    
0.075504    0.132244    0.180110    0.612141    
0.244961    0.228129    0.347304    0.179606    
0.339824    0.237609    0.252464    0.170102    
0.539005    0.094794    0.234481    0.131721    
0.359452    0.077498    0.228818    0.334232    
0.050647    0.108953    0.130781    0.709619    
0.203959    0.249702    0.143705    0.402634    
Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Alignment:
HADTBVADGATGCATCMTGMVHB
-----GCAGAKGSAGGABDGHDG

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Original Motif                          Reverse Complement                      Backward       5              18             0.056596       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
CHHCHBTCCTSCYTCTGC----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Original Motif                          Reverse Complement                      Backward       6              18             0.057335       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
CHHCHBTCCTSCYTCTGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Backward       6              18             0.059861       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
CHHCHBTCCTSCYTCTGC-----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Original Motif                          Backward       4              18             0.059878       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
MHHHWHYTMCCHCCCACVAABVH
--CHHCHBTCCTSCYTCTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Reverse Complement                      Original Motif                          Forward        3              18             0.060645       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
--GCAGAKGSAGGABDGHDG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Original Motif                          Reverse Complement                      Backward       4              18             0.062629       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
-CHHCHBTCCTSCYTCTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Reverse Complement                      Backward       4              18             0.062657       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
-CHHCHBTCCTSCYTCTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Original Motif                          Reverse Complement                      Backward       4              18             0.064761       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
HBHDVHDTCTTATCTHTDDHDV
-CHHCHBTCCTSCYTCTGC---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 91		Motif name: TFM3

Original motif
0.062500    0.062500    0.312500    0.562500    
0.125000    0.062500    0.000000    0.812500    
0.000000    0.000000    0.062500    0.937500    
0.000000    0.000000    0.187500    0.812500    
0.000000    0.000000    0.125000    0.875000    
0.000000    0.250000    0.000000    0.750000    
0.000000    0.000000    0.125000    0.875000    
0.187500    0.000000    0.437500    0.375000    
0.000000    0.000000    0.125000    0.875000    
0.000000    0.125000    0.000000    0.875000    
0.000000    0.062500    0.000000    0.937500    
0.125000    0.000000    0.000000    0.875000    
0.125000    0.062500    0.000000    0.812500    
0.000000    0.000000    0.250000    0.750000    
0.250000    0.000000    0.375000    0.375000    
0.937500    0.062500    0.000000    0.000000    
0.937500    0.000000    0.000000    0.062500    
0.000000    0.312500    0.437500    0.250000    
Consensus sequence: KTTTTTTKTTTTTTDAAB

Reserve complement motif
0.000000    0.437500    0.312500    0.250000    
0.062500    0.000000    0.000000    0.937500    
0.000000    0.062500    0.000000    0.937500    
0.250000    0.375000    0.000000    0.375000    
0.750000    0.000000    0.250000    0.000000    
0.812500    0.062500    0.000000    0.125000    
0.875000    0.000000    0.000000    0.125000    
0.937500    0.062500    0.000000    0.000000    
0.875000    0.125000    0.000000    0.000000    
0.875000    0.000000    0.125000    0.000000    
0.187500    0.437500    0.000000    0.375000    
0.875000    0.000000    0.125000    0.000000    
0.750000    0.250000    0.000000    0.000000    
0.875000    0.000000    0.125000    0.000000    
0.812500    0.000000    0.187500    0.000000    
0.937500    0.000000    0.062500    0.000000    
0.812500    0.062500    0.000000    0.125000    
0.562500    0.062500    0.312500    0.062500    
Consensus sequence: BTTHAAAAAAYAAAAAAR


************************************************************************ Best Matches for Motif ID 91 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Reverse Complement                      Original Motif                          Forward        1              18             0.042615       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
HBHDVHDTCTTATCTHTDDHDV
BTTHAAAAAAYAAAAAAR----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Reverse Complement                      Original Motif                          Backward       3              18             0.047877       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
HHBDHDDAACAATDRHHHHHBW
--BTTHAAAAAAYAAAAAAR--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Reverse Complement                      Reverse Complement                      Forward        1              18             0.056469       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
VVYDDDCHCAVACAATTDBVAC
BTTHAAAAAAYAAAAAAR----

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00077        Srf_secondary                      Original Motif                          Reverse Complement                      Backward       1              17             0.524520       

Species: Mus musculus

Original motif
0.162968    0.284828    0.440984    0.111220    
0.151392    0.200635    0.205316    0.442657    
0.267215    0.083669    0.192498    0.456618    
0.332771    0.180711    0.200027    0.286491    
0.509370    0.102954    0.242569    0.145107    
0.666262    0.077309    0.154466    0.101962    
0.737968    0.113335    0.100401    0.048296    
0.658878    0.141580    0.134033    0.065510    
0.766115    0.094051    0.069763    0.070072    
0.755621    0.088491    0.044802    0.111086    
0.749083    0.135917    0.047510    0.067490    
0.663231    0.176795    0.028134    0.131839    
0.553358    0.277659    0.038655    0.130328    
0.392578    0.314083    0.209844    0.083495    
0.198462    0.237132    0.239466    0.324940    
0.275121    0.210087    0.194779    0.320013    
0.287748    0.277395    0.142704    0.292154    
Consensus sequence: VBDDAAAAAAAAMVBHH

Reverse complement motif
0.292154    0.277395    0.142704    0.287748    
0.320013    0.210087    0.194779    0.275121    
0.324940    0.237132    0.239466    0.198462    
0.083495    0.314083    0.209844    0.392578    
0.130328    0.277659    0.038655    0.553358    
0.131839    0.176795    0.028134    0.663231    
0.067490    0.135917    0.047510    0.749083    
0.111086    0.088491    0.044802    0.755621    
0.070072    0.094051    0.069763    0.766115    
0.065510    0.141580    0.134033    0.658878    
0.048296    0.113335    0.100401    0.737968    
0.101962    0.077309    0.154466    0.666262    
0.145107    0.102954    0.242569    0.509370    
0.286491    0.180711    0.200027    0.332771    
0.456618    0.083669    0.192498    0.267215    
0.442657    0.200635    0.205316    0.151392    
0.162968    0.440984    0.284828    0.111220    
Consensus sequence: HHVBYTTTTTTTTDDVV

Alignment:
-HHVBYTTTTTTTTDDVV
KTTTTTTKTTTTTTDAAB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00090        Elf3_secondary                     Original Motif                          Reverse Complement                      Backward       1              17             0.531868       

Species: Mus musculus

Original motif
0.155083    0.152982    0.490906    0.201030    
0.123195    0.312681    0.220770    0.343354    
0.110252    0.131358    0.153983    0.604406    
0.216489    0.490160    0.101348    0.192003    
0.396130    0.292429    0.103252    0.208189    
0.634770    0.070898    0.070668    0.223664    
0.667102    0.099915    0.067576    0.165407    
0.625495    0.095579    0.039353    0.239573    
0.717478    0.093228    0.024737    0.164558    
0.729965    0.048628    0.024557    0.196850    
0.670909    0.118718    0.043692    0.166681    
0.689441    0.050145    0.038829    0.221584    
0.506735    0.159498    0.095635    0.238132    
0.406093    0.298915    0.149902    0.145090    
0.193913    0.282078    0.096706    0.427303    
0.272324    0.154790    0.262469    0.310417    
0.224484    0.458724    0.060144    0.256647    
Consensus sequence: DBTHHAAAAAAAAVHDH

Reverse complement motif
0.224484    0.060144    0.458724    0.256647    
0.310417    0.154790    0.262469    0.272324    
0.427303    0.282078    0.096706    0.193913    
0.145090    0.298915    0.149902    0.406093    
0.238132    0.159498    0.095635    0.506735    
0.221584    0.050145    0.038829    0.689441    
0.166681    0.118718    0.043692    0.670909    
0.196850    0.048628    0.024557    0.729965    
0.164558    0.093228    0.024737    0.717478    
0.239573    0.095579    0.039353    0.625495    
0.165407    0.099915    0.067576    0.667102    
0.223664    0.070898    0.070668    0.634770    
0.208189    0.292429    0.103252    0.396130    
0.216489    0.101348    0.490160    0.192003    
0.604406    0.131358    0.153983    0.110252    
0.343354    0.312681    0.220770    0.123195    
0.155083    0.490906    0.152982    0.201030    
Consensus sequence: DDHBTTTTTTTTHDAVH

Alignment:
-DDHBTTTTTTTTHDAVH
KTTTTTTKTTTTTTDAAB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00121        Hoxd10                             Original Motif                          Reverse Complement                      Backward       1              17             0.539211       

Species: Mus musculus

Original motif
0.405345    0.293266    0.220907    0.080482    
0.398063    0.099034    0.333525    0.169378    
0.049753    0.190411    0.336789    0.423048    
0.243698    0.226261    0.324346    0.205696    
0.030873    0.549741    0.008321    0.411065    
0.714225    0.228092    0.020960    0.036723    
0.833992    0.010944    0.021918    0.133146    
0.008898    0.026169    0.008341    0.956591    
0.811684    0.004889    0.004751    0.178676    
0.952107    0.004322    0.004587    0.038984    
0.925365    0.008360    0.006811    0.059464    
0.850659    0.058250    0.065237    0.025855    
0.193369    0.242985    0.049515    0.514131    
0.266774    0.080601    0.239781    0.412844    
0.335522    0.125500    0.188170    0.350809    
0.407171    0.120540    0.187300    0.284989    
0.281181    0.242348    0.160247    0.316224    
Consensus sequence: VDKVYAATAAAATDDDH

Reverse complement motif
0.316224    0.242348    0.160247    0.281181    
0.284989    0.120540    0.187300    0.407171    
0.350809    0.125500    0.188170    0.335522    
0.412844    0.080601    0.239781    0.266774    
0.514131    0.242985    0.049515    0.193369    
0.025855    0.058250    0.065237    0.850659    
0.059464    0.008360    0.006811    0.925365    
0.038984    0.004322    0.004587    0.952107    
0.178676    0.004889    0.004751    0.811684    
0.956591    0.026169    0.008341    0.008898    
0.133146    0.010944    0.021918    0.833992    
0.036723    0.228092    0.020960    0.714225    
0.030873    0.008321    0.549741    0.411065    
0.243698    0.324346    0.226261    0.205696    
0.423048    0.190411    0.336789    0.049753    
0.169378    0.099034    0.333525    0.398063    
0.080482    0.293266    0.220907    0.405345    
Consensus sequence: HDDDATTTTATTKVRDB

Alignment:
-HDDDATTTTATTKVRDB
KTTTTTTKTTTTTTDAAB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00073        Foxa2_primary                      Original Motif                          Reverse Complement                      Forward        2              17             0.539687       

Species: Mus musculus

Original motif
0.335487    0.205062    0.128957    0.330494    
0.411635    0.179625    0.175701    0.233038    
0.412976    0.128602    0.091890    0.366532    
0.608396    0.079002    0.107142    0.205460    
0.433474    0.035203    0.153143    0.378180    
0.087552    0.005003    0.894586    0.012858    
0.004459    0.038951    0.001109    0.955481    
0.924470    0.068560    0.001165    0.005805    
0.920483    0.070039    0.001674    0.007805    
0.988335    0.001902    0.003155    0.006608    
0.001527    0.656726    0.002699    0.339047    
0.987505    0.001810    0.004336    0.006349    
0.719584    0.065184    0.050384    0.164848    
0.535389    0.099997    0.102849    0.261764    
0.245215    0.272017    0.301499    0.181269    
0.306107    0.209040    0.248687    0.236166    
0.223744    0.278668    0.251931    0.245657    
Consensus sequence: HHWAWGTAAAYAAAVDB

Reverse complement motif
0.223744    0.251931    0.278668    0.245657    
0.236166    0.209040    0.248687    0.306107    
0.245215    0.301499    0.272017    0.181269    
0.261764    0.099997    0.102849    0.535389    
0.164848    0.065184    0.050384    0.719584    
0.006349    0.001810    0.004336    0.987505    
0.001527    0.002699    0.656726    0.339047    
0.006608    0.001902    0.003155    0.988335    
0.007805    0.070039    0.001674    0.920483    
0.005805    0.068560    0.001165    0.924470    
0.955481    0.038951    0.001109    0.004459    
0.087552    0.894586    0.005003    0.012858    
0.378180    0.035203    0.153143    0.433474    
0.205460    0.079002    0.107142    0.608396    
0.366532    0.128602    0.091890    0.412976    
0.233038    0.179625    0.175701    0.411635    
0.330494    0.205062    0.128957    0.335487    
Consensus sequence: BDVTTTKTTTACWTWHH

Alignment:
HHWAWGTAAAYAAAVDB-
-KTTTTTTKTTTTTTDAAB

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00039        Foxj3_primary                      Reverse Complement                      Original Motif                          Forward        1              17             0.542507       

Species: Mus musculus

Original motif
0.273456    0.257473    0.208488    0.260583    
0.338566    0.133379    0.306363    0.221693    
0.475488    0.192852    0.156858    0.174803    
0.506619    0.132646    0.170373    0.190362    
0.349042    0.127275    0.325924    0.197759    
0.303850    0.013619    0.678034    0.004497    
0.014136    0.015691    0.003073    0.967100    
0.913373    0.082928    0.001910    0.001789    
0.956294    0.017745    0.000584    0.025378    
0.987796    0.001685    0.004159    0.006360    
0.002288    0.814764    0.001427    0.181521    
0.986707    0.002688    0.003346    0.007259    
0.787378    0.065481    0.057961    0.089180    
0.572982    0.089910    0.066184    0.270924    
0.224167    0.339979    0.258886    0.176968    
0.268414    0.272007    0.239541    0.220038    
0.241771    0.394748    0.174273    0.189208    
Consensus sequence: HDHADGTAAACAAAVVH

Reverse complement motif
0.241771    0.174273    0.394748    0.189208    
0.268414    0.239541    0.272007    0.220038    
0.224167    0.258886    0.339979    0.176968    
0.270924    0.089910    0.066184    0.572982    
0.089180    0.065481    0.057961    0.787378    
0.007259    0.002688    0.003346    0.986707    
0.002288    0.001427    0.814764    0.181521    
0.006360    0.001685    0.004159    0.987796    
0.025378    0.017745    0.000584    0.956294    
0.001789    0.082928    0.001910    0.913373    
0.967100    0.015691    0.003073    0.014136    
0.303850    0.678034    0.013619    0.004497    
0.197759    0.127275    0.325924    0.349042    
0.190362    0.132646    0.170373    0.506619    
0.174803    0.192852    0.156858    0.475488    
0.221693    0.133379    0.306363    0.338566    
0.260583    0.257473    0.208488    0.273456    
Consensus sequence: DVVTTTGTTTACDTHDH

Alignment:
DVVTTTGTTTACDTHDH-
BTTHAAAAAAYAAAAAAR

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00061        Foxl1_primary                      Reverse Complement                      Original Motif                          Backward       2              17             0.547029       

Species: Mus musculus

Original motif
0.323208    0.152915    0.185111    0.338766    
0.428132    0.056109    0.099487    0.416272    
0.659386    0.039965    0.035805    0.264843    
0.647143    0.049206    0.078984    0.224667    
0.208834    0.076592    0.071631    0.642943    
0.341077    0.003865    0.649511    0.005547    
0.016627    0.001866    0.001715    0.979792    
0.952319    0.045294    0.000870    0.001516    
0.988834    0.004620    0.000720    0.005826    
0.989346    0.001005    0.006467    0.003182    
0.001093    0.784230    0.001235    0.213442    
0.991209    0.002017    0.001737    0.005037    
0.801581    0.037084    0.023060    0.138274    
0.528554    0.089350    0.107501    0.274595    
0.208802    0.268646    0.368022    0.154530    
0.280218    0.221367    0.340497    0.157918    
0.146611    0.250725    0.293524    0.309140    
Consensus sequence: DWAATRTAAACAAWVVB

Reverse complement motif
0.309140    0.250725    0.293524    0.146611    
0.280218    0.340497    0.221367    0.157918    
0.208802    0.368022    0.268646    0.154530    
0.274595    0.089350    0.107501    0.528554    
0.138274    0.037084    0.023060    0.801581    
0.005037    0.002017    0.001737    0.991209    
0.001093    0.001235    0.784230    0.213442    
0.003182    0.001005    0.006467    0.989346    
0.005826    0.004620    0.000720    0.988834    
0.001516    0.045294    0.000870    0.952319    
0.979792    0.001866    0.001715    0.016627    
0.341077    0.649511    0.003865    0.005547    
0.642943    0.076592    0.071631    0.208834    
0.224667    0.049206    0.078984    0.647143    
0.264843    0.039965    0.035805    0.659386    
0.416272    0.056109    0.099487    0.428132    
0.338766    0.152915    0.185111    0.323208    
Consensus sequence: VVVWTTGTTTAMATTWD

Alignment:
-VVVWTTGTTTAMATTWD
BTTHAAAAAAYAAAAAAR-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00051        Sox8_primary                       Reverse Complement                      Reverse Complement                      Backward       2              17             0.547298       

Species: Mus musculus

Original motif
0.244952    0.197659    0.278014    0.279374    
0.244434    0.136006    0.278446    0.341114    
0.512025    0.129954    0.139069    0.218951    
0.190001    0.086232    0.125500    0.598267    
0.154692    0.325860    0.193904    0.325544    
0.384624    0.130540    0.035110    0.449726    
0.945021    0.006713    0.011975    0.036291    
0.008386    0.026630    0.004166    0.960817    
0.020908    0.005554    0.009294    0.964244    
0.149285    0.038995    0.806085    0.005635    
0.110990    0.007155    0.007797    0.874058    
0.087283    0.099671    0.059611    0.753435    
0.250662    0.432576    0.082152    0.234610    
0.251277    0.174578    0.147771    0.426374    
0.205121    0.137656    0.296366    0.360857    
0.316796    0.152457    0.164403    0.366344    
0.475864    0.128717    0.153551    0.241867    
Consensus sequence: DDATBWATTGTTHHDDD

Reverse complement motif
0.241867    0.128717    0.153551    0.475864    
0.366344    0.152457    0.164403    0.316796    
0.360857    0.137656    0.296366    0.205121    
0.426374    0.174578    0.147771    0.251277    
0.250662    0.082152    0.432576    0.234610    
0.753435    0.099671    0.059611    0.087283    
0.874058    0.007155    0.007797    0.110990    
0.149285    0.806085    0.038995    0.005635    
0.964244    0.005554    0.009294    0.020908    
0.960817    0.026630    0.004166    0.008386    
0.036291    0.006713    0.011975    0.945021    
0.449726    0.130540    0.035110    0.384624    
0.154692    0.193904    0.325860    0.325544    
0.598267    0.086232    0.125500    0.190001    
0.218951    0.129954    0.139069    0.512025    
0.341114    0.136006    0.278446    0.244434    
0.279374    0.197659    0.278014    0.244952    
Consensus sequence: DDDHDAACAATWBATDD

Alignment:
-DDDHDAACAATWBATDD
BTTHAAAAAAYAAAAAAR-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 92		Motif name: TFM11

Original motif
0.000000    0.769231    0.000000    0.230769    
0.730769    0.000000    0.192308    0.076923    
0.346154    0.576923    0.038462    0.038462    
0.923077    0.076923    0.000000    0.000000    
0.153846    0.769231    0.076923    0.000000    
0.923077    0.076923    0.000000    0.000000    
0.000000    0.807692    0.076923    0.115385    
0.846154    0.153846    0.000000    0.000000    
0.115385    0.846154    0.038462    0.000000    
0.807692    0.000000    0.000000    0.192308    
0.038462    0.884615    0.000000    0.076923    
0.692308    0.000000    0.076923    0.230769    
0.076923    0.538462    0.000000    0.384615    
0.461538    0.038462    0.269231    0.230769    
0.000000    0.807692    0.192308    0.000000    
0.807692    0.153846    0.000000    0.038462    
0.076923    0.692308    0.000000    0.230769    
0.807692    0.000000    0.192308    0.000000    
0.076923    0.730769    0.115385    0.076923    
0.923077    0.000000    0.000000    0.076923    
Consensus sequence: CAMACACACACAYDCACACA

Reserve complement motif
0.076923    0.000000    0.000000    0.923077    
0.076923    0.115385    0.730769    0.076923    
0.000000    0.000000    0.192308    0.807692    
0.076923    0.000000    0.692308    0.230769    
0.038462    0.153846    0.000000    0.807692    
0.000000    0.192308    0.807692    0.000000    
0.230769    0.038462    0.269231    0.461538    
0.076923    0.000000    0.538462    0.384615    
0.230769    0.000000    0.076923    0.692308    
0.038462    0.000000    0.884615    0.076923    
0.192308    0.000000    0.000000    0.807692    
0.115385    0.038462    0.846154    0.000000    
0.000000    0.153846    0.000000    0.846154    
0.000000    0.076923    0.807692    0.115385    
0.000000    0.076923    0.000000    0.923077    
0.153846    0.076923    0.769231    0.000000    
0.000000    0.076923    0.000000    0.923077    
0.346154    0.038462    0.576923    0.038462    
0.076923    0.000000    0.192308    0.730769    
0.000000    0.000000    0.769231    0.230769    
Consensus sequence: TGTGTGDKTGTGTGTGTRTG


************************************************************************ Best Matches for Motif ID 92 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Reverse Complement                      Original Motif                          Forward        1              20             0.042676       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
TGTGTGDKTGTGTGTGTRTG---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Reverse Complement                      Original Motif                          Backward       3              20             0.043962       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
TGTGTGDKTGTGTGTGTRTG--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Original Motif                          Original Motif                          Backward       1              20             0.044900       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
---CAMACACACACAYDCACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_secondary             Original Motif                          Original Motif                          Forward        1              20             0.049224       

Species: Mus musculus

Original motif
0.404007    0.395873    0.173319    0.026801    
0.305977    0.215534    0.215359    0.263130    
0.370148    0.250957    0.113088    0.265808    
0.324336    0.229498    0.174679    0.271487    
0.263563    0.137896    0.079217    0.519324    
0.265762    0.222582    0.082555    0.429102    
0.206721    0.288405    0.017851    0.487023    
0.164361    0.236500    0.061051    0.538088    
0.593344    0.348446    0.050304    0.007906    
0.031328    0.947050    0.007032    0.014590    
0.010428    0.956605    0.029142    0.003825    
0.459636    0.207616    0.155368    0.177380    
0.014573    0.964608    0.012209    0.008610    
0.066291    0.918196    0.008729    0.006784    
0.019488    0.866774    0.018897    0.094841    
0.767405    0.104198    0.029234    0.099164    
0.052494    0.772531    0.039832    0.135142    
0.296085    0.243498    0.350935    0.109482    
0.518843    0.226659    0.124784    0.129714    
0.647901    0.019721    0.159901    0.172477    
0.113912    0.231511    0.214864    0.439713    
0.223117    0.310596    0.293328    0.172959    
0.185557    0.487662    0.136321    0.190459    
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH

Reverse complement motif
0.185557    0.136321    0.487662    0.190459    
0.223117    0.293328    0.310596    0.172959    
0.439713    0.231511    0.214864    0.113912    
0.172477    0.019721    0.159901    0.647901    
0.129714    0.226659    0.124784    0.518843    
0.296085    0.350935    0.243498    0.109482    
0.052494    0.039832    0.772531    0.135142    
0.099164    0.104198    0.029234    0.767405    
0.019488    0.018897    0.866774    0.094841    
0.066291    0.008729    0.918196    0.006784    
0.014573    0.012209    0.964608    0.008610    
0.177380    0.207616    0.155368    0.459636    
0.010428    0.029142    0.956605    0.003825    
0.031328    0.007032    0.947050    0.014590    
0.007906    0.348446    0.050304    0.593344    
0.538088    0.236500    0.061051    0.164361    
0.487023    0.288405    0.017851    0.206721    
0.429102    0.222582    0.082555    0.265762    
0.519324    0.137896    0.079217    0.263563    
0.271487    0.229498    0.174679    0.324336    
0.265808    0.250957    0.113088    0.370148    
0.263130    0.215534    0.215359    0.305977    
0.026801    0.395873    0.173319    0.404007    
Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Alignment:
MHHHWHYTMCCHCCCACVAABVH
CAMACACACACAYDCACACA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Original Motif                          Original Motif                          Backward       2              20             0.052401       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
-CAMACACACACAYDCACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Original Motif                          Backward       1              20             0.052793       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
---CAMACACACACAYDCACACA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00050        Bhlhb2_secondary                   Original Motif                          Reverse Complement                      Forward        2              20             0.054766       

Species: Mus musculus

Original motif
0.120938    0.344851    0.124072    0.410138    
0.220931    0.169844    0.422396    0.186829    
0.127752    0.260812    0.103811    0.507625    
0.140641    0.405473    0.287668    0.166218    
0.296957    0.155579    0.301094    0.246370    
0.219647    0.287193    0.154072    0.339087    
0.049294    0.026059    0.121789    0.802859    
0.520042    0.289284    0.173423    0.017251    
0.049190    0.943472    0.004308    0.003030    
0.902609    0.006767    0.074770    0.015854    
0.003221    0.971329    0.005512    0.019937    
0.019937    0.005512    0.971329    0.003221    
0.015854    0.074770    0.006767    0.902609    
0.003030    0.004308    0.943472    0.049190    
0.003497    0.088920    0.685942    0.221641    
0.802859    0.121789    0.026059    0.049294    
0.334544    0.155170    0.275193    0.235092    
0.275957    0.132104    0.454982    0.136957    
0.134097    0.254352    0.422940    0.188611    
0.396163    0.432784    0.051281    0.119772    
0.276474    0.115627    0.419844    0.188056    
0.160759    0.088061    0.649863    0.101318    
0.203314    0.166595    0.106821    0.523270    
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT

Reverse complement motif
0.523270    0.166595    0.106821    0.203314    
0.160759    0.649863    0.088061    0.101318    
0.276474    0.419844    0.115627    0.188056    
0.396163    0.051281    0.432784    0.119772    
0.134097    0.422940    0.254352    0.188611    
0.275957    0.454982    0.132104    0.136957    
0.235092    0.155170    0.275193    0.334544    
0.049294    0.121789    0.026059    0.802859    
0.003497    0.685942    0.088920    0.221641    
0.003030    0.943472    0.004308    0.049190    
0.902609    0.074770    0.006767    0.015854    
0.019937    0.971329    0.005512    0.003221    
0.003221    0.005512    0.971329    0.019937    
0.015854    0.006767    0.074770    0.902609    
0.049190    0.004308    0.943472    0.003030    
0.017251    0.289284    0.173423    0.520042    
0.802859    0.026059    0.121789    0.049294    
0.339087    0.287193    0.154072    0.219647    
0.296957    0.301094    0.155579    0.246370    
0.140641    0.287668    0.405473    0.166218    
0.507625    0.260812    0.103811    0.127752    
0.220931    0.422396    0.169844    0.186829    
0.410138    0.344851    0.124072    0.120938    
Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
-CAMACACACACAYDCACACA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_secondary                    Original Motif                          Original Motif                          Forward        2              20             0.057516       

Species: Mus musculus

Original motif
0.477863    0.106306    0.184102    0.231729    
0.304951    0.149020    0.361418    0.184612    
0.548996    0.056128    0.348902    0.045974    
0.385727    0.477782    0.086218    0.050273    
0.409556    0.232265    0.173851    0.184328    
0.174550    0.312880    0.307123    0.205448    
0.850398    0.047204    0.041665    0.060734    
0.141234    0.548534    0.142230    0.168002    
0.059462    0.026354    0.892948    0.021236    
0.053714    0.870297    0.028935    0.047055    
0.086273    0.069147    0.805284    0.039296    
0.033781    0.573881    0.034115    0.358223    
0.035191    0.079663    0.824970    0.060176    
0.051830    0.862631    0.019359    0.066180    
0.178685    0.015738    0.762485    0.043092    
0.058988    0.042615    0.017608    0.880789    
0.202382    0.173360    0.284095    0.340163    
0.098493    0.234651    0.506524    0.160333    
0.109087    0.336204    0.250510    0.304198    
0.130945    0.250843    0.177122    0.441090    
0.353830    0.138838    0.162784    0.344548    
0.114290    0.417163    0.160662    0.307885    
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB

Reverse complement motif
0.114290    0.160662    0.417163    0.307885    
0.344548    0.138838    0.162784    0.353830    
0.441090    0.250843    0.177122    0.130945    
0.109087    0.250510    0.336204    0.304198    
0.098493    0.506524    0.234651    0.160333    
0.340163    0.173360    0.284095    0.202382    
0.880789    0.042615    0.017608    0.058988    
0.178685    0.762485    0.015738    0.043092    
0.051830    0.019359    0.862631    0.066180    
0.035191    0.824970    0.079663    0.060176    
0.033781    0.034115    0.573881    0.358223    
0.086273    0.805284    0.069147    0.039296    
0.053714    0.028935    0.870297    0.047055    
0.059462    0.892948    0.026354    0.021236    
0.141234    0.142230    0.548534    0.168002    
0.060734    0.047204    0.041665    0.850398    
0.174550    0.307123    0.312880    0.205448    
0.184328    0.232265    0.173851    0.409556    
0.385727    0.086218    0.477782    0.050273    
0.045974    0.056128    0.348902    0.548996    
0.304951    0.361418    0.149020    0.184612    
0.231729    0.106306    0.184102    0.477863    
Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Alignment:
DDRMHBACGCGYGCGTDGBBDB
-CAMACACACACAYDCACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v015681_primary               Original Motif                          Original Motif                          Backward       2              19             0.551038       

Species: Mus musculus

Original motif
0.183797    0.268049    0.330111    0.218043    
0.127599    0.330310    0.243614    0.298477    
0.143199    0.188046    0.268593    0.400162    
0.214690    0.205230    0.247090    0.332990    
0.294688    0.299104    0.327152    0.079056    
0.221909    0.193223    0.480155    0.104712    
0.444072    0.068239    0.481838    0.005852    
0.006182    0.015429    0.901278    0.077111    
0.766535    0.111138    0.121632    0.000696    
0.014848    0.973961    0.000298    0.010893    
0.001807    0.992200    0.002669    0.003324    
0.795344    0.140510    0.018576    0.045571    
0.006990    0.988200    0.002510    0.002299    
0.154898    0.842296    0.000998    0.001808    
0.029577    0.919262    0.006935    0.044226    
0.677987    0.032075    0.185065    0.104874    
0.195132    0.364580    0.319321    0.120967    
0.225412    0.115034    0.612849    0.046705    
0.548628    0.058900    0.162857    0.229616    
0.112531    0.340331    0.165910    0.381227    
0.073029    0.303078    0.363896    0.259997    
0.561485    0.260567    0.092979    0.084969    
0.132283    0.457691    0.140159    0.269867    
Consensus sequence: BBBDVVRGACCACCCAVGABBAB

Reverse complement motif
0.132283    0.140159    0.457691    0.269867    
0.084969    0.260567    0.092979    0.561485    
0.073029    0.363896    0.303078    0.259997    
0.381227    0.340331    0.165910    0.112531    
0.229616    0.058900    0.162857    0.548628    
0.225412    0.612849    0.115034    0.046705    
0.195132    0.319321    0.364580    0.120967    
0.104874    0.032075    0.185065    0.677987    
0.029577    0.006935    0.919262    0.044226    
0.154898    0.000998    0.842296    0.001808    
0.006990    0.002510    0.988200    0.002299    
0.045571    0.140510    0.018576    0.795344    
0.001807    0.002669    0.992200    0.003324    
0.014848    0.000298    0.973961    0.010893    
0.000696    0.111138    0.121632    0.766535    
0.006182    0.901278    0.015429    0.077111    
0.444072    0.481838    0.068239    0.005852    
0.221909    0.480155    0.193223    0.104712    
0.294688    0.327152    0.299104    0.079056    
0.332990    0.205230    0.247090    0.214690    
0.400162    0.188046    0.268593    0.143199    
0.127599    0.243614    0.330310    0.298477    
0.183797    0.330111    0.268049    0.218043    
Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Alignment:
-BBBDVVRGACCACCCAVGABBAB
---CAMACACACACAYDCACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00527        Foxn4_secondary                    Original Motif                          Original Motif                          Backward       2              19             0.551577       

Species: Mus musculus

Original motif
0.298336    0.418632    0.208054    0.074978    
0.289907    0.015608    0.457100    0.237385    
0.273583    0.077889    0.107860    0.540668    
0.184954    0.161611    0.384390    0.269045    
0.521826    0.156340    0.089019    0.232815    
0.356716    0.131104    0.394857    0.117323    
0.266669    0.108765    0.505273    0.119293    
0.020778    0.047199    0.919524    0.012500    
0.948536    0.018775    0.008113    0.024576    
0.010822    0.964042    0.014701    0.010434    
0.007428    0.019505    0.966351    0.006717    
0.010025    0.975678    0.008648    0.005649    
0.043796    0.120935    0.742979    0.092289    
0.008252    0.250704    0.541132    0.199913    
0.474428    0.044681    0.134430    0.346461    
0.146597    0.421317    0.143166    0.288920    
0.020540    0.181479    0.553811    0.244170    
0.129612    0.173360    0.535219    0.161808    
0.506084    0.158156    0.130983    0.204776    
0.054872    0.103043    0.545792    0.296293    
0.389882    0.171037    0.164162    0.274918    
0.225861    0.314031    0.288872    0.171237    
Consensus sequence: VDWDARRGACGCGGWHGGAKHV

Reverse complement motif
0.225861    0.288872    0.314031    0.171237    
0.274918    0.171037    0.164162    0.389882    
0.054872    0.545792    0.103043    0.296293    
0.204776    0.158156    0.130983    0.506084    
0.129612    0.535219    0.173360    0.161808    
0.020540    0.553811    0.181479    0.244170    
0.146597    0.143166    0.421317    0.288920    
0.346461    0.044681    0.134430    0.474428    
0.008252    0.541132    0.250704    0.199913    
0.043796    0.742979    0.120935    0.092289    
0.010025    0.008648    0.975678    0.005649    
0.007428    0.966351    0.019505    0.006717    
0.010822    0.014701    0.964042    0.010434    
0.024576    0.018775    0.008113    0.948536    
0.020778    0.919524    0.047199    0.012500    
0.266669    0.505273    0.108765    0.119293    
0.356716    0.394857    0.131104    0.117323    
0.232815    0.156340    0.089019    0.521826    
0.184954    0.384390    0.161611    0.269045    
0.540668    0.077889    0.107860    0.273583    
0.289907    0.457100    0.015608    0.237385    
0.298336    0.208054    0.418632    0.074978    
Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV

Alignment:
-VDWDARRGACGCGGWHGGAKHV
--CAMACACACACAYDCACACA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 93		Motif name: TFM12

Original motif
0.380282    0.211268    0.373239    0.035211    
0.746479    0.042254    0.119718    0.091549    
0.281690    0.049296    0.563380    0.105634    
0.218310    0.000000    0.443662    0.338028    
0.161972    0.126761    0.598592    0.112676    
0.267606    0.528169    0.176056    0.028169    
0.640845    0.028169    0.091549    0.239437    
0.063380    0.084507    0.809859    0.042254    
0.366197    0.246479    0.211268    0.176056    
0.471831    0.140845    0.309859    0.077465    
0.373239    0.000000    0.542254    0.084507    
0.211268    0.105634    0.605634    0.077465    
0.197183    0.302817    0.478873    0.021127    
0.408451    0.140845    0.387324    0.063380    
0.098592    0.704225    0.197183    0.000000    
0.683099    0.028169    0.070423    0.218310    
0.140845    0.373239    0.485915    0.000000    
0.788732    0.000000    0.063380    0.147887    
0.000000    0.169014    0.816901    0.014085    
0.274648    0.295775    0.239437    0.190141    
Consensus sequence: RAGKGMAGVRRGSRCASAGV

Reserve complement motif
0.274648    0.239437    0.295775    0.190141    
0.000000    0.816901    0.169014    0.014085    
0.147887    0.000000    0.063380    0.788732    
0.140845    0.485915    0.373239    0.000000    
0.218310    0.028169    0.070423    0.683099    
0.098592    0.197183    0.704225    0.000000    
0.063380    0.140845    0.387324    0.408451    
0.197183    0.478873    0.302817    0.021127    
0.211268    0.605634    0.105634    0.077465    
0.373239    0.542254    0.000000    0.084507    
0.077465    0.140845    0.309859    0.471831    
0.176056    0.246479    0.211268    0.366197    
0.063380    0.809859    0.084507    0.042254    
0.239437    0.028169    0.091549    0.640845    
0.267606    0.176056    0.528169    0.028169    
0.161972    0.598592    0.126761    0.112676    
0.218310    0.443662    0.000000    0.338028    
0.281690    0.563380    0.049296    0.105634    
0.091549    0.042254    0.119718    0.746479    
0.035211    0.211268    0.373239    0.380282    
Consensus sequence: VCTSTGKSCMKBCTRCYCTK


************************************************************************ Best Matches for Motif ID 93 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Original Motif                          Original Motif                          Forward        1              20             0.046584       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
MWSMBAARRATGCDCABHATGD
RAGKGMAGVRRGSRCASAGV--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v015681_secondary             Reverse Complement                      Reverse Complement                      Backward       1              20             0.047222       

Species: Mus musculus

Original motif
0.331499    0.188505    0.182841    0.297156    
0.328961    0.213025    0.273530    0.184484    
0.197213    0.129292    0.524914    0.148581    
0.274491    0.226406    0.312118    0.186986    
0.103231    0.393726    0.364988    0.138055    
0.552594    0.166422    0.186262    0.094722    
0.157618    0.064773    0.616497    0.161112    
0.139166    0.176098    0.621185    0.063551    
0.748420    0.062398    0.012447    0.176735    
0.116584    0.009438    0.860326    0.013653    
0.005030    0.003646    0.974877    0.016447    
0.055257    0.007181    0.921760    0.015802    
0.032748    0.058249    0.052709    0.856293    
0.105606    0.872231    0.014370    0.007793    
0.019480    0.497379    0.125899    0.357242    
0.478582    0.269713    0.061464    0.190242    
0.253985    0.287006    0.201320    0.257689    
0.319384    0.210231    0.175842    0.294543    
0.222123    0.287802    0.201294    0.288782    
0.139951    0.376041    0.081133    0.402875    
0.213450    0.343835    0.383676    0.059039    
0.322294    0.355918    0.148062    0.173725    
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH

Reverse complement motif
0.322294    0.148062    0.355918    0.173725    
0.213450    0.383676    0.343835    0.059039    
0.402875    0.376041    0.081133    0.139951    
0.288782    0.287802    0.201294    0.222123    
0.294543    0.210231    0.175842    0.319384    
0.253985    0.201320    0.287006    0.257689    
0.190242    0.269713    0.061464    0.478582    
0.019480    0.125899    0.497379    0.357242    
0.105606    0.014370    0.872231    0.007793    
0.856293    0.058249    0.052709    0.032748    
0.055257    0.921760    0.007181    0.015802    
0.005030    0.974877    0.003646    0.016447    
0.116584    0.860326    0.009438    0.013653    
0.176735    0.062398    0.012447    0.748420    
0.139166    0.621185    0.176098    0.063551    
0.157618    0.616497    0.064773    0.161112    
0.094722    0.166422    0.186262    0.552594    
0.103231    0.364988    0.393726    0.138055    
0.274491    0.312118    0.226406    0.186986    
0.197213    0.524914    0.129292    0.148581    
0.184484    0.213025    0.273530    0.328961    
0.297156    0.188505    0.182841    0.331499    
Consensus sequence: DVMHHDHKGACCCTCCTSVCBH

Alignment:
DVMHHDHKGACCCTCCTSVCBH
--VCTSTGKSCMKBCTRCYCTK

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00539        Gli2_v016060_secondary             Reverse Complement                      Original Motif                          Forward        1              20             0.047753       

Species: Mus musculus

Original motif
0.533199    0.080715    0.330435    0.055650    
0.152031    0.212841    0.110234    0.524893    
0.223934    0.264217    0.087037    0.424811    
0.115097    0.339994    0.343861    0.201048    
0.124993    0.418259    0.365642    0.091106    
0.158365    0.292428    0.088361    0.460847    
0.165479    0.561778    0.022254    0.250489    
0.136873    0.259822    0.579763    0.023543    
0.109570    0.747495    0.055128    0.087807    
0.061912    0.792986    0.109031    0.036071    
0.508703    0.267806    0.169766    0.053725    
0.040912    0.838888    0.057470    0.062730    
0.330554    0.606077    0.016192    0.047177    
0.068079    0.563969    0.029742    0.338209    
0.388799    0.291667    0.191284    0.128249    
0.183283    0.578079    0.171100    0.067538    
0.165163    0.097206    0.631377    0.106253    
0.128564    0.435496    0.253275    0.182665    
0.103395    0.088222    0.234758    0.573625    
0.432879    0.276641    0.155895    0.134585    
0.339199    0.148928    0.311036    0.200836    
0.211958    0.298526    0.158443    0.331072    
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH

Reverse complement motif
0.331072    0.298526    0.158443    0.211958    
0.200836    0.148928    0.311036    0.339199    
0.134585    0.276641    0.155895    0.432879    
0.573625    0.088222    0.234758    0.103395    
0.128564    0.253275    0.435496    0.182665    
0.165163    0.631377    0.097206    0.106253    
0.183283    0.171100    0.578079    0.067538    
0.128249    0.291667    0.191284    0.388799    
0.068079    0.029742    0.563969    0.338209    
0.330554    0.016192    0.606077    0.047177    
0.040912    0.057470    0.838888    0.062730    
0.053725    0.267806    0.169766    0.508703    
0.061912    0.109031    0.792986    0.036071    
0.109570    0.055128    0.747495    0.087807    
0.136873    0.579763    0.259822    0.023543    
0.165479    0.022254    0.561778    0.250489    
0.460847    0.292428    0.088361    0.158365    
0.124993    0.365642    0.418259    0.091106    
0.115097    0.343861    0.339994    0.201048    
0.424811    0.264217    0.087037    0.223934    
0.524893    0.212841    0.110234    0.152031    
0.055650    0.080715    0.330435    0.533199    
Consensus sequence: HDBABCGBKRGYGGCGMSBHAK

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
VCTSTGKSCMKBCTRCYCTK--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Reverse Complement                      Reverse Complement                      Backward       3              20             0.047977       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
VVYDDDCHCAVACAATTDBVAC
VCTSTGKSCMKBCTRCYCTK--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00538        Gli1_v016060_secondary             Reverse Complement                      Reverse Complement                      Forward        1              20             0.048732       

Species: Mus musculus

Original motif
0.319838    0.171199    0.138099    0.370865    
0.269358    0.196600    0.346909    0.187133    
0.176807    0.338888    0.193903    0.290402    
0.230268    0.119645    0.310500    0.339587    
0.517372    0.257658    0.111673    0.113296    
0.159477    0.126524    0.561119    0.152879    
0.117072    0.553013    0.130919    0.198996    
0.073372    0.163548    0.525014    0.238066    
0.143608    0.186896    0.170528    0.498967    
0.054943    0.079034    0.722992    0.143031    
0.048852    0.015134    0.852458    0.083556    
0.029001    0.023938    0.918900    0.028160    
0.036727    0.092645    0.090591    0.780037    
0.017757    0.057598    0.895222    0.029423    
0.026113    0.048113    0.879744    0.046030    
0.023041    0.787043    0.123490    0.066426    
0.579766    0.004868    0.296873    0.118493    
0.303862    0.042931    0.290151    0.363055    
0.099672    0.237431    0.262301    0.400597    
0.217788    0.163908    0.367628    0.250676    
0.450783    0.141108    0.226137    0.181972    
0.485086    0.102553    0.242662    0.169700    
0.109057    0.454222    0.145665    0.291056    
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB

Reverse complement motif
0.109057    0.145665    0.454222    0.291056    
0.169700    0.102553    0.242662    0.485086    
0.181972    0.141108    0.226137    0.450783    
0.217788    0.367628    0.163908    0.250676    
0.400597    0.237431    0.262301    0.099672    
0.363055    0.042931    0.290151    0.303862    
0.118493    0.004868    0.296873    0.579766    
0.023041    0.123490    0.787043    0.066426    
0.026113    0.879744    0.048113    0.046030    
0.017757    0.895222    0.057598    0.029423    
0.780037    0.092645    0.090591    0.036727    
0.029001    0.918900    0.023938    0.028160    
0.048852    0.852458    0.015134    0.083556    
0.054943    0.722992    0.079034    0.143031    
0.498967    0.186896    0.170528    0.143608    
0.073372    0.525014    0.163548    0.238066    
0.117072    0.130919    0.553013    0.198996    
0.159477    0.561119    0.126524    0.152879    
0.113296    0.257658    0.111673    0.517372    
0.339587    0.119645    0.310500    0.230268    
0.176807    0.193903    0.338888    0.290402    
0.269358    0.346909    0.196600    0.187133    
0.370865    0.171199    0.138099    0.319838    
Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
VCTSTGKSCMKBCTRCYCTK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v016060_secondary             Reverse Complement                      Original Motif                          Backward       4              20             0.049567       

Species: Mus musculus

Original motif
0.168550    0.345968    0.396524    0.088958    
0.038113    0.360882    0.114042    0.486963    
0.349356    0.180599    0.051416    0.418629    
0.258773    0.332518    0.244932    0.163778    
0.371663    0.208591    0.263136    0.156609    
0.225440    0.321741    0.175932    0.276887    
0.100827    0.656850    0.018644    0.223679    
0.494140    0.155427    0.327424    0.023009    
0.105642    0.805846    0.027712    0.060800    
0.065110    0.845072    0.058046    0.031772    
0.649343    0.110180    0.180680    0.059797    
0.064269    0.853604    0.066860    0.015268    
0.437421    0.533797    0.016833    0.011948    
0.121694    0.787708    0.016177    0.074421    
0.625382    0.066925    0.266070    0.041623    
0.117819    0.608153    0.165139    0.108889    
0.145639    0.102001    0.604926    0.147434    
0.521188    0.184986    0.064607    0.229219    
0.180371    0.274237    0.096591    0.448801    
0.071055    0.455813    0.332817    0.140315    
0.084503    0.199982    0.448293    0.267222    
0.389451    0.169545    0.155507    0.285497    
0.424314    0.227621    0.101210    0.246855    
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH

Reverse complement motif
0.246855    0.227621    0.101210    0.424314    
0.285497    0.169545    0.155507    0.389451    
0.084503    0.448293    0.199982    0.267222    
0.071055    0.332817    0.455813    0.140315    
0.448801    0.274237    0.096591    0.180371    
0.229219    0.184986    0.064607    0.521188    
0.145639    0.604926    0.102001    0.147434    
0.117819    0.165139    0.608153    0.108889    
0.041623    0.066925    0.266070    0.625382    
0.121694    0.016177    0.787708    0.074421    
0.437421    0.016833    0.533797    0.011948    
0.064269    0.066860    0.853604    0.015268    
0.059797    0.110180    0.180680    0.649343    
0.065110    0.058046    0.845072    0.031772    
0.105642    0.027712    0.805846    0.060800    
0.023009    0.155427    0.327424    0.494140    
0.100827    0.018644    0.656850    0.223679    
0.225440    0.175932    0.321741    0.276887    
0.156609    0.208591    0.263136    0.371663    
0.258773    0.244932    0.332518    0.163778    
0.418629    0.180599    0.051416    0.349356    
0.486963    0.360882    0.114042    0.038113    
0.168550    0.396524    0.345968    0.088958    
Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Alignment:
VYWVVHCRCCACMCACGAHSBHH
VCTSTGKSCMKBCTRCYCTK---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00540        Gli3_v015681_secondary             Reverse Complement                      Reverse Complement                      Backward       3              20             0.050670       

Species: Mus musculus

Original motif
0.214165    0.143436    0.372522    0.269876    
0.314445    0.406003    0.160351    0.119201    
0.137147    0.092924    0.042921    0.727007    
0.044121    0.072843    0.051741    0.831295    
0.261292    0.324124    0.298498    0.116086    
0.258125    0.323243    0.263362    0.155271    
0.204557    0.589399    0.107153    0.098891    
0.371021    0.244027    0.291102    0.093849    
0.096327    0.572718    0.011797    0.319159    
0.027282    0.046183    0.844519    0.082016    
0.018921    0.012887    0.915917    0.052275    
0.364793    0.166722    0.084229    0.384256    
0.028216    0.011233    0.951056    0.009495    
0.054974    0.004738    0.890377    0.049911    
0.006802    0.312915    0.134247    0.546036    
0.241289    0.628210    0.104788    0.025713    
0.237863    0.302807    0.213018    0.246311    
0.349399    0.203220    0.086635    0.360746    
0.386634    0.144693    0.246895    0.221779    
0.425101    0.354676    0.093374    0.126849    
0.060272    0.391320    0.104905    0.443503    
0.162090    0.190233    0.227433    0.420244    
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB

Reverse complement motif
0.420244    0.190233    0.227433    0.162090    
0.443503    0.391320    0.104905    0.060272    
0.126849    0.354676    0.093374    0.425101    
0.221779    0.144693    0.246895    0.386634    
0.360746    0.203220    0.086635    0.349399    
0.237863    0.213018    0.302807    0.246311    
0.241289    0.104788    0.628210    0.025713    
0.546036    0.312915    0.134247    0.006802    
0.054974    0.890377    0.004738    0.049911    
0.028216    0.951056    0.011233    0.009495    
0.384256    0.166722    0.084229    0.364793    
0.018921    0.915917    0.012887    0.052275    
0.027282    0.844519    0.046183    0.082016    
0.096327    0.011797    0.572718    0.319159    
0.093849    0.244027    0.291102    0.371021    
0.204557    0.107153    0.589399    0.098891    
0.258125    0.263362    0.323243    0.155271    
0.261292    0.298498    0.324124    0.116086    
0.831295    0.072843    0.051741    0.044121    
0.727007    0.092924    0.042921    0.137147    
0.314445    0.160351    0.406003    0.119201    
0.214165    0.372522    0.143436    0.269876    
Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
VCTSTGKSCMKBCTRCYCTK--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00400        Zif268                             Original Motif                          Reverse Complement                      Forward        1              20             0.053252       

Species: Mus musculus

Original motif
0.104824    0.412716    0.254506    0.227955    
0.644922    0.065476    0.140479    0.149122    
0.201205    0.166164    0.347131    0.285501    
0.360606    0.256316    0.150766    0.232313    
0.199831    0.240681    0.279350    0.280137    
0.234308    0.204076    0.321306    0.240310    
0.274112    0.462435    0.111425    0.152028    
0.067070    0.717501    0.073934    0.141496    
0.106745    0.084442    0.658566    0.150247    
0.025128    0.967053    0.003585    0.004234    
0.006412    0.982989    0.003227    0.007371    
0.009588    0.877620    0.002571    0.110221    
0.621521    0.355443    0.015669    0.007366    
0.002600    0.980275    0.004191    0.012934    
0.118773    0.026658    0.783843    0.070725    
0.022358    0.822101    0.024684    0.130857    
0.713212    0.080912    0.128793    0.077084    
0.166568    0.250955    0.107934    0.474544    
0.225040    0.222494    0.163301    0.389166    
0.268976    0.223206    0.265314    0.242504    
0.137052    0.229058    0.148439    0.485451    
0.135819    0.304550    0.141994    0.417637    
0.272440    0.319501    0.230580    0.177478    
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV

Reverse complement motif
0.272440    0.230580    0.319501    0.177478    
0.417637    0.304550    0.141994    0.135819    
0.485451    0.229058    0.148439    0.137052    
0.242504    0.223206    0.265314    0.268976    
0.389166    0.222494    0.163301    0.225040    
0.474544    0.250955    0.107934    0.166568    
0.077084    0.080912    0.128793    0.713212    
0.022358    0.024684    0.822101    0.130857    
0.118773    0.783843    0.026658    0.070725    
0.002600    0.004191    0.980275    0.012934    
0.007366    0.355443    0.015669    0.621521    
0.009588    0.002571    0.877620    0.110221    
0.006412    0.003227    0.982989    0.007371    
0.025128    0.003585    0.967053    0.004234    
0.106745    0.658566    0.084442    0.150247    
0.067070    0.073934    0.717501    0.141496    
0.274112    0.111425    0.462435    0.152028    
0.234308    0.321306    0.204076    0.240310    
0.280137    0.240681    0.279350    0.199831    
0.232313    0.256316    0.150766    0.360606    
0.201205    0.347131    0.166164    0.285501    
0.149122    0.065476    0.140479    0.644922    
0.104824    0.254506    0.412716    0.227955    
Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
RAGKGMAGVRRGSRCASAGV---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00526        Foxn1_primary                      Reverse Complement                      Reverse Complement                      Forward        2              20             0.053608       

Species: Mus musculus

Original motif
0.456612    0.057181    0.078281    0.407926    
0.460529    0.185506    0.083106    0.270859    
0.445717    0.179510    0.239355    0.135417    
0.116339    0.145186    0.275331    0.463144    
0.239398    0.142078    0.480004    0.138520    
0.355157    0.217877    0.284296    0.142670    
0.318602    0.444835    0.153321    0.083243    
0.609569    0.055866    0.280349    0.054216    
0.062297    0.769824    0.027844    0.140035    
0.151868    0.019245    0.803188    0.025699    
0.011842    0.952534    0.017959    0.017665    
0.017665    0.017959    0.952534    0.011842    
0.025699    0.803188    0.019245    0.151868    
0.140035    0.027844    0.769824    0.062297    
0.054216    0.280349    0.055866    0.609569    
0.013084    0.624655    0.177956    0.184305    
0.287647    0.183527    0.295753    0.233074    
0.042309    0.345931    0.198458    0.413301    
0.338138    0.266033    0.045367    0.350462    
0.302850    0.155320    0.074662    0.467168    
0.240926    0.068901    0.283055    0.407118    
0.409954    0.183157    0.154186    0.252704    
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH

Reverse complement motif
0.252704    0.183157    0.154186    0.409954    
0.407118    0.068901    0.283055    0.240926    
0.467168    0.155320    0.074662    0.302850    
0.350462    0.266033    0.045367    0.338138    
0.413301    0.345931    0.198458    0.042309    
0.287647    0.295753    0.183527    0.233074    
0.013084    0.177956    0.624655    0.184305    
0.609569    0.280349    0.055866    0.054216    
0.140035    0.769824    0.027844    0.062297    
0.025699    0.019245    0.803188    0.151868    
0.017665    0.952534    0.017959    0.011842    
0.011842    0.017959    0.952534    0.017665    
0.151868    0.803188    0.019245    0.025699    
0.062297    0.027844    0.769824    0.140035    
0.054216    0.055866    0.280349    0.609569    
0.318602    0.153321    0.444835    0.083243    
0.142670    0.217877    0.284296    0.355157    
0.239398    0.480004    0.142078    0.138520    
0.463144    0.145186    0.275331    0.116339    
0.135417    0.179510    0.239355    0.445717    
0.270859    0.185506    0.083106    0.460529    
0.407926    0.057181    0.078281    0.456612    
Consensus sequence: HDWHMHGACGCGCGTRBVVBHW

Alignment:
HDWHMHGACGCGCGTRBVVBHW
-VCTSTGKSCMKBCTRCYCTK-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00098        Rfx3_secondary                     Original Motif                          Reverse Complement                      Forward        4              20             0.055457       

Species: Mus musculus

Original motif
0.314514    0.275352    0.257617    0.152518    
0.126939    0.598294    0.130576    0.144192    
0.102265    0.155334    0.177957    0.564445    
0.129288    0.282678    0.326990    0.261044    
0.318166    0.227823    0.175681    0.278330    
0.109019    0.380838    0.278328    0.231815    
0.226145    0.289206    0.291300    0.193348    
0.035863    0.844339    0.072582    0.047216    
0.223793    0.187244    0.088092    0.500871    
0.039800    0.029681    0.026201    0.904317    
0.298298    0.032147    0.654746    0.014809    
0.014729    0.022023    0.944826    0.018422    
0.485114    0.004925    0.013785    0.496176    
0.035708    0.020381    0.240804    0.703108    
0.951152    0.012738    0.017886    0.018224    
0.023713    0.944394    0.009538    0.022355    
0.291067    0.385205    0.232388    0.091339    
0.340334    0.199588    0.311526    0.148552    
0.198713    0.472138    0.178319    0.150830    
0.321155    0.269932    0.311301    0.097612    
0.412646    0.195252    0.231950    0.160152    
0.297134    0.180928    0.250400    0.271538    
0.151169    0.305386    0.358574    0.184871    
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB

Reverse complement motif
0.151169    0.358574    0.305386    0.184871    
0.271538    0.180928    0.250400    0.297134    
0.160152    0.195252    0.231950    0.412646    
0.097612    0.269932    0.311301    0.321155    
0.198713    0.178319    0.472138    0.150830    
0.148552    0.199588    0.311526    0.340334    
0.291067    0.232388    0.385205    0.091339    
0.023713    0.009538    0.944394    0.022355    
0.018224    0.012738    0.017886    0.951152    
0.703108    0.020381    0.240804    0.035708    
0.496176    0.004925    0.013785    0.485114    
0.014729    0.944826    0.022023    0.018422    
0.298298    0.654746    0.032147    0.014809    
0.904317    0.029681    0.026201    0.039800    
0.500871    0.187244    0.088092    0.223793    
0.035863    0.072582    0.844339    0.047216    
0.226145    0.291300    0.289206    0.193348    
0.109019    0.278328    0.380838    0.231815    
0.278330    0.227823    0.175681    0.318166    
0.129288    0.326990    0.282678    0.261044    
0.564445    0.155334    0.177957    0.102265    
0.126939    0.130576    0.598294    0.144192    
0.152518    0.275352    0.257617    0.314514    
Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
---RAGKGMAGVRRGSRCASAGV

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Dataset #: 5		Motif ID: 94		Motif name: TFM13

Original motif
0.071429    0.142857    0.000000    0.785714    
0.071429    0.071429    0.000000    0.857143    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.071429    0.285714    0.642857    
0.000000    0.142857    0.000000    0.857143    
0.000000    0.000000    0.000000    1.000000    
0.071429    0.000000    0.071429    0.857143    
0.142857    0.000000    0.357143    0.500000    
0.071429    0.000000    0.000000    0.928571    
0.000000    0.071429    0.000000    0.928571    
0.000000    0.000000    0.357143    0.642857    
0.000000    0.000000    0.000000    1.000000    
0.000000    0.000000    0.214286    0.785714    
0.142857    0.000000    0.000000    0.857143    
0.571429    0.071429    0.214286    0.142857    
0.857143    0.000000    0.000000    0.142857    
0.142857    0.000000    0.285714    0.571429    
0.000000    0.071429    0.285714    0.642857    
0.357143    0.357143    0.071429    0.214286    
0.428571    0.000000    0.071429    0.500000    
Consensus sequence: TTTTTTTKTTKTTTAATTHW

Reserve complement motif
0.500000    0.000000    0.071429    0.428571    
0.214286    0.357143    0.071429    0.357143    
0.642857    0.071429    0.285714    0.000000    
0.571429    0.000000    0.285714    0.142857    
0.142857    0.000000    0.000000    0.857143    
0.142857    0.071429    0.214286    0.571429    
0.857143    0.000000    0.000000    0.142857    
0.785714    0.000000    0.214286    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.642857    0.000000    0.357143    0.000000    
0.928571    0.071429    0.000000    0.000000    
0.928571    0.000000    0.000000    0.071429    
0.500000    0.000000    0.357143    0.142857    
0.857143    0.000000    0.071429    0.071429    
1.000000    0.000000    0.000000    0.000000    
0.857143    0.142857    0.000000    0.000000    
0.642857    0.071429    0.285714    0.000000    
1.000000    0.000000    0.000000    0.000000    
0.857143    0.071429    0.000000    0.071429    
0.785714    0.142857    0.000000    0.071429    
Consensus sequence: WHAATTAAARAARAAAAAAA


************************************************************************ Best Matches for Motif ID 94 (Highest to Lowest) ************************************************************************

Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_primary                      Reverse Complement                      Original Motif                          Forward        2              20             0.055871       

Species: Mus musculus

Original motif
0.151572    0.262753    0.258275    0.327401    
0.221834    0.113385    0.275380    0.389400    
0.297769    0.136928    0.134678    0.430625    
0.270099    0.110415    0.271106    0.348380    
0.265471    0.090253    0.223340    0.420936    
0.616582    0.090091    0.171960    0.121367    
0.197318    0.107541    0.406904    0.288237    
0.798258    0.046950    0.001406    0.153385    
0.003195    0.002516    0.989707    0.004582    
0.991503    0.002748    0.002617    0.003132    
0.005015    0.002764    0.003026    0.989195    
0.948394    0.008932    0.001344    0.041330    
0.973109    0.004100    0.004081    0.018710    
0.040365    0.113905    0.828185    0.017545    
0.736608    0.130524    0.113464    0.019404    
0.415921    0.106101    0.316613    0.161365    
0.376582    0.170927    0.155572    0.296919    
0.137731    0.197151    0.211055    0.454064    
0.324853    0.122747    0.246107    0.306293    
0.462490    0.207311    0.159392    0.170807    
0.380420    0.188972    0.311990    0.118618    
0.222178    0.157873    0.380486    0.239463    
Consensus sequence: BDHDDADAGATAAGADHBDHVD

Reverse complement motif
0.222178    0.380486    0.157873    0.239463    
0.118618    0.188972    0.311990    0.380420    
0.170807    0.207311    0.159392    0.462490    
0.306293    0.122747    0.246107    0.324853    
0.454064    0.197151    0.211055    0.137731    
0.296919    0.170927    0.155572    0.376582    
0.161365    0.106101    0.316613    0.415921    
0.019404    0.130524    0.113464    0.736608    
0.040365    0.828185    0.113905    0.017545    
0.018710    0.004100    0.004081    0.973109    
0.041330    0.008932    0.001344    0.948394    
0.989195    0.002764    0.003026    0.005015    
0.003132    0.002748    0.002617    0.991503    
0.003195    0.989707    0.002516    0.004582    
0.153385    0.046950    0.001406    0.798258    
0.197318    0.406904    0.107541    0.288237    
0.121367    0.090091    0.171960    0.616582    
0.420936    0.090253    0.223340    0.265471    
0.348380    0.110415    0.271106    0.270099    
0.430625    0.136928    0.134678    0.297769    
0.389400    0.113385    0.275380    0.221834    
0.327401    0.262753    0.258275    0.151572    
Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Alignment:
BDHDDADAGATAAGADHBDHVD
-WHAATTAAARAARAAAAAAA-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_primary                       Reverse Complement                      Original Motif                          Backward       3              20             0.060496       

Species: Mus musculus

Original motif
0.360997    0.300272    0.115555    0.223177    
0.309749    0.228429    0.166233    0.295589    
0.149419    0.176868    0.240155    0.433558    
0.379704    0.095791    0.276373    0.248133    
0.394549    0.174184    0.130641    0.300626    
0.443749    0.070776    0.211081    0.274393    
0.364301    0.074356    0.370406    0.190936    
0.791976    0.038475    0.093390    0.076159    
0.963721    0.001826    0.002456    0.031997    
0.004516    0.954596    0.008092    0.032796    
0.981080    0.002062    0.002161    0.014697    
0.986185    0.001846    0.006976    0.004992    
0.059567    0.003649    0.002189    0.934595    
0.495328    0.024257    0.240450    0.239965    
0.305027    0.094878    0.526069    0.074025    
0.418442    0.196237    0.158323    0.226998    
0.336713    0.220452    0.191155    0.251680    
0.192296    0.300342    0.169047    0.338315    
0.240387    0.144634    0.128513    0.486465    
0.290763    0.271259    0.116600    0.321377    
0.224825    0.296233    0.229255    0.249687    
0.493240    0.171285    0.075148    0.260326    
Consensus sequence: HHBDHDDAACAATDRHHHHHBW

Reverse complement motif
0.260326    0.171285    0.075148    0.493240    
0.224825    0.229255    0.296233    0.249687    
0.321377    0.271259    0.116600    0.290763    
0.486465    0.144634    0.128513    0.240387    
0.338315    0.300342    0.169047    0.192296    
0.251680    0.220452    0.191155    0.336713    
0.226998    0.196237    0.158323    0.418442    
0.305027    0.526069    0.094878    0.074025    
0.239965    0.024257    0.240450    0.495328    
0.934595    0.003649    0.002189    0.059567    
0.004992    0.001846    0.006976    0.986185    
0.014697    0.002062    0.002161    0.981080    
0.004516    0.008092    0.954596    0.032796    
0.031997    0.001826    0.002456    0.963721    
0.076159    0.038475    0.093390    0.791976    
0.364301    0.370406    0.074356    0.190936    
0.274393    0.070776    0.211081    0.443749    
0.300626    0.174184    0.130641    0.394549    
0.248133    0.095791    0.276373    0.379704    
0.433558    0.176868    0.240155    0.149419    
0.295589    0.228429    0.166233    0.309749    
0.223177    0.300272    0.115555    0.360997    
Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Alignment:
HHBDHDDAACAATDRHHHHHBW
WHAATTAAARAARAAAAAAA--

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00032        Gata3_secondary                    Original Motif                          Original Motif                          Backward       2              20             0.078424       

Species: Mus musculus

Original motif
0.177641    0.319872    0.115137    0.387350    
0.136644    0.182137    0.205873    0.475347    
0.254263    0.244280    0.165207    0.336250    
0.240415    0.207557    0.237497    0.314530    
0.271041    0.214702    0.364395    0.149863    
0.095475    0.320104    0.191738    0.392682    
0.500902    0.142722    0.026556    0.329820    
0.051221    0.023698    0.897245    0.027836    
0.922410    0.027509    0.024058    0.026023    
0.030735    0.070903    0.024248    0.874114    
0.242120    0.231992    0.225143    0.300745    
0.106956    0.220471    0.283490    0.389083    
0.152079    0.165830    0.135066    0.547025    
0.839205    0.051581    0.060119    0.049095    
0.041204    0.069147    0.070830    0.818819    
0.051861    0.848177    0.027599    0.072363    
0.383793    0.016807    0.397470    0.201931    
0.381899    0.215846    0.255908    0.146347    
0.094792    0.358651    0.280905    0.265652    
0.296132    0.181545    0.178433    0.343890    
0.301997    0.254722    0.108566    0.334714    
0.349481    0.270693    0.137507    0.242319    
Consensus sequence: HBHDVBWGATHBTATCRVBHHH

Reverse complement motif
0.242319    0.270693    0.137507    0.349481    
0.334714    0.254722    0.108566    0.301997    
0.343890    0.181545    0.178433    0.296132    
0.094792    0.280905    0.358651    0.265652    
0.146347    0.215846    0.255908    0.381899    
0.383793    0.397470    0.016807    0.201931    
0.051861    0.027599    0.848177    0.072363    
0.818819    0.069147    0.070830    0.041204    
0.049095    0.051581    0.060119    0.839205    
0.547025    0.165830    0.135066    0.152079    
0.389083    0.220471    0.283490    0.106956    
0.300745    0.231992    0.225143    0.242120    
0.874114    0.070903    0.024248    0.030735    
0.026023    0.027509    0.024058    0.922410    
0.051221    0.897245    0.023698    0.027836    
0.329820    0.142722    0.026556    0.500902    
0.392682    0.320104    0.191738    0.095475    
0.271041    0.364395    0.214702    0.149863    
0.314530    0.207557    0.237497    0.240415    
0.336250    0.244280    0.165207    0.254263    
0.475347    0.182137    0.205873    0.136644    
0.387350    0.319872    0.115137    0.177641    
Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Alignment:
HBHDVBWGATHBTATCRVBHHH
-TTTTTTTKTTKTTTAATTHW-

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00034        Sox7_secondary                     Original Motif                          Original Motif                          Backward       1              20             0.079035       

Species: Mus musculus

Original motif
0.067627    0.131333    0.654425    0.146615    
0.156488    0.114442    0.145630    0.583441    
0.206450    0.265630    0.358017    0.169903    
0.090729    0.460713    0.274712    0.173847    
0.285994    0.099998    0.154485    0.459523    
0.635908    0.184787    0.072982    0.106323    
0.748421    0.039204    0.092605    0.119769    
0.081342    0.061327    0.044532    0.812799    
0.143120    0.043879    0.024216    0.788785    
0.247544    0.092102    0.621453    0.038901    
0.295531    0.036295    0.027594    0.640580    
0.194561    0.305468    0.339916    0.160055    
0.175038    0.193568    0.101212    0.530182    
0.145226    0.167488    0.559871    0.127415    
0.271501    0.237429    0.206701    0.284369    
0.216834    0.109191    0.569605    0.104370    
0.182624    0.177160    0.300475    0.339742    
0.331737    0.198645    0.265137    0.204482    
0.230155    0.359365    0.183450    0.227029    
0.056581    0.067297    0.463052    0.413070    
0.198891    0.324626    0.304424    0.172059    
0.181968    0.287547    0.202419    0.328066    
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB

Reverse complement motif
0.328066    0.287547    0.202419    0.181968    
0.198891    0.304424    0.324626    0.172059    
0.056581    0.463052    0.067297    0.413070    
0.230155    0.183450    0.359365    0.227029    
0.204482    0.198645    0.265137    0.331737    
0.339742    0.177160    0.300475    0.182624    
0.216834    0.569605    0.109191    0.104370    
0.284369    0.237429    0.206701    0.271501    
0.145226    0.559871    0.167488    0.127415    
0.530182    0.193568    0.101212    0.175038    
0.194561    0.339916    0.305468    0.160055    
0.640580    0.036295    0.027594    0.295531    
0.247544    0.621453    0.092102    0.038901    
0.788785    0.043879    0.024216    0.143120    
0.812799    0.061327    0.044532    0.081342    
0.119769    0.039204    0.092605    0.748421    
0.106323    0.184787    0.072982    0.635908    
0.459523    0.099998    0.154485    0.285994    
0.090729    0.274712    0.460713    0.173847    
0.206450    0.358017    0.265630    0.169903    
0.583441    0.114442    0.145630    0.156488    
0.067627    0.654425    0.131333    0.146615    
Consensus sequence: VVYDDDCHCAVACAATTDBVAC

Alignment:
GTVBDAATTGTVTGHGDDHKVB
--TTTTTTTKTTKTTTAATTHW

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00528        Foxm1_secondary                    Reverse Complement                      Original Motif                          Backward       4              19             0.574613       

Species: Mus musculus

Original motif
0.399785    0.446658    0.111435    0.042122    
0.535175    0.103991    0.089706    0.271128    
0.078171    0.387987    0.375083    0.158759    
0.309001    0.519142    0.070618    0.101239    
0.201844    0.255818    0.323149    0.219190    
0.534101    0.109845    0.235026    0.121028    
0.656038    0.037473    0.261484    0.045006    
0.315713    0.164290    0.471815    0.048182    
0.651960    0.009412    0.328237    0.010391    
0.937365    0.017313    0.007516    0.037807    
0.019983    0.044238    0.012387    0.923392    
0.061195    0.021485    0.881645    0.035675    
0.017521    0.952998    0.013139    0.016342    
0.254160    0.029735    0.493023    0.223082    
0.239200    0.593324    0.114503    0.052973    
0.610822    0.071539    0.099169    0.218470    
0.166610    0.389712    0.204400    0.239278    
0.227752    0.361626    0.178497    0.232125    
0.537030    0.182466    0.026035    0.254470    
0.235902    0.151006    0.043788    0.569304    
0.081851    0.250397    0.590059    0.077693    
0.340417    0.189613    0.272075    0.197895    
Consensus sequence: MWSMBAARRATGCDCABHATGD

Reverse complement motif
0.197895    0.189613    0.272075    0.340417    
0.081851    0.590059    0.250397    0.077693    
0.569304    0.151006    0.043788    0.235902    
0.254470    0.182466    0.026035    0.537030    
0.227752    0.178497    0.361626    0.232125    
0.166610    0.204400    0.389712    0.239278    
0.218470    0.071539    0.099169    0.610822    
0.239200    0.114503    0.593324    0.052973    
0.254160    0.493023    0.029735    0.223082    
0.017521    0.013139    0.952998    0.016342    
0.061195    0.881645    0.021485    0.035675    
0.923392    0.044238    0.012387    0.019983    
0.037807    0.017313    0.007516    0.937365    
0.010391    0.009412    0.328237    0.651960    
0.315713    0.471815    0.164290    0.048182    
0.045006    0.037473    0.261484    0.656038    
0.121028    0.109845    0.235026    0.534101    
0.201844    0.323149    0.255818    0.219190    
0.309001    0.070618    0.519142    0.101239    
0.078171    0.375083    0.387987    0.158759    
0.271128    0.103991    0.089706    0.535175    
0.399785    0.111435    0.446658    0.042122    
Consensus sequence: DCATDBTGHGCATKMTTBRSWR

Alignment:
-MWSMBAARRATGCDCABHATGD
WHAATTAAARAARAAAAAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00077        Srf_secondary                      Reverse Complement                      Original Motif                          Forward        4              17             1.544397       

Species: Mus musculus

Original motif
0.162968    0.284828    0.440984    0.111220    
0.151392    0.200635    0.205316    0.442657    
0.267215    0.083669    0.192498    0.456618    
0.332771    0.180711    0.200027    0.286491    
0.509370    0.102954    0.242569    0.145107    
0.666262    0.077309    0.154466    0.101962    
0.737968    0.113335    0.100401    0.048296    
0.658878    0.141580    0.134033    0.065510    
0.766115    0.094051    0.069763    0.070072    
0.755621    0.088491    0.044802    0.111086    
0.749083    0.135917    0.047510    0.067490    
0.663231    0.176795    0.028134    0.131839    
0.553358    0.277659    0.038655    0.130328    
0.392578    0.314083    0.209844    0.083495    
0.198462    0.237132    0.239466    0.324940    
0.275121    0.210087    0.194779    0.320013    
0.287748    0.277395    0.142704    0.292154    
Consensus sequence: VBDDAAAAAAAAMVBHH

Reverse complement motif
0.292154    0.277395    0.142704    0.287748    
0.320013    0.210087    0.194779    0.275121    
0.324940    0.237132    0.239466    0.198462    
0.083495    0.314083    0.209844    0.392578    
0.130328    0.277659    0.038655    0.553358    
0.131839    0.176795    0.028134    0.663231    
0.067490    0.135917    0.047510    0.749083    
0.111086    0.088491    0.044802    0.755621    
0.070072    0.094051    0.069763    0.766115    
0.065510    0.141580    0.134033    0.658878    
0.048296    0.113335    0.100401    0.737968    
0.101962    0.077309    0.154466    0.666262    
0.145107    0.102954    0.242569    0.509370    
0.286491    0.180711    0.200027    0.332771    
0.456618    0.083669    0.192498    0.267215    
0.442657    0.200635    0.205316    0.151392    
0.162968    0.440984    0.284828    0.111220    
Consensus sequence: HHVBYTTTTTTTTDDVV

Alignment:
HHVBYTTTTTTTTDDVV---
---WHAATTAAARAARAAAAAAA

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00262        Lhx1                               Original Motif                          Reverse Complement                      Backward       1              17             1.549722       

Species: Mus musculus

Original motif
0.315209    0.366241    0.224448    0.094102    
0.226797    0.179144    0.492088    0.101972    
0.381904    0.174944    0.190109    0.253043    
0.579946    0.093451    0.164863    0.161740    
0.033857    0.165951    0.023937    0.776255    
0.010562    0.080337    0.000382    0.908720    
0.983678    0.007671    0.007262    0.001389    
0.976701    0.001039    0.004283    0.017977    
0.017977    0.004283    0.001039    0.976701    
0.001389    0.007262    0.007671    0.983678    
0.908720    0.000382    0.080337    0.010562    
0.776255    0.023937    0.165951    0.033857    
0.372268    0.146397    0.084885    0.396450    
0.497647    0.117799    0.091325    0.293229    
0.643159    0.113094    0.055630    0.188117    
0.275637    0.292310    0.136698    0.295355    
0.149905    0.181595    0.349326    0.319174    
Consensus sequence: VVDATTAATTAAWWAHB

Reverse complement motif
0.149905    0.349326    0.181595    0.319174    
0.295355    0.292310    0.136698    0.275637    
0.188117    0.113094    0.055630    0.643159    
0.293229    0.117799    0.091325    0.497647    
0.396450    0.146397    0.084885    0.372268    
0.033857    0.023937    0.165951    0.776255    
0.010562    0.000382    0.080337    0.908720    
0.983678    0.007262    0.007671    0.001389    
0.976701    0.004283    0.001039    0.017977    
0.017977    0.001039    0.004283    0.976701    
0.001389    0.007671    0.007262    0.983678    
0.908720    0.080337    0.000382    0.010562    
0.776255    0.165951    0.023937    0.033857    
0.161740    0.093451    0.164863    0.579946    
0.253043    0.174944    0.190109    0.381904    
0.226797    0.492088    0.179144    0.101972    
0.315209    0.224448    0.366241    0.094102    
Consensus sequence: BHTWWTTAATTAATDVV

Alignment:
---BHTWWTTAATTAATDVV
TTTTTTTKTTKTTTAATTHW

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00188        Lmx1a                              Original Motif                          Reverse Complement                      Forward        4              17             1.551620       

Species: Mus musculus

Original motif
0.163027    0.506393    0.246327    0.084254    
0.173471    0.211164    0.477036    0.138330    
0.431859    0.182416    0.155298    0.230427    
0.420560    0.127574    0.126915    0.324951    
0.060842    0.128686    0.037075    0.773398    
0.032236    0.035967    0.001358    0.930439    
0.938541    0.008352    0.007051    0.046057    
0.964464    0.001596    0.003362    0.030579    
0.030579    0.003362    0.001596    0.964464    
0.046057    0.007051    0.008352    0.938541    
0.930439    0.001358    0.035967    0.032236    
0.773398    0.037075    0.128686    0.060842    
0.498149    0.057242    0.091924    0.352686    
0.520755    0.121277    0.054120    0.303848    
0.483290    0.175070    0.069683    0.271957    
0.221557    0.366894    0.153619    0.257930    
0.167920    0.342643    0.169856    0.319581    
Consensus sequence: CVHHTTAATTAAWWWHB

Reverse complement motif
0.167920    0.169856    0.342643    0.319581    
0.221557    0.153619    0.366894    0.257930    
0.271957    0.175070    0.069683    0.483290    
0.303848    0.121277    0.054120    0.520755    
0.352686    0.057242    0.091924    0.498149    
0.060842    0.037075    0.128686    0.773398    
0.032236    0.001358    0.035967    0.930439    
0.938541    0.007051    0.008352    0.046057    
0.964464    0.003362    0.001596    0.030579    
0.030579    0.001596    0.003362    0.964464    
0.046057    0.008352    0.007051    0.938541    
0.930439    0.035967    0.001358    0.032236    
0.773398    0.128686    0.037075    0.060842    
0.324951    0.127574    0.126915    0.420560    
0.230427    0.182416    0.155298    0.431859    
0.173471    0.477036    0.211164    0.138330    
0.163027    0.246327    0.506393    0.084254    
Consensus sequence: BDWWWTTAATTAAHHVG

Alignment:
CVHHTTAATTAAWWWHB---
---TTTTTTTKTTKTTTAATTHW

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00244        Tlx2                               Original Motif                          Reverse Complement                      Backward       2              17             1.552541       

Species: Mus musculus

Original motif
0.105929    0.200768    0.276304    0.416999    
0.605737    0.082484    0.045449    0.266331    
0.616140    0.070870    0.219578    0.093411    
0.207168    0.101768    0.138909    0.552155    
0.205588    0.314073    0.063564    0.416776    
0.753104    0.060249    0.064598    0.122049    
0.785626    0.028841    0.041793    0.143739    
0.035001    0.038504    0.018619    0.907876    
0.039875    0.038526    0.009504    0.912095    
0.920557    0.010057    0.045031    0.024356    
0.806507    0.031077    0.030857    0.131559    
0.170184    0.056552    0.043413    0.729851    
0.630114    0.051409    0.080078    0.238398    
0.554265    0.093528    0.223411    0.128796    
0.183854    0.390999    0.093847    0.331300    
0.289988    0.101149    0.103803    0.505061    
0.400594    0.061089    0.136478    0.401839    
Consensus sequence: BAATHAATTAATAAHWW

Reverse complement motif
0.401839    0.061089    0.136478    0.400594    
0.505061    0.101149    0.103803    0.289988    
0.183854    0.093847    0.390999    0.331300    
0.128796    0.093528    0.223411    0.554265    
0.238398    0.051409    0.080078    0.630114    
0.729851    0.056552    0.043413    0.170184    
0.131559    0.031077    0.030857    0.806507    
0.024356    0.010057    0.045031    0.920557    
0.912095    0.038526    0.009504    0.039875    
0.907876    0.038504    0.018619    0.035001    
0.143739    0.028841    0.041793    0.785626    
0.122049    0.060249    0.064598    0.753104    
0.416776    0.314073    0.063564    0.205588    
0.552155    0.101768    0.138909    0.207168    
0.093411    0.070870    0.219578    0.616140    
0.266331    0.082484    0.045449    0.605737    
0.416999    0.200768    0.276304    0.105929    
Consensus sequence: WWDTTATTAATTHATTV

Alignment:
---BAATHAATTAATAAHWW
TTTTTTTKTTKTTTAATTHW-

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Motif ID       Motif name                         Matching format of first motif          Matching format of second motif         Direction      Position #     # of overlap   Similarity score
UP00169        Lmx1b                              Reverse Complement                      Reverse Complement                      Backward       4              17             1.552585       

Species: Mus musculus

Original motif
0.336931    0.220707    0.306671    0.135692    
0.251068    0.126246    0.394767    0.227919    
0.318914    0.086872    0.150663    0.443551    
0.368649    0.051170    0.092361    0.487819    
0.359682    0.088506    0.064771    0.487041    
0.019535    0.162692    0.015925    0.801848    
0.015902    0.024224    0.000652    0.959222    
0.974698    0.006086    0.002334    0.016882    
0.978085    0.001281    0.005421    0.015214    
0.015214    0.005421    0.001281    0.978085    
0.016882    0.002334    0.006086    0.974698    
0.959222    0.000652    0.024224    0.015902    
0.801848    0.015925    0.162692    0.019535    
0.242323    0.115688    0.116364    0.525625    
0.283782    0.097563    0.188384    0.430271    
0.252386    0.255982    0.135946    0.355686    
0.141430    0.249462    0.350759    0.258349    
Consensus sequence: VDWWWTTAATTAATDHB

Reverse complement motif
0.141430    0.350759    0.249462    0.258349    
0.355686    0.255982    0.135946    0.252386    
0.430271    0.097563    0.188384    0.283782    
0.525625    0.115688    0.116364    0.242323    
0.019535    0.015925    0.162692    0.801848    
0.015902    0.000652    0.024224    0.959222    
0.974698    0.002334    0.006086    0.016882    
0.978085    0.005421    0.001281    0.015214    
0.015214    0.001281    0.005421    0.978085    
0.016882    0.006086    0.002334    0.974698    
0.959222    0.024224    0.000652    0.015902    
0.801848    0.162692    0.015925    0.019535    
0.487041    0.088506    0.064771    0.359682    
0.487819    0.051170    0.092361    0.368649    
0.443551    0.086872    0.150663    0.318914    
0.251068    0.394767    0.126246    0.227919    
0.135692    0.220707    0.306671    0.336931    
Consensus sequence: BHDATTAATTAAWWWHB

Alignment:
---BHDATTAATTAAWWWHB
WHAATTAAARAARAAAAAAA---

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Results created by MOTIFSIM on 06-18-2018 15:05:43
Runtime: 848.838021 seconds

MOTIFSIM is written by Ngoc Tam L. Tran