MOTIFSIM - MOTIF SIMilarity Detection Tool

Version 2.1

INPUT

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
Phylogenetic 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 number
MEME-ChIP_DM05.txt 4 1
MEME_DM05.txt 46 2
PScanChIP_DM05.txt 16 3
RSAT_peak-motifs_DM05.txt 17 4
W-ChIPMotifs_DM05.txt 11 5

RESULTS

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

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

Original motif Reverse complement motif
Consensus sequence: GCARRGGSAGS Consensus sequence: SCTSCCKMTGC

Best Matches for Motif ID 2 (Highest to Lowest)

Motif ID: UP00153
Motif name: Pitx1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 11
Similarity score: 0.0454693

Alignment:
HHDRTTAATCCCKHBVH
------SCTSCCKMTGC

Original motif Reverse complement motif
Consensus sequence: HBVDRGGGATTAAMDHH Consensus sequence: HHDRTTAATCCCKHBVH


Motif ID: UP00085
Motif name: Sfpi1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.0458219

Alignment:
BDAWGVGGAAGTDH
GCARRGGSAGS---

Original motif Reverse complement motif
Consensus sequence: BDAWGVGGAAGTDH Consensus sequence: HDACTTCCBCWTDV


Motif ID: UP00539
Motif name: Gli2_v016060_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 11
Similarity score: 0.0463674

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
-------SCTSCCKMTGC----

Original motif Reverse complement motif
Consensus sequence: RTHBSYCGCCMCMYVCGBTVDH Consensus sequence: HDBABCGBKRGYGGCGMSBHAK


Motif ID: UP00400
Motif name: Zif268
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 11
Similarity score: 0.0465857

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
-----SCTSCCKMTGC-------

Original motif Reverse complement motif
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB


Motif ID: UP00099
Motif name: Ascl2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 11
Similarity score: 0.0473355

Alignment:
BBYVVCAGCTGCBVHHD
-SCTSCCKMTGC-----

Original motif Reverse complement motif
Consensus sequence: BBYVVCAGCTGCBVHHD Consensus sequence: HHDVVGCAGCTGVBKVB


Motif ID: UP00527
Motif name: Foxn4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 11
Number of overlap: 11
Similarity score: 0.0487126

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
-SCTSCCKMTGC----------

Original motif Reverse complement motif
Consensus sequence: VDWDARRGACGCGGWHGGAKHV Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV


Motif ID: UP00010
Motif name: Tcfap2b_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.0497623

Alignment:
HHKGCCYSRGGCWAD
----GCARRGGSAGS

Original motif Reverse complement motif
Consensus sequence: DTWGCCKSMGGCRHH Consensus sequence: HHKGCCYSRGGCWAD


Motif ID: UP00539
Motif name: Gli2_v015681_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.0507547

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-----------SCTSCCKMTGC

Original motif Reverse complement motif
Consensus sequence: HVGVSAGGAGGGTCYHHHHYVH Consensus sequence: DVMHHDHKGACCCTCCTSVCBH


Motif ID: UP00055
Motif name: Hbp1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 11
Similarity score: 0.0508648

Alignment:
HBTHVACAATGGGMDHD
-----GCARRGGSAGS-

Original motif Reverse complement motif
Consensus sequence: DDDYCCCATTGTVHABH Consensus sequence: HBTHVACAATGGGMDHD


Motif ID: UP00005
Motif name: Tcfap2a_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.0512938

Alignment:
WDHSCCYSRGGSRAD
----GCARRGGSAGS

Original motif Reverse complement motif
Consensus sequence: WDHSCCYSRGGSRAD Consensus sequence: DTMSCCKSMGGSHDW


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

Original motif Reverse complement motif
Consensus sequence: GGAAM Consensus sequence: YTTCC

Best Matches for Motif ID 4 (Highest to Lowest)

Motif ID: UP00424
Motif name: Gm4881
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0

Alignment:
VBBHAYTTCCGGTDDD
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: VBBHAYTTCCGGTDDD Consensus sequence: DHDACCGGAAMTHBVB


Motif ID: UP00416
Motif name: Fli1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 5
Similarity score: 0.00163794

Alignment:
VBBVAYTTCCGGTDDH
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: VBBVAYTTCCGGTDDH Consensus sequence: DHDACCGGAAKTBBVV


Motif ID: UP00422
Motif name: Etv3
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0.00234412

Alignment:
VBBHAYTTCCGGTHDH
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: VBBHAYTTCCGGTHDH Consensus sequence: DHHACCGGAAKTHBBB


Motif ID: UP00411
Motif name: Erg
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0.00589761

Alignment:
VBBVAYTTCCGGTDDB
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: VBBVAYTTCCGGTDDB Consensus sequence: BDDACCGGAAKTVBVB


Motif ID: UP00418
Motif name: Etv6
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 5
Similarity score: 0.00691345

Alignment:
DVHBTACTTCCGGHTHB
------YTTCC------

Original motif Reverse complement motif
Consensus sequence: DVHBTACTTCCGGHTHB Consensus sequence: BHAHCCGGAAGTABDVD


Motif ID: UP00415
Motif name: Elk4
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 5
Similarity score: 0.00722176

Alignment:
VBBHRYTTCCGGTDDH
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: VBBHRYTTCCGGTDDH Consensus sequence: DHDACCGGAAKKHBVB


Motif ID: UP00413
Motif name: Elf4
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 5
Similarity score: 0.0153114

Alignment:
DBBHACTTCCGGKWTH
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: DBBHACTTCCGGKWTH Consensus sequence: HAWYCCGGAAGTHBBD


Motif ID: UP00404
Motif name: Elf2
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 5
Similarity score: 0.0153458

Alignment:
DBBHACTTCCGGDWDB
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: DBBHACTTCCGGDWDB Consensus sequence: BDWDCCGGAAGTHBBD


Motif ID: UP00417
Motif name: Etv4
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0.0219684

Alignment:
VBBHAYWTCCGGTDDB
-----YTTCC------

Original motif Reverse complement motif
Consensus sequence: VBBHAYWTCCGGTDDB Consensus sequence: BHHACCGGAWKTHBVV


Motif ID: UP00419
Motif name: Spic
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 7
Number of overlap: 5
Similarity score: 0.0224017

Alignment:
DWACTTCCRCTTTB
---YTTCC------

Original motif Reverse complement motif
Consensus sequence: VAAAGMGGAAGTWD Consensus sequence: DWACTTCCRCTTTB


Dataset #: 2 Motif ID: 7 Motif name: Motif 7

Original motif Reverse complement motif
Consensus sequence: HCAGRRVACASAG Consensus sequence: CTSTGTBKMCTGH

Best Matches for Motif ID 7 (Highest to Lowest)

Motif ID: UP00028
Motif name: Tcfap2e_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 13
Similarity score: 0.0445121

Alignment:
HDCDBRAAAAAADD
-HCAGRRVACASAG

Original motif Reverse complement motif
Consensus sequence: HDCDBRAAAAAADD Consensus sequence: DDTTTTTTMBDGDH


Motif ID: UP00034
Motif name: Sox7_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 10
Number of overlap: 13
Similarity score: 0.0448793

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

Original motif Reverse complement motif
Consensus sequence: GTVBDAATTGTVTGHGDDHKVB Consensus sequence: VVYDDDCHCAVACAATTDBVAC


Motif ID: UP00041
Motif name: Foxj1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 13
Similarity score: 0.0454552

Alignment:
DDDHTTTGTTTAMHDH
---CTSTGTBKMCTGH

Original motif Reverse complement motif
Consensus sequence: HDHRTAAACAAAHDDD Consensus sequence: DDDHTTTGTTTAMHDH


Motif ID: UP00016
Motif name: Sry_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 13
Similarity score: 0.0481412

Alignment:
HHDHDRAACAATDDVHV
HCAGRRVACASAG----

Original motif Reverse complement motif
Consensus sequence: HHDHDRAACAATDDVHV Consensus sequence: VHVHDATTGTTMHDDDH


Motif ID: UP00077
Motif name: Srf_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 13
Similarity score: 0.0545707

Alignment:
VBDDAAAAAAAAMVBHH
-HCAGRRVACASAG---

Original motif Reverse complement motif
Consensus sequence: VBDDAAAAAAAAMVBHH Consensus sequence: HHVBYTTTTTTTTDDVV


Motif ID: UP00058
Motif name: Tcf3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 13
Similarity score: 0.0553073

Alignment:
DVBSBDAHAHAHAHH
-HCAGRRVACASAG-

Original motif Reverse complement motif
Consensus sequence: DVBSBDAHAHAHAHH Consensus sequence: HHTHTHTHTDBSBVD


Motif ID: UP00091
Motif name: Sox5_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 13
Similarity score: 0.0562585

Alignment:
DHDCATMATTDASDD
--HCAGRRVACASAG

Original motif Reverse complement motif
Consensus sequence: DHDCATMATTDASDD Consensus sequence: DHSTDAATYATGDHD


Motif ID: UP00012
Motif name: Bbx_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 13
Similarity score: 0.0564984

Alignment:
VHVHBTGTTAACVHWVH
--CTSTGTBKMCTGH--

Original motif Reverse complement motif
Consensus sequence: HVWHBGTTAACABHBDV Consensus sequence: VHVHBTGTTAACVHWVH


Motif ID: UP00073
Motif name: Foxa2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 13
Similarity score: 0.0571073

Alignment:
VVDAATAACAAAVVB
HCAGRRVACASAG--

Original motif Reverse complement motif
Consensus sequence: VVDAATAACAAAVVB Consensus sequence: BVVTTTGTTATTDBB


Motif ID: UP00054
Motif name: Tcf7_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 13
Similarity score: 0.0574997

Alignment:
HHDTTTVTAATAYBD
CTSTGTBKMCTGH--

Original motif Reverse complement motif
Consensus sequence: HBKTATTABAAAHHH Consensus sequence: HHDTTTVTAATAYBD


Dataset #: 2 Motif ID: 41 Motif name: Motif 41

Original motif Reverse complement motif
Consensus sequence: ACTTTGG Consensus sequence: CCAAAGT

Best Matches for Motif ID 41 (Highest to Lowest)

Motif ID: UP00066
Motif name: Hnf4a_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 7
Similarity score: 0

Alignment:
BBHHAAAGTCCAMTHH
--CCAAAGT-------

Original motif Reverse complement motif
Consensus sequence: BBHHAAAGTCCAMTHH Consensus sequence: HHAYTGGACTTTHDBV


Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 7
Similarity score: 0.0128381

Alignment:
VDDAGATCAAAGGKDDD
------CCAAAGT----

Original motif Reverse complement motif
Consensus sequence: DDDYCCTTTGATCTDDV Consensus sequence: VDDAGATCAAAGGKDDD


Motif ID: UP00079
Motif name: Esrra_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 7
Similarity score: 0.0140846

Alignment:
DHDBCAAGGTCAHVBDH
---CCAAAGT-------

Original motif Reverse complement motif
Consensus sequence: DHDBCAAGGTCAHVBDH Consensus sequence: HHBVHTGACCTTGVDHD


Motif ID: UP00083
Motif name: Tcf7l2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 7
Similarity score: 0.0141156

Alignment:
BDDASATCAAAGGMDDD
------CCAAAGT----

Original motif Reverse complement motif
Consensus sequence: DDDYCCTTTGATSTDDV Consensus sequence: BDDASATCAAAGGMDDD


Motif ID: UP00062
Motif name: Sox4_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 7
Similarity score: 0.0159798

Alignment:
HHBBMCTTTGTTHDDBH
----ACTTTGG------

Original motif Reverse complement motif
Consensus sequence: HBDDDAACAAAGRVBHH Consensus sequence: HHBBMCTTTGTTHDDBH


Motif ID: UP00030
Motif name: Sox11_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 7
Similarity score: 0.0181605

Alignment:
HHBTMCTTTGTTMDDVH
----ACTTTGG------

Original motif Reverse complement motif
Consensus sequence: HBDDRAACAAAGRABHH Consensus sequence: HHBTMCTTTGTTMDDVH


Motif ID: UP00058
Motif name: Tcf3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 7
Similarity score: 0.0200761

Alignment:
HHHKVCTTTGATSTHHH
----ACTTTGG------

Original motif Reverse complement motif
Consensus sequence: HHHASATCAAAGVRHHH Consensus sequence: HHHKVCTTTGATSTHHH


Motif ID: UP00054
Motif name: Tcf7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 7
Similarity score: 0.0230245

Alignment:
HHHTCCTTTGATSTHHV
----ACTTTGG------

Original motif Reverse complement motif
Consensus sequence: BHHASATCAAAGGAHHH Consensus sequence: HHHTCCTTTGATSTHHV


Motif ID: UP00413
Motif name: Elf4
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 7
Similarity score: 0.0283328

Alignment:
HAWYCCGGAAGTHBBD
-----CCAAAGT----

Original motif Reverse complement motif
Consensus sequence: DBBHACTTCCGGKWTH Consensus sequence: HAWYCCGGAAGTHBBD


Motif ID: UP00418
Motif name: Etv6
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 7
Similarity score: 0.0287289

Alignment:
BHAHCCGGAAGTABDVD
-----CCAAAGT-----

Original motif Reverse complement motif
Consensus sequence: DVHBTACTTCCGGHTHB Consensus sequence: BHAHCCGGAAGTABDVD


Dataset #: 3 Motif ID: 55 Motif name: ZEB1

Original motif Reverse complement motif
Consensus sequence: CACCTD Consensus sequence: HAGGTG

Best Matches for Motif ID 55 (Highest to Lowest)

Motif ID: UP00068
Motif name: Eomes_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 6
Similarity score: 0

Alignment:
VVBVCKACACCTHVBV
-------CACCTD---

Original motif Reverse complement motif
Consensus sequence: VBVDAGGTGTYGVBBV Consensus sequence: VVBVCKACACCTHVBV


Motif ID: UP00199
Motif name: Six4
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 6
Similarity score: 0.00433068

Alignment:
BBVHVGGTGTCATHDDT
---HAGGTG--------

Original motif Reverse complement motif
Consensus sequence: ADDHATGACACCBHBBV Consensus sequence: BBVHVGGTGTCATHDDT


Motif ID: UP00068
Motif name: Eomes_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 9
Number of overlap: 6
Similarity score: 0.00524081

Alignment:
HHHTTTCACACCTDHBV
--------CACCTD---

Original motif Reverse complement motif
Consensus sequence: BVHDAGGTGTGAAAHHH Consensus sequence: HHHTTTCACACCTDHBV


Motif ID: UP00046
Motif name: Tcfe2a_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 6
Similarity score: 0.00911301

Alignment:
VBHHVCAGGTGCDVDHD
-----HAGGTG------

Original motif Reverse complement motif
Consensus sequence: VBHHVCAGGTGCDVDHD Consensus sequence: DHDBHGCACCTGBDDVB


Motif ID: UP00047
Motif name: Zbtb7b_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 6
Similarity score: 0.0233556

Alignment:
BDDRVGACCACCHBDVB
--------CACCTD---

Original motif Reverse complement motif
Consensus sequence: BDDRVGACCACCHBDVB Consensus sequence: BBDVHGGTGGTCBKDDB


Motif ID: UP00538
Motif name: Gli1_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 11
Number of overlap: 6
Similarity score: 0.0233928

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-------HAGGTG----------

Original motif Reverse complement motif
Consensus sequence: BHCBCBCCGGGTGGTCYHVHDCH Consensus sequence: HGDHVHKGACCACCCGGBGBGDB


Motif ID: UP00539
Motif name: Gli2_v015681_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 6
Similarity score: 0.0254338

Alignment:
HTBVVVDGGACCACCCRGRDBG
-----------CACCTD-----

Original motif Reverse complement motif
Consensus sequence: HTBVVVDGGACCACCCRGRDBG Consensus sequence: CBDMCMGGGTGGTCCHVBVBAH


Motif ID: UP00540
Motif name: Gli3_v016060_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 6
Similarity score: 0.0290143

Alignment:
HDGHHBHRGACCACCCGSVDVG
-----------CACCTD-----

Original motif Reverse complement motif
Consensus sequence: HDGHHBHRGACCACCCGSVDVG Consensus sequence: CVHBSCGGGTGGTCMHVHHCDH


Motif ID: UP00036
Motif name: Myf6_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 7
Number of overlap: 6
Similarity score: 0.0309673

Alignment:
BDKVCABCTGTTBDBV
----CACCTD------

Original motif Reverse complement motif
Consensus sequence: VVDBAACAGBTGBYHB Consensus sequence: BDKVCABCTGTTBDBV


Motif ID: UP00249
Motif name: Nkx2-5
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 6
Similarity score: 0.031502

Alignment:
HDADCCACTTRAAWTT
-----CACCTD-----

Original motif Reverse complement motif
Consensus sequence: HDADCCACTTRAAWTT Consensus sequence: AAWTTMAAGTGGHTDH


Dataset #: 3 Motif ID: 61 Motif name: NR4A2

Original motif Reverse complement motif
Consensus sequence: AAGGTCAC Consensus sequence: GTGACCTT

Best Matches for Motif ID 61 (Highest to Lowest)

Motif ID: UP00048
Motif name: Rara
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 8
Similarity score: 0

Alignment:
HHVGTGACCTTTDVDD
---GTGACCTT-----

Original motif Reverse complement motif
Consensus sequence: DHBHAAAGGTCACVHD Consensus sequence: HHVGTGACCTTTDVDD


Motif ID: UP00009
Motif name: Nr2f2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 8
Similarity score: 0.0074527

Alignment:
BHVDTGACCTTTDVDD
---GTGACCTT-----

Original motif Reverse complement motif
Consensus sequence: DHBHAAAGGTCAHVHB Consensus sequence: BHVDTGACCTTTDVDD


Motif ID: UP00079
Motif name: Esrra_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.01542

Alignment:
DHDBCAAGGTCAHVBDH
-----AAGGTCAC----

Original motif Reverse complement motif
Consensus sequence: DHDBCAAGGTCAHVBDH Consensus sequence: HHBVHTGACCTTGVDHD


Motif ID: UP00009
Motif name: Nr2f2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.0395644

Alignment:
VBVBCSGGGTCAVBBH
-----AAGGTCAC---

Original motif Reverse complement motif
Consensus sequence: VBVBCSGGGTCAVBBH Consensus sequence: HVBVTGACCCSGBVBV


Motif ID: UP00082
Motif name: Zfp187_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 9
Number of overlap: 8
Similarity score: 0.0407874

Alignment:
DDGMCCTBGTCCHYHV
GTGACCTT--------

Original motif Reverse complement motif
Consensus sequence: DDGMCCTBGTCCHYHV Consensus sequence: VHMDGGACVAGGRCDH


Motif ID: UP00053
Motif name: Rxra_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 8
Similarity score: 0.0422933

Alignment:
DBHBDTGACCCCDHVHB
----GTGACCTT-----

Original motif Reverse complement motif
Consensus sequence: DBHBDTGACCCCDHVHB Consensus sequence: VHBHDGGGGTCAHBHBD


Motif ID: UP00079
Motif name: Esrra_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.0447444

Alignment:
VKBBAGGGGTCAHDBBH
-----AAGGTCAC----

Original motif Reverse complement motif
Consensus sequence: VKBBAGGGGTCAHDBBH Consensus sequence: DBBHHTGACCCCTBBYV


Motif ID: UP00066
Motif name: Hnf4a_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0481418

Alignment:
BBHHAAAGTCCAMTHH
-----AAGGTCAC---

Original motif Reverse complement motif
Consensus sequence: BBHHAAAGTCCAMTHH Consensus sequence: HHAYTGGACTTTHDBV


Motif ID: UP00197
Motif name: Hoxc9
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 8
Number of overlap: 8
Similarity score: 0.0497679

Alignment:
VDHHTTAATGACCBHV
-------GTGACCTT-

Original motif Reverse complement motif
Consensus sequence: VDVGGTCATTAAHHDB Consensus sequence: VDHHTTAATGACCBHV


Motif ID: UP00035
Motif name: Hic1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0500062

Alignment:
DBDDRTGCCCAWDHDV
----GTGACCTT----

Original motif Reverse complement motif
Consensus sequence: DBDDRTGCCCAWDHDV Consensus sequence: VHHDWTGGGCAMDHBH


Dataset #: 4 Motif ID: 79 Motif name: cCGCGGrCACG

Original motif Reverse complement motif
Consensus sequence: CCGCGGRCACG Consensus sequence: CGTGKCCGCGG

Best Matches for Motif ID 79 (Highest to Lowest)

Motif ID: UP00065
Motif name: Zfp161_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 11
Similarity score: 0.0220206

Alignment:
DDGCGCGCGCRCHYRD
----CCGCGGRCACG-

Original motif Reverse complement motif
Consensus sequence: DDGCGCGCGCRCHYRD Consensus sequence: DMMDGMGCGCGCGCHD


Motif ID: UP00527
Motif name: Foxn4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 9
Number of overlap: 11
Similarity score: 0.024575

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
---CGTGKCCGCGG--------

Original motif Reverse complement motif
Consensus sequence: VDWDARRGACGCGGWHGGAKHV Consensus sequence: VHYTCCDWCCGCGTCMMTHWHV


Motif ID: UP00042
Motif name: Gm397_second
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 11
Similarity score: 0.0279366

Alignment:
DVMVGCACACACKCVH
--CCGCGGRCACG---

Original motif Reverse complement motif
Consensus sequence: DVMVGCACACACKCVH Consensus sequence: HBGYGTGTGTGCVRVD


Motif ID: UP00007
Motif name: Egr1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 11
Similarity score: 0.0285381

Alignment:
VHTGCGGGGGCGGH
-CCGCGGRCACG--

Original motif Reverse complement motif
Consensus sequence: HCCGCCCCCGCAHB Consensus sequence: VHTGCGGGGGCGGH


Motif ID: UP00050
Motif name: Bhlhb2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 11
Similarity score: 0.0335378

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
--------CCGCGGRCACG----

Original motif Reverse complement motif
Consensus sequence: YDYBDHTMCACGTGGADDBMDGT Consensus sequence: ACHRBHDTCCACGTGYAHHBMHM


Motif ID: UP00400
Motif name: Zif268
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 6
Number of overlap: 11
Similarity score: 0.0340428

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
-------CCGCGGRCACG-----

Original motif Reverse complement motif
Consensus sequence: BADHBDHCGCCCMCGCAHHDBBV Consensus sequence: VVVDHHTGCGYGGGCGDHVHHTB


Motif ID: UP00065
Motif name: Zfp161_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 11
Similarity score: 0.0345855

Alignment:
GYCGCGCARBGCVB
-CCGCGGRCACG--

Original motif Reverse complement motif
Consensus sequence: GYCGCGCARBGCVB Consensus sequence: VVGCVMTGCGCGKC


Motif ID: UP00097
Motif name: Mtf1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 11
Similarity score: 0.0350434

Alignment:
DBDHCGTGTGCAAMDH
---CCGCGGRCACG--

Original motif Reverse complement motif
Consensus sequence: DBDHCGTGTGCAAMDH Consensus sequence: HDYTTGCACACGDHBH


Motif ID: UP00076
Motif name: Rfxdc2_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 11
Similarity score: 0.0359928

Alignment:
HDDVSGTRTCMADGBVB
----CGTGKCCGCGG--

Original motif Reverse complement motif
Consensus sequence: BBVCDTRGAKACSVDDH Consensus sequence: HDDVSGTRTCMADGBVB


Motif ID: UP00526
Motif name: Foxn1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 11
Similarity score: 0.0361963

Alignment:
HDWHMHGACGCGCGTRBVVBHW
---------CCGCGGRCACG--

Original motif Reverse complement motif
Consensus sequence: WHVBVVMACGCGCGTCDYHWDH Consensus sequence: HDWHMHGACGCGCGTRBVVBHW


Dataset #: 5 Motif ID: 84 Motif name: TFW3

Original motif Reverse complement motif
Consensus sequence: GCACTG Consensus sequence: CAGTGC

Best Matches for Motif ID 84 (Highest to Lowest)

Motif ID: UP00031
Motif name: Zbtb3_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 8
Number of overlap: 6
Similarity score: 0

Alignment:
BBBAVTGCAGTGBBVDD
-------CAGTGC----

Original motif Reverse complement motif
Consensus sequence: DDBBBCACTGCABTBBB Consensus sequence: BBBAVTGCAGTGBBVDD


Motif ID: UP00095
Motif name: Zfp691_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 6
Similarity score: 0.020963

Alignment:
BDHVCAGTGCTCMBHDD
----CAGTGC-------

Original motif Reverse complement motif
Consensus sequence: BDHVCAGTGCTCMBHDD Consensus sequence: DDHBYGAGCACTGBHHB


Motif ID: UP00031
Motif name: Zbtb3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 6
Similarity score: 0.0248871

Alignment:
DDHHTBCCAGTGABHG
-------CAGTGC---

Original motif Reverse complement motif
Consensus sequence: CHVTCACTGGBADHDD Consensus sequence: DDHHTBCCAGTGABHG


Motif ID: UP00065
Motif name: Zfp161_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 6
Similarity score: 0.0303167

Alignment:
GYCGCGCARBGCVB
------CAGTGC--

Original motif Reverse complement motif
Consensus sequence: GYCGCGCARBGCVB Consensus sequence: VVGCVMTGCGCGKC


Motif ID: UP00006
Motif name: Zic3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 6
Similarity score: 0.0420592

Alignment:
DDDCACAGCAKGHVD
--GCACTG-------

Original motif Reverse complement motif
Consensus sequence: DDDCACAGCAKGHVD Consensus sequence: DVHCYTGCTGTGHDH


Motif ID: UP00102
Motif name: Zic1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 6
Similarity score: 0.0499082

Alignment:
BHDCVCAGCAGGHVD
--GCACTG-------

Original motif Reverse complement motif
Consensus sequence: BHDCVCAGCAGGHVD Consensus sequence: DVHCCTGCTGBGDDB


Motif ID: UP00231
Motif name: Nkx2-2
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 8
Number of overlap: 6
Similarity score: 0.0507672

Alignment:
DVDTKTCAAGTGGKBDH
-------CAGTGC----

Original motif Reverse complement motif
Consensus sequence: HDVRCCACTTGARADBD Consensus sequence: DVDTKTCAAGTGGKBDH


Motif ID: UP00107
Motif name: Nkx2-4
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 6
Similarity score: 0.0519322

Alignment:
AAWYTMAAGTGGVTDH
------CAGTGC----

Original motif Reverse complement motif
Consensus sequence: HDAVCCACTTRAMWTT Consensus sequence: AAWYTMAAGTGGVTDH


Motif ID: UP00193
Motif name: Rhox11_2205.1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 9
Number of overlap: 6
Similarity score: 0.0530479

Alignment:
WVVHWTWACAGCGHHVT
--------CAGTGC---

Original motif Reverse complement motif
Consensus sequence: AVDHCGCTGTWAWDVVW Consensus sequence: WVVHWTWACAGCGHHVT


Motif ID: UP00057
Motif name: Zic2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 6
Similarity score: 0.0539075

Alignment:
HHDCVCAGCAKGVVD
--GCACTG-------

Original motif Reverse complement motif
Consensus sequence: HHDCVCAGCAKGVVD Consensus sequence: DVBCYTGCTGBGDDD


Dataset #: 5 Motif ID: 85 Motif name: TFW1

Original motif Reverse complement motif
Consensus sequence: TTGCGCAA Consensus sequence: TTGCGCAA

Best Matches for Motif ID 85 (Highest to Lowest)

Motif ID: UP00045
Motif name: Mafb_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.00957029

Alignment:
HDWWTTTTGCAADBD
----TTGCGCAA---

Original motif Reverse complement motif
Consensus sequence: HVDTTGCAAAAWWDH Consensus sequence: HDWWTTTTGCAADBD


Motif ID: UP00097
Motif name: Mtf1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.0184619

Alignment:
DBDHCGTGTGCAAMDH
-----TTGCGCAA---

Original motif Reverse complement motif
Consensus sequence: DBDHCGTGTGCAAMDH Consensus sequence: HDYTTGCACACGDHBH


Motif ID: UP00259
Motif name: Hoxb6
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 8
Similarity score: 0.0226004

Alignment:
WWTDBGTAATTACVDB
-TTGCGCAA-------

Original motif Reverse complement motif
Consensus sequence: WWTDBGTAATTACVDB Consensus sequence: VDVGTAATTACBDAWW


Motif ID: UP00528
Motif name: Foxm1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0239956

Alignment:
DCATDBTGHGCATKMTTBRSWR
-----TTGCGCAA---------

Original motif Reverse complement motif
Consensus sequence: MWSMBAARRATGCDCABHATGD Consensus sequence: DCATDBTGHGCATKMTTBRSWR


Motif ID: UP00035
Motif name: Hic1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.0261465

Alignment:
VHHDWTGGGCAMDHBH
----TTGCGCAA----

Original motif Reverse complement motif
Consensus sequence: DBDDRTGCCCAWDHDV Consensus sequence: VHHDWTGGGCAMDHBH


Motif ID: UP00004
Motif name: Sox14_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 8
Similarity score: 0.0272314

Alignment:
BKBASACAATRGHBB
-TTGCGCAA------

Original motif Reverse complement motif
Consensus sequence: BKBASACAATRGHBB Consensus sequence: BBDCMATTGTSTBRB


Motif ID: UP00055
Motif name: Hbp1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 9
Number of overlap: 8
Similarity score: 0.0278778

Alignment:
HBTHVACAATGGGMDHD
-TTGCGCAA--------

Original motif Reverse complement motif
Consensus sequence: DDDYCCCATTGTVHABH Consensus sequence: HBTHVACAATGGGMDHD


Motif ID: UP00138
Motif name: Bsx
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 8
Similarity score: 0.0281625

Alignment:
VVRDYAATTRBYBVAD
-------TTGCGCAA-

Original motif Reverse complement motif
Consensus sequence: VVRDYAATTRBYBVAD Consensus sequence: HTVVKBKAATTMHMBV


Motif ID: UP00126
Motif name: Dlx2
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 8
Similarity score: 0.030109

Alignment:
VVDRTAATTABHHHAB
-------TTGCGCAA-

Original motif Reverse complement motif
Consensus sequence: VVDRTAATTABHHHAB Consensus sequence: BTDHHBTAATTAKDVV


Motif ID: UP00182
Motif name: Hoxa6
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.0308523

Alignment:
AMGKTAATTACCHHAD
-------TTGCGCAA-

Original motif Reverse complement motif
Consensus sequence: AMGKTAATTACCHHAD Consensus sequence: DTHHGGTAATTAYCYT


Dataset #: 5 Motif ID: 87 Motif name: TFF1

Original motif Reverse complement motif
Consensus sequence: AGGACAAAGAVV Consensus sequence: VVTCTTTGTCCT

Best Matches for Motif ID 87 (Highest to Lowest)

Motif ID: UP00062
Motif name: Sox4_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 12
Similarity score: 0.0258536

Alignment:
HBDDDAACAAAGRVBHH
---AGGACAAAGAVV--

Original motif Reverse complement motif
Consensus sequence: HBDDDAACAAAGRVBHH Consensus sequence: HHBBMCTTTGTTHDDBH


Motif ID: UP00072
Motif name: IRC900814_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 12
Similarity score: 0.0258585

Alignment:
DDHTACGACAAAWDDB
----AGGACAAAGAVV

Original motif Reverse complement motif
Consensus sequence: DDHTACGACAAAWDDB Consensus sequence: BHDWTTTGTCGTAHDD


Motif ID: UP00030
Motif name: Sox11_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 12
Similarity score: 0.0284165

Alignment:
HBDDRAACAAAGRABHH
---AGGACAAAGAVV--

Original motif Reverse complement motif
Consensus sequence: HBDDRAACAAAGRABHH Consensus sequence: HHBTMCTTTGTTMDDVH


Motif ID: UP00101
Motif name: Sox12_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 12
Similarity score: 0.0317868

Alignment:
VVDBASACAAAGRADH
---AGGACAAAGAVV-

Original motif Reverse complement motif
Consensus sequence: VVDBASACAAAGRADH Consensus sequence: HDTMCTTTGTSTVDBB


Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 12
Similarity score: 0.0318041

Alignment:
VDDAGATCAAAGGKDDD
---AGGACAAAGAVV--

Original motif Reverse complement motif
Consensus sequence: DDDYCCTTTGATCTDDV Consensus sequence: VDDAGATCAAAGGKDDD


Motif ID: UP00058
Motif name: Tcf3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 12
Similarity score: 0.0329392

Alignment:
HHHASATCAAAGVRHHH
---AGGACAAAGAVV--

Original motif Reverse complement motif
Consensus sequence: HHHASATCAAAGVRHHH Consensus sequence: HHHKVCTTTGATSTHHH


Motif ID: UP00054
Motif name: Tcf7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 12
Similarity score: 0.0344802

Alignment:
BHHASATCAAAGGAHHH
---AGGACAAAGAVV--

Original motif Reverse complement motif
Consensus sequence: BHHASATCAAAGGAHHH Consensus sequence: HHHTCCTTTGATSTHHV


Motif ID: UP00026
Motif name: Zscan4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 12
Similarity score: 0.0344812

Alignment:
BHHHTTGTGTGCKHVD
-VVTCTTTGTCCT---

Original motif Reverse complement motif
Consensus sequence: HVHRGCACACAAHHHV Consensus sequence: BHHHTTGTGTGCKHVD


Motif ID: UP00083
Motif name: Tcf7l2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 12
Similarity score: 0.0344876

Alignment:
DDDYCCTTTGATSTDDV
--VVTCTTTGTCCT---

Original motif Reverse complement motif
Consensus sequence: DDDYCCTTTGATSTDDV Consensus sequence: BDDASATCAAAGGMDDD


Motif ID: UP00020
Motif name: Atf1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 12
Similarity score: 0.0352035

Alignment:
VDATGACGADYADH
--AGGACAAAGAVV

Original motif Reverse complement motif
Consensus sequence: VDATGACGADYADH Consensus sequence: DDTMDTCGTCATDV


Results created by MOTIFSIM on 11-19-2016 20:57:29
Runtime: 853.531 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
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