MOTIFSIM - MOTIF SIMilarity Detection Tool

Version 2.1

INPUT

Input Parameters
Number of files: 2
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
W-ChIPMotifs_DM230.txt 11 1
RSAT_peak-motifs_DM230.txt 10 2

RESULTS

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

Dataset #: 1 Motif ID: 1 Motif name: TFW1

Original motif Reverse complement motif
Consensus sequence: GTCGCG Consensus sequence: CGCGAC

Best Matches for Motif ID 1 (Highest to Lowest)

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: Backward
Position number: 9
Number of overlap: 6
Similarity score: 0

Alignment:
GYCGCGCARBGCVB
GTCGCG--------

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

Motif ID: UP00060
Motif name: Max_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 6
Similarity score: 0.00875457

Alignment:
HDGTCGCGTGDCVB
--GTCGCG------

Original motif Reverse complement motif
Consensus sequence: BBGHCACGCGACDD Consensus sequence: HDGTCGCGTGDCVB

Motif ID: UP00003
Motif name: E2F3_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 6
Number of overlap: 6
Similarity score: 0.0102952

Alignment:
WHSGCGCGCCHTDHB
----CGCGAC-----

Original motif Reverse complement motif
Consensus sequence: VHDADGGCGCGCSHW Consensus sequence: WHSGCGCGCCHTDHB

Motif ID: UP00526
Motif name: Foxn1_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: 0.0119605

Alignment:
WHVBVVMACGCGCGTCDYHWDH
----------CGCGAC------

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

Motif ID: UP00527
Motif name: Foxn4_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 10
Number of overlap: 6
Similarity score: 0.014366

Alignment:
VDWDARRGACGCGGWHGGAKHV
-------GTCGCG---------

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

Motif ID: UP00065
Motif name: Zfp161_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 10
Number of overlap: 6
Similarity score: 0.0143989

Alignment:
DMMDGMGCGCGCGCHD
---------CGCGAC-

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

Motif ID: UP00001
Motif name: E2F2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 6
Similarity score: 0.0147239

Alignment:
HHVGCGCGCCKTDHB
----CGCGAC-----

Original motif Reverse complement motif
Consensus sequence: VHDARGGCGCGCVHH Consensus sequence: HHVGCGCGCCKTDHB

Motif ID: UP00002
Motif name: Sp4_secondary
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: 0.0222574

Alignment:
HHDGBCACGCCTWDB
---GTCGCG------

Original motif Reverse complement motif
Consensus sequence: BDWAGGCGTGBCHHD Consensus sequence: HHDGBCACGCCTWDB

Motif ID: UP00049
Motif name: Sp100_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 6
Similarity score: 0.0300795

Alignment:
BBCGTCGHBTAAWDB
---GTCGCG------

Original motif Reverse complement motif
Consensus sequence: BBCGTCGHBTAAWDB Consensus sequence: BDWTTAVDCGACGBV

Motif ID: UP00000
Motif name: Smad3_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: 6
Similarity score: 0.0317992

Alignment:
BHBHDTGGCGGGGBDHD
----GTCGCG-------

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

Dataset #: 1 Motif ID: 2 Motif name: TFW2

Original motif Reverse complement motif
Consensus sequence: SCGCGCGG Consensus sequence: CCGCGCGS

Best Matches for Motif ID 2 (Highest to Lowest)

Motif ID: UP00526
Motif name: Foxn1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 8
Number of overlap: 8
Similarity score: 0

Alignment:
HDWHMHGACGCGCGTRBVVBHW
-------CCGCGCGS-------

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

Motif ID: UP00065
Motif name: Zfp161_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.00228411

Alignment:
VVGCVMTGCGCGKC
-----CCGCGCGS-

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

Motif ID: UP00003
Motif name: E2F3_primary
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: 8
Similarity score: 0.00337853

Alignment:
WHSGCGCGCCHTDHB
-CCGCGCGS------

Original motif Reverse complement motif
Consensus sequence: VHDADGGCGCGCSHW Consensus sequence: WHSGCGCGCCHTDHB

Motif ID: UP00001
Motif name: E2F2_primary
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: 8
Similarity score: 0.00399923

Alignment:
HHVGCGCGCCKTDHB
-CCGCGCGS------

Original motif Reverse complement motif
Consensus sequence: VHDARGGCGCGCVHH Consensus sequence: HHVGCGCGCCKTDHB

Motif ID: UP00065
Motif name: Zfp161_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.00484534

Alignment:
DDGCGCGCGCRCHYRD
----CCGCGCGS----

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

Motif ID: UP00526
Motif name: Foxn1_secondary
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: 8
Similarity score: 0.0149577

Alignment:
BDVBCDACGCKCGCGTBHRKHD
------CCGCGCGS--------

Original motif Reverse complement motif
Consensus sequence: DDRMHBACGCGYGCGTDGBBDB Consensus sequence: BDVBCDACGCKCGCGTBHRKHD

Motif ID: UP00400
Motif name: Zif268
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: 0.0194485

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
-----SCGCGCGG----------

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

Motif ID: UP00022
Motif name: Zfp740_secondary
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: 8
Similarity score: 0.0230299

Alignment:
DDDTWCCCCCCGGDRVH
-----CCGCGCGS----

Original motif Reverse complement motif
Consensus sequence: DDDTWCCCCCCGGDRVH Consensus sequence: HVKDCCGGGGGGWADDD

Motif ID: UP00007
Motif name: Egr1_primary
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: 8
Similarity score: 0.0247841

Alignment:
HCCGCCCCCGCAHB
-----CCGCGCGS-

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

Motif ID: UP00007
Motif name: Egr1_secondary
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: 8
Similarity score: 0.0249557

Alignment:
BHHDTCCCACTCBDBV
------CCGCGCGS--

Original motif Reverse complement motif
Consensus sequence: BBHBGAGTGGGAHHDB Consensus sequence: BHHDTCCCACTCBDBV

Dataset #: 1 Motif ID: 3 Motif name: TFW3

Original motif Reverse complement motif
Consensus sequence: CGGCYBCGCG Consensus sequence: CGCGBMGCCG

Best Matches for Motif ID 3 (Highest to Lowest)

Motif ID: UP00400
Motif name: Zif268
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 8
Number of overlap: 10
Similarity score: 0.0331859

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
------CGCGBMGCCG-------

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

Motif ID: UP00007
Motif name: Egr1_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: 10
Similarity score: 0.0342114

Alignment:
HCCGCCCCCGCAHB
--CGGCYBCGCG--

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

Motif ID: UP00527
Motif name: Foxn4_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 12
Number of overlap: 10
Similarity score: 0.0356548

Alignment:
DBBVDDDRTRGCGTCBBYTHGA
-----------CGGCYBCGCG-

Original motif Reverse complement motif
Consensus sequence: DBBVDDDRTRGCGTCBBYTHGA Consensus sequence: TCDAMVBGACGCMAKDDDVBBD

Motif ID: UP00526
Motif name: Foxn1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 11
Number of overlap: 10
Similarity score: 0.041792

Alignment:
HDWHMHGACGCGCGTRBVVBHW
----------CGCGBMGCCG--

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

Motif ID: UP00065
Motif name: Zfp161_primary
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: 10
Similarity score: 0.041904

Alignment:
DDGCGCGCGCRCHYRD
-----CGCGBMGCCG-

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

Motif ID: UP00065
Motif name: Zfp161_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: 10
Similarity score: 0.0419429

Alignment:
VVGCVMTGCGCGKC
CGGCYBCGCG----

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

Motif ID: UP00002
Motif name: Sp4_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: 10
Similarity score: 0.0475178

Alignment:
BDWAGGCGTGBCHHD
----CGCGBMGCCG-

Original motif Reverse complement motif
Consensus sequence: BDWAGGCGTGBCHHD Consensus sequence: HHDGBCACGCCTWDB

Motif ID: UP00000
Motif name: Smad3_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: 10
Similarity score: 0.0490044

Alignment:
DHHBCCCCGCCAHHBHB
-------CGGCYBCGCG

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

Motif ID: UP00087
Motif name: Tcfap2c_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0499902

Alignment:
DTHSCCKSMGGSHHW
--CGGCYBCGCG---

Original motif Reverse complement motif
Consensus sequence: WHHSCCYSRGGSDAD Consensus sequence: DTHSCCKSMGGSHHW

Motif ID: UP00005
Motif name: Tcfap2a_primary
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: 10
Similarity score: 0.0500462

Alignment:
DTMSCCKSMGGSHDW
--CGGCYBCGCG---

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

Dataset #: 1 Motif ID: 4 Motif name: TFF1

Original motif Reverse complement motif
Consensus sequence: CGGVGCCGCVGC Consensus sequence: GCVGCGGCBCCG

Best Matches for Motif ID 4 (Highest to Lowest)

Motif ID: UP00003
Motif name: E2F3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 12
Similarity score: 0.0423593

Alignment:
HBHWYGGCGCCAMDVBB
----CGGVGCCGCVGC-

Original motif Reverse complement motif
Consensus sequence: HBHWYGGCGCCAMDVBB Consensus sequence: BBBDYTGGCGCCKWDBD

Motif ID: UP00001
Motif name: E2F2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 12
Similarity score: 0.046515

Alignment:
HVBWYGGCGCCAADVBB
----CGGVGCCGCVGC-

Original motif Reverse complement motif
Consensus sequence: HVBWYGGCGCCAADVBB Consensus sequence: BBBDTTGGCGCCKWVVD

Motif ID: UP00088
Motif name: Plagl1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 12
Similarity score: 0.0472704

Alignment:
VBVGGGGSSCCCCHHV
GCVGCGGCBCCG----

Original motif Reverse complement motif
Consensus sequence: BHDGGGGSSCCCCBVV Consensus sequence: VBVGGGGSSCCCCHHV

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: 5
Number of overlap: 12
Similarity score: 0.0476914

Alignment:
BBYVVCAGCTGCBVHHD
----GCVGCGGCBCCG-

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

Motif ID: UP00043
Motif name: Bcl6b_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 12
Similarity score: 0.0508178

Alignment:
HBBBCCGCCCCWHHHV
GCVGCGGCBCCG----

Original motif Reverse complement motif
Consensus sequence: HBBBCCGCCCCWHHHV Consensus sequence: BHHHWGGGGCGGBBVH

Motif ID: UP00033
Motif name: Zfp410_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 12
Similarity score: 0.0533422

Alignment:
BHHBHCCGCCCCDHHHH
-GCVGCGGCBCCG----

Original motif Reverse complement motif
Consensus sequence: BHHBHCCGCCCCDHHHH Consensus sequence: HHHHDGGGGCGGDBHDV

Motif ID: UP00539
Motif name: Gli2_v016060_secondary
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: 12
Similarity score: 0.0561199

Alignment:
HDBABCGBKRGYGGCGMSBHAK
--------CGGVGCCGCVGC--

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

Motif ID: UP00002
Motif name: Sp4_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: 12
Similarity score: 0.0577556

Alignment:
BDHHMCGCCCCCTHVBB
-GCVGCGGCBCCG----

Original motif Reverse complement motif
Consensus sequence: BDHHMCGCCCCCTHVBB Consensus sequence: BVVHAGGGGGCGRDHHB

Motif ID: UP00000
Motif name: Smad3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 12
Similarity score: 0.0577695

Alignment:
DHHBCCCCGCCAHHBHB
GCVGCGGCBCCG-----

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

Motif ID: UP00540
Motif name: Gli3_v015681_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: 12
Similarity score: 0.0581164

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
--------CGGVGCCGCVGC--

Original motif Reverse complement motif
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Dataset #: 1 Motif ID: 5 Motif name: TFF11

Original motif Reverse complement motif
Consensus sequence: GGMGGRGGCGGVGC Consensus sequence: GCVCCGCCMCCYCC

Best Matches for Motif ID 5 (Highest to Lowest)

Motif ID: UP00000
Motif name: Smad3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 14
Similarity score: 0.0294317

Alignment:
BHBHDTGGCGGGGBDHD
---GCVCCGCCMCCYCC

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

Motif ID: UP00002
Motif name: Sp4_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: 14
Similarity score: 0.0308559

Alignment:
BDHHMCGCCCCCTHVBB
-GCVCCGCCMCCYCC--

Original motif Reverse complement motif
Consensus sequence: BDHHMCGCCCCCTHVBB Consensus sequence: BVVHAGGGGGCGRDHHB

Motif ID: UP00033
Motif name: Zfp410_secondary
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: 14
Similarity score: 0.0379479

Alignment:
BHHBHCCGCCCCDHHHH
--GCVCCGCCMCCYCC-

Original motif Reverse complement motif
Consensus sequence: BHHBHCCGCCCCDHHHH Consensus sequence: HHHHDGGGGCGGDBHDV

Motif ID: UP00043
Motif name: Bcl6b_secondary
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: 14
Similarity score: 0.0383359

Alignment:
HBBBCCGCCCCWHHHV
-GCVCCGCCMCCYCC-

Original motif Reverse complement motif
Consensus sequence: HBBBCCGCCCCWHHHV Consensus sequence: BHHHWGGGGCGGBBVH

Motif ID: UP00021
Motif name: Zfp281_primary
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: 14
Similarity score: 0.0388307

Alignment:
GKRGGGGGGGGGGBD
GGMGGRGGCGGVGC-

Original motif Reverse complement motif
Consensus sequence: DBCCCCCCCCCCMYC Consensus sequence: GKRGGGGGGGGGGBD

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: 3
Number of overlap: 14
Similarity score: 0.039083

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
--GCVCCGCCMCCYCC------

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

Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 14
Similarity score: 0.0439675

Alignment:
BHHDYGGGGGGGGBVD
--GCVCCGCCMCCYCC

Original motif Reverse complement motif
Consensus sequence: HVBCCCCCCCCMHHHB Consensus sequence: BHHDYGGGGGGGGBVD

Motif ID: UP00540
Motif name: Gli3_v016060_secondary
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: 14
Similarity score: 0.0542214

Alignment:
VYWVVHCRCCACMCACGAHSBHH
-----GCVCCGCCMCCYCC----

Original motif Reverse complement motif
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Motif ID: UP00538
Motif name: Gli1_v016060_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: 14
Similarity score: 0.0549119

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
--GCVCCGCCMCCYCC-------

Original motif Reverse complement motif
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Motif ID: UP00400
Motif name: Zif268
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: 14
Similarity score: 0.0551379

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
---GCVCCGCCMCCYCC------

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

Dataset #: 1 Motif ID: 6 Motif name: TFM2

Original motif Reverse complement motif
Consensus sequence: RGRGGAGRRGGHGGDG Consensus sequence: CHCCBCCKMCTCCKCM

Best Matches for Motif ID 6 (Highest to Lowest)

Motif ID: UP00033
Motif name: Zfp410_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 16
Similarity score: 0.0508679

Alignment:
BHHBHCCGCCCCDHHHH
CHCCBCCKMCTCCKCM-

Original motif Reverse complement motif
Consensus sequence: BHHBHCCGCCCCDHHHH Consensus sequence: HHHHDGGGGCGGDBHDV

Motif ID: UP00007
Motif name: Egr1_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: 16
Similarity score: 0.0564739

Alignment:
BBHBGAGTGGGAHHDB
RGRGGAGRRGGHGGDG

Original motif Reverse complement motif
Consensus sequence: BBHBGAGTGGGAHHDB Consensus sequence: BHHDTCCCACTCBDBV

Motif ID: UP00400
Motif name: Zif268
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 16
Similarity score: 0.0588056

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
----CHCCBCCKMCTCCKCM---

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

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: 4
Number of overlap: 16
Similarity score: 0.0589361

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
---CHCCBCCKMCTCCKCM---

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

Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 16
Similarity score: 0.0599837

Alignment:
HVBCCCCCCCCMHHHB
RGRGGAGRRGGHGGDG

Original motif Reverse complement motif
Consensus sequence: HVBCCCCCCCCMHHHB Consensus sequence: BHHDYGGGGGGGGBVD

Motif ID: UP00000
Motif name: Smad3_secondary
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: 16
Similarity score: 0.06023

Alignment:
DHHBCCCCGCCAHHBHB
-CHCCBCCKMCTCCKCM

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

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: 7
Number of overlap: 16
Similarity score: 0.060636

Alignment:
DVMHHDHKGACCCTCCTSVCBH
CHCCBCCKMCTCCKCM------

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

Motif ID: UP00538
Motif name: Gli1_v015681_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 16
Similarity score: 0.0621813

Alignment:
DVVTTVGTGGGHGGYAMHWHHHY
-------CHCCBCCKMCTCCKCM

Original motif Reverse complement motif
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Motif ID: UP00099
Motif name: Ascl2_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: 16
Similarity score: 0.0624626

Alignment:
HVDVGGGHGGGGDBHB
RGRGGAGRRGGHGGDG

Original motif Reverse complement motif
Consensus sequence: BHVDCCCCDCCCBDBH Consensus sequence: HVDVGGGHGGGGDBHB

Motif ID: UP00540
Motif name: Gli3_v016060_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: 16
Similarity score: 0.0627639

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
----RGRGGAGRRGGHGGDG---

Original motif Reverse complement motif
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Dataset #: 1 Motif ID: 7 Motif name: TFM1

Original motif Reverse complement motif
Consensus sequence: WTKTTTTTHWTTTTTTBT Consensus sequence: ABAAAAAAWHAAAAARAW

Best Matches for Motif ID 7 (Highest to Lowest)

Motif ID: UP00034
Motif name: Sox7_primary
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: 18
Similarity score: 0.0406097

Alignment:
HHBDHDDAACAATDRHHHHHBW
----ABAAAAAAWHAAAAARAW

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Motif ID: UP00032
Motif name: Gata3_primary
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: 18
Similarity score: 0.0549239

Alignment:
HBHDVHDTCTTATCTHTDDHDV
---WTKTTTTTHWTTTTTTBT-

Original motif Reverse complement motif
Consensus sequence: BDHDDADAGATAAGADHBDHVD Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Motif ID: UP00034
Motif name: Sox7_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 18
Similarity score: 0.0554316

Alignment:
VVYDDDCHCAVACAATTDBVAC
---ABAAAAAAWHAAAAARAW-

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

Motif ID: UP00528
Motif name: Foxm1_secondary
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: 18
Similarity score: 0.0582891

Alignment:
MWSMBAARRATGCDCABHATGD
-ABAAAAAAWHAAAAARAW---

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

Motif ID: UP00032
Motif name: Gata3_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: 18
Similarity score: 0.0594078

Alignment:
HBHDVBWGATHBTATCRVBHHH
--ABAAAAAAWHAAAAARAW--

Original motif Reverse complement motif
Consensus sequence: HBHDVBWGATHBTATCRVBHHH Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Motif ID: UP00540
Motif name: Gli3_v016060_secondary
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: 18
Similarity score: 0.0717094

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
-WTKTTTTTHWTTTTTTBT----

Original motif Reverse complement motif
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Motif ID: UP00527
Motif name: Foxn4_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 18
Similarity score: 0.0722891

Alignment:
TCDAMVBGACGCMAKDDDVBBD
-ABAAAAAAWHAAAAARAW---

Original motif Reverse complement motif
Consensus sequence: DBBVDDDRTRGCGTCBBYTHGA Consensus sequence: TCDAMVBGACGCMAKDDDVBBD

Motif ID: UP00050
Motif name: Bhlhb2_primary
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: 18
Similarity score: 0.0734635

Alignment:
DDHBHBSTCACGTGAHBBDHHM
-WTKTTTTTHWTTTTTTBT---

Original motif Reverse complement motif
Consensus sequence: RDHDBVDTCACGTGASBHVHDH Consensus sequence: DDHBHBSTCACGTGAHBBDHHM

Motif ID: UP00077
Motif name: Srf_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: 17
Similarity score: 0.531811

Alignment:
-VBDDAAAAAAAAMVBHH
WTKTTTTTHWTTTTTTBT-

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

Motif ID: UP00090
Motif name: Elf3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 17
Similarity score: 0.538813

Alignment:
DDHBTTTTTTTTHDAVH-
ABAAAAAAWHAAAAARAW

Original motif Reverse complement motif
Consensus sequence: DBTHHAAAAAAAAVHDH Consensus sequence: DDHBTTTTTTTTHDAVH

Dataset #: 1 Motif ID: 8 Motif name: TFM3

Original motif Reverse complement motif
Consensus sequence: WWHTTTTTCABAAWTTWA Consensus sequence: TWAAWTTVTGAAAAAHWW

Best Matches for Motif ID 8 (Highest to Lowest)

Motif ID: UP00034
Motif name: Sox7_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 18
Similarity score: 0.0560226

Alignment:
VVYDDDCHCAVACAATTDBVAC
WWHTTTTTCABAAWTTWA----

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

Motif ID: UP00032
Motif name: Gata3_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: 18
Similarity score: 0.065044

Alignment:
BDHDDADAGATAAGADHBDHVD
---WWHTTTTTCABAAWTTWA-

Original motif Reverse complement motif
Consensus sequence: BDHDDADAGATAAGADHBDHVD Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Motif ID: UP00032
Motif name: Gata3_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: 18
Similarity score: 0.0697095

Alignment:
HBHDVBWGATHBTATCRVBHHH
----WWHTTTTTCABAAWTTWA

Original motif Reverse complement motif
Consensus sequence: HBHDVBWGATHBTATCRVBHHH Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Motif ID: UP00034
Motif name: Sox7_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 18
Similarity score: 0.071426

Alignment:
WBHHHHHMDATTGTTHDHDVHH
TWAAWTTVTGAAAAAHWW----

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

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: Backward
Position number: 3
Number of overlap: 18
Similarity score: 0.0731314

Alignment:
DCATDBTGHGCATKMTTBRSWR
--WWHTTTTTCABAAWTTWA--

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

Motif ID: UP00538
Motif name: Gli1_v015681_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: 18
Similarity score: 0.0755032

Alignment:
MHHHWHYTMCCHCCCACVAABVH
--WWHTTTTTCABAAWTTWA---

Original motif Reverse complement motif
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Motif ID: UP00540
Motif name: Gli3_v016060_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: 18
Similarity score: 0.078731

Alignment:
VYWVVHCRCCACMCACGAHSBHH
-WWHTTTTTCABAAWTTWA----

Original motif Reverse complement motif
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Motif ID: UP00098
Motif name: Rfx3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 18
Similarity score: 0.0794414

Alignment:
VCTBHBVCTTGGWTACVVVVVDB
----TWAAWTTVTGAAAAAHWW-

Original motif Reverse complement motif
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Motif ID: UP00538
Motif name: Gli1_v016060_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: 18
Similarity score: 0.0796126

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
-WWHTTTTTCABAAWTTWA----

Original motif Reverse complement motif
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Motif ID: UP00540
Motif name: Gli3_v015681_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 18
Similarity score: 0.0797884

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
---TWAAWTTVTGAAAAAHWW-

Original motif Reverse complement motif
Consensus sequence: DVTTVVCVYGGHGGYCHHDMYB Consensus sequence: VMYDHDGMCCHCCKBGVVAAVH

Dataset #: 1 Motif ID: 9 Motif name: TFM12

Original motif Reverse complement motif
Consensus sequence: CYYCBBCYYYTCCHCCTYYY Consensus sequence: KKKAGGDGGAKKMGBBGKMG

Best Matches for Motif ID 9 (Highest to Lowest)

Motif ID: UP00539
Motif name: Gli2_v016060_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: 20
Similarity score: 0.0528574

Alignment:
HDBABCGBKRGYGGCGMSBHAK
--KKKAGGDGGAKKMGBBGKMG

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

Motif ID: UP00540
Motif name: Gli3_v016060_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: 20
Similarity score: 0.0585594

Alignment:
VYWVVHCRCCACMCACGAHSBHH
CYYCBBCYYYTCCHCCTYYY---

Original motif Reverse complement motif
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Motif ID: UP00538
Motif name: Gli1_v016060_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: 20
Similarity score: 0.0625384

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB
-KKKAGGDGGAKKMGBBGKMG--

Original motif Reverse complement motif
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Motif ID: UP00528
Motif name: Foxm1_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: 20
Similarity score: 0.0639685

Alignment:
DCATDBTGHGCATKMTTBRSWR
--KKKAGGDGGAKKMGBBGKMG

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

Motif ID: UP00539
Motif name: Gli2_v015681_secondary
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: 20
Similarity score: 0.0648037

Alignment:
DVMHHDHKGACCCTCCTSVCBH
CYYCBBCYYYTCCHCCTYYY--

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

Motif ID: UP00527
Motif name: Foxn4_secondary
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: 20
Similarity score: 0.0649332

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
CYYCBBCYYYTCCHCCTYYY--

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

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: 3
Number of overlap: 20
Similarity score: 0.0652647

Alignment:
GTVBDAATTGTVTGHGDDHKVB
--KKKAGGDGGAKKMGBBGKMG

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

Motif ID: UP00400
Motif name: Zif268
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 20
Similarity score: 0.0703354

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
--KKKAGGDGGAKKMGBBGKMG-

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

Motif ID: UP00540
Motif name: Gli3_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 20
Similarity score: 0.0706876

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
KKKAGGDGGAKKMGBBGKMG--

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

Motif ID: UP00098
Motif name: Rfx3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 20
Similarity score: 0.0710664

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
--KKKAGGDGGAKKMGBBGKMG-

Original motif Reverse complement motif
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Dataset #: 1 Motif ID: 10 Motif name: TFM13

Original motif Reverse complement motif
Consensus sequence: ATKAAWTTTTRMAABAHHTW Consensus sequence: WAHHTVTTYKAAAAWTTRAT

Best Matches for Motif ID 10 (Highest to Lowest)

Motif ID: UP00034
Motif name: Sox7_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 20
Similarity score: 0.0556257

Alignment:
VVYDDDCHCAVACAATTDBVAC
-WAHHTVTTYKAAAAWTTRAT-

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

Motif ID: UP00032
Motif name: Gata3_secondary
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: 20
Similarity score: 0.0642682

Alignment:
HHHBBMGATAVHATCWVVDHVH
-ATKAAWTTTTRMAABAHHTW-

Original motif Reverse complement motif
Consensus sequence: HBHDVBWGATHBTATCRVBHHH Consensus sequence: HHHBBMGATAVHATCWVVDHVH

Motif ID: UP00034
Motif name: Sox7_primary
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: 20
Similarity score: 0.064945

Alignment:
WBHHHHHMDATTGTTHDHDVHH
--WAHHTVTTYKAAAAWTTRAT

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Motif ID: UP00032
Motif name: Gata3_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: 20
Similarity score: 0.0651681

Alignment:
HBHDVHDTCTTATCTHTDDHDV
ATKAAWTTTTRMAABAHHTW--

Original motif Reverse complement motif
Consensus sequence: BDHDDADAGATAAGADHBDHVD Consensus sequence: HBHDVHDTCTTATCTHTDDHDV

Motif ID: UP00098
Motif name: Rfx3_secondary
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: 20
Similarity score: 0.0670788

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
-ATKAAWTTTTRMAABAHHTW--

Original motif Reverse complement motif
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Motif ID: UP00098
Motif name: Rfx3_primary
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: 20
Similarity score: 0.070823

Alignment:
HDTBHHCCHTAGCAACVVDHHHH
-ATKAAWTTTTRMAABAHHTW--

Original motif Reverse complement motif
Consensus sequence: HDTBHHCCHTAGCAACVVDHHHH Consensus sequence: HHHHDVVGTTGCTAHGGDHBAHH

Motif ID: UP00528
Motif name: Foxm1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 20
Similarity score: 0.0734735

Alignment:
VHVRCAYGATGCATCDTVVADTH
WAHHTVTTYKAAAAWTTRAT---

Original motif Reverse complement motif
Consensus sequence: HADTBVADGATGCATCMTGMVHB Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Motif ID: UP00538
Motif name: Gli1_v015681_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: 20
Similarity score: 0.0743251

Alignment:
MHHHWHYTMCCHCCCACVAABVH
ATKAAWTTTTRMAABAHHTW---

Original motif Reverse complement motif
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Motif ID: UP00528
Motif name: Foxm1_secondary
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: 19
Similarity score: 0.567157

Alignment:
MWSMBAARRATGCDCABHATGD-
---ATKAAWTTTTRMAABAHHTW

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

Motif ID: UP00121
Motif name: Hoxd10
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 17
Similarity score: 1.54045

Alignment:
---HDDDATTTTATTKVRDB
WAHHTVTTYKAAAAWTTRAT-

Original motif Reverse complement motif
Consensus sequence: VDKVYAATAAAATDDDH Consensus sequence: HDDDATTTTATTKVRDB

Dataset #: 1 Motif ID: 11 Motif name: TFM11

Original motif Reverse complement motif
Consensus sequence: HDWVAAAHAAAAAMAAAMWWWHBWA Consensus sequence: TWVHWWWYTTTYTTTTTHTTTVWBH

Best Matches for Motif ID 11 (Highest to Lowest)

Motif ID: UP00098
Motif name: Rfx3_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: 23
Similarity score: 0.0760601

Alignment:
--HDTBHHCCHTAGCAACVVDHHHH
HDWVAAAHAAAAAMAAAMWWWHBWA-

Original motif Reverse complement motif
Consensus sequence: HDTBHHCCHTAGCAACVVDHHHH Consensus sequence: HHHHDVVGTTGCTAHGGDHBAHH

Motif ID: UP00540
Motif name: Gli3_v016060_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: 23
Similarity score: 0.0803516

Alignment:
VYWVVHCRCCACMCACGAHSBHH--
HDWVAAAHAAAAAMAAAMWWWHBWA

Original motif Reverse complement motif
Consensus sequence: VYWVVHCRCCACMCACGAHSBHH Consensus sequence: HHBSHTCGTGRGTGGKGDBVWMV

Motif ID: UP00528
Motif name: Foxm1_primary
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: 23
Similarity score: 0.0808735

Alignment:
HADTBVADGATGCATCMTGMVHB--
-HDWVAAAHAAAAAMAAAMWWWHBWA

Original motif Reverse complement motif
Consensus sequence: HADTBVADGATGCATCMTGMVHB Consensus sequence: VHVRCAYGATGCATCDTVVADTH

Motif ID: UP00538
Motif name: Gli1_v015681_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: 23
Similarity score: 0.0812213

Alignment:
--MHHHWHYTMCCHCCCACVAABVH
HDWVAAAHAAAAAMAAAMWWWHBWA--

Original motif Reverse complement motif
Consensus sequence: MHHHWHYTMCCHCCCACVAABVH Consensus sequence: DVVTTVGTGGGHGGYAMHWHHHY

Motif ID: UP00098
Motif name: Rfx3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 23
Similarity score: 0.0813067

Alignment:
VCTBHBVCTTGGWTACVVVVVDB--
HDWVAAAHAAAAAMAAAMWWWHBWA

Original motif Reverse complement motif
Consensus sequence: VCTBHBVCTTGGWTACVVVVVDB Consensus sequence: BDBBVBVGTAWCCAAGVBHBAGB

Motif ID: UP00538
Motif name: Gli1_v016060_secondary
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: 23
Similarity score: 0.0869107

Alignment:
BDDHVDKGCCACCCVCGCTDBVH--
-TWVHWWWYTTTYTTTTTHTTTVWBH

Original motif Reverse complement motif
Consensus sequence: HVBDAGCGBGGGTGGCRDBDDDB Consensus sequence: BDDHVDKGCCACCCVCGCTDBVH

Motif ID: UP00539
Motif name: Gli2_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 23
Similarity score: 0.0877809

Alignment:
DBCDWHCTGGGTGGTCMDHBBAH--
-TWVHWWWYTTTYTTTTTHTTTVWBH

Original motif Reverse complement motif
Consensus sequence: DTVBDDRGACCACCCAGDWDGBH Consensus sequence: DBCDWHCTGGGTGGTCMDHBBAH

Motif ID: UP00050
Motif name: Bhlhb2_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: 23
Similarity score: 0.0879037

Alignment:
--ACHRBHDTCCACGTGYAHHBMHM
TWVHWWWYTTTYTTTTTHTTTVWBH

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: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 23
Similarity score: 0.0891795

Alignment:
BADHBDHCGCCCMCGCAHHDBBV--
-HDWVAAAHAAAAAMAAAMWWWHBWA

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

Motif ID: UP00538
Motif name: Gli1_v015681_primary
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: 23
Similarity score: 0.0895093

Alignment:
BBBDVVRGACCACCCAVGABBAB--
HDWVAAAHAAAAAMAAAMWWWHBWA

Original motif Reverse complement motif
Consensus sequence: BBBDVVRGACCACCCAVGABBAB Consensus sequence: BTBVTCVTGGGTGGTCMVVDVBB

Dataset #: 2 Motif ID: 12 Motif name: csGCCCCGCCCCsc

Original motif Reverse complement motif
Consensus sequence: HVGCCCCGCCCCBB Consensus sequence: BBGGGGCGGGGCVD

Best Matches for Motif ID 12 (Highest to Lowest)

Motif ID: UP00093
Motif name: Klf7_primary
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: 14
Similarity score: 0

Alignment:
HBDRCCMCGCCCHHHD
-HVGCCCCGCCCCBB-

Original motif Reverse complement motif
Consensus sequence: HBDRCCMCGCCCHHHD Consensus sequence: DHHDGGGCGRGGKHBH

Motif ID: UP00000
Motif name: Smad3_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: 14
Similarity score: 0.0106621

Alignment:
DHHBCCCCGCCAHHBHB
-HVGCCCCGCCCCBB--

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

Motif ID: UP00021
Motif name: Zfp281_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 14
Similarity score: 0.017761

Alignment:
GKRGGGGGGGGGGBD
BBGGGGCGGGGCVD-

Original motif Reverse complement motif
Consensus sequence: DBCCCCCCCCCCMYC Consensus sequence: GKRGGGGGGGGGGBD

Motif ID: UP00022
Motif name: Zfp740_primary
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: 14
Similarity score: 0.0181905

Alignment:
HVBCCCCCCCCMHHHB
HVGCCCCGCCCCBB--

Original motif Reverse complement motif
Consensus sequence: HVBCCCCCCCCMHHHB Consensus sequence: BHHDYGGGGGGGGBVD

Motif ID: UP00033
Motif name: Zfp410_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: 14
Similarity score: 0.0225788

Alignment:
BHHBHCCGCCCCDHHHH
HVGCCCCGCCCCBB---

Original motif Reverse complement motif
Consensus sequence: BHHBHCCGCCCCDHHHH Consensus sequence: HHHHDGGGGCGGDBHDV

Motif ID: UP00002
Motif name: Sp4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 14
Similarity score: 0.0277585

Alignment:
BDWAGGCGTGBCHHD
BBGGGGCGGGGCVD-

Original motif Reverse complement motif
Consensus sequence: BDWAGGCGTGBCHHD Consensus sequence: HHDGBCACGCCTWDB

Motif ID: UP00007
Motif name: Egr1_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: 14
Similarity score: 0.0318885

Alignment:
BHHDTCCCACTCBDBV
-HVGCCCCGCCCCBB-

Original motif Reverse complement motif
Consensus sequence: BBHBGAGTGGGAHHDB Consensus sequence: BHHDTCCCACTCBDBV

Motif ID: UP00024
Motif name: Glis2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 14
Similarity score: 0.0330753

Alignment:
HKBBGGGGGGTCVHHH
BBGGGGCGGGGCVD--

Original motif Reverse complement motif
Consensus sequence: HHHVGACCCCCCVBRD Consensus sequence: HKBBGGGGGGTCVHHH

Motif ID: UP00540
Motif name: Gli3_v016060_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: 14
Similarity score: 0.0334003

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
---BBGGGGCGGGGCVD-----

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

Motif ID: UP00539
Motif name: Gli2_v015681_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: 14
Similarity score: 0.0351614

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
---BBGGGGCGGGGCVD-----

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

Dataset #: 2 Motif ID: 13 Motif name: tkAAATAATAtw

Original motif Reverse complement motif
Consensus sequence: HDAAATAATAHW Consensus sequence: WHTATTATTTDH

Best Matches for Motif ID 13 (Highest to Lowest)

Motif ID: UP00121
Motif name: Hoxd10
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: 12
Similarity score: 0.00353196

Alignment:
HDDDATTTTATTKVRDB
---WHTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: VDKVYAATAAAATDDDH Consensus sequence: HDDDATTTTATTKVRDB

Motif ID: UP00244
Motif name: Tlx2
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: 12
Similarity score: 0.00646023

Alignment:
WWDTTATTAATTHATTV
--WHTATTATTTDH---

Original motif Reverse complement motif
Consensus sequence: BAATHAATTAATAAHWW Consensus sequence: WWDTTATTAATTHATTV

Motif ID: UP00051
Motif name: Sox8_primary
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: 12
Similarity score: 0.0120674

Alignment:
DDDHDAACAATWBATDD
--HDAAATAATAHW---

Original motif Reverse complement motif
Consensus sequence: DDATBWATTGTTHHDDD Consensus sequence: DDDHDAACAATWBATDD

Motif ID: UP00180
Motif name: Hoxd13
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: 12
Similarity score: 0.0123772

Alignment:
HDHHTTTTATTKKHDD
--WHTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: HDHYYAATAAAAHHHH Consensus sequence: HDHHTTTTATTKKHDD

Motif ID: UP00037
Motif name: Zfp105_primary
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: 12
Similarity score: 0.0129559

Alignment:
HHHTTRTTDTTTKDH
--WHTATTATTTDH-

Original motif Reverse complement motif
Consensus sequence: HDYAAAHAAMAADHD Consensus sequence: HHHTTRTTDTTTKDH

Motif ID: UP00064
Motif name: Sox18_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 12
Similarity score: 0.0130138

Alignment:
HHDHABAACAATHBWV
---HDAAATAATAHW-

Original motif Reverse complement motif
Consensus sequence: BWBHATTGTTBTHDHH Consensus sequence: HHDHABAACAATHBWV

Motif ID: UP00255
Motif name: Dbx1
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: 0.0131034

Alignment:
HARTHAATTAWTAVDHD
---HDAAATAATAHW--

Original motif Reverse complement motif
Consensus sequence: HARTHAATTAWTAVDHD Consensus sequence: DHDBTAWTAATTHAKTH

Motif ID: UP00024
Motif name: Glis2_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: 12
Similarity score: 0.0140433

Alignment:
HDTATTAHTAAAVV
--HDAAATAATAHW

Original motif Reverse complement motif
Consensus sequence: HDTATTAHTAAAVV Consensus sequence: BVTTTAHTAATADH

Motif ID: UP00075
Motif name: Sox15_primary
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: 12
Similarity score: 0.0143532

Alignment:
DHVKMWATTGTTHDHDH
---WHTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: HDDDDAACAATWRRBHD Consensus sequence: DHVKMWATTGTTHDHDH

Motif ID: UP00096
Motif name: Sox13_primary
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: 12
Similarity score: 0.014607

Alignment:
DHDRGAACAATWWDHW
--HDAAATAATAHW--

Original motif Reverse complement motif
Consensus sequence: DHDRGAACAATWWDHW Consensus sequence: WHDWWATTGTTCKDHD

Dataset #: 2 Motif ID: 14 Motif name: cccGCCCCGCCCCsb

Original motif Reverse complement motif
Consensus sequence: BCCGCCCCGCCCCBB Consensus sequence: BBGGGGCGGGGCGGB

Best Matches for Motif ID 14 (Highest to Lowest)

Motif ID: UP00093
Motif name: Klf7_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: 15
Similarity score: 0.00481788

Alignment:
HBDRCCMCGCCCHHHD
BCCGCCCCGCCCCBB-

Original motif Reverse complement motif
Consensus sequence: HBDRCCMCGCCCHHHD Consensus sequence: DHHDGGGCGRGGKHBH

Motif ID: UP00000
Motif name: Smad3_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: 15
Similarity score: 0.0108117

Alignment:
DHHBCCCCGCCAHHBHB
BCCGCCCCGCCCCBB--

Original motif Reverse complement motif
Consensus sequence: DHHBCCCCGCCAHHBHB Consensus sequence: BHBHDTGGCGGGGBDHD

Motif ID: UP00021
Motif name: Zfp281_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: 15
Similarity score: 0.0154152

Alignment:
GKRGGGGGGGGGGBD
BBGGGGCGGGGCGGB

Original motif Reverse complement motif
Consensus sequence: DBCCCCCCCCCCMYC Consensus sequence: GKRGGGGGGGGGGBD

Motif ID: UP00022
Motif name: Zfp740_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: 15
Similarity score: 0.018287

Alignment:
HVBCCCCCCCCMHHHB
BCCGCCCCGCCCCBB-

Original motif Reverse complement motif
Consensus sequence: HVBCCCCCCCCMHHHB Consensus sequence: BHHDYGGGGGGGGBVD

Motif ID: UP00002
Motif name: Sp4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 15
Similarity score: 0.0247447

Alignment:
BDWAGGCGTGBCHHD
BBGGGGCGGGGCGGB

Original motif Reverse complement motif
Consensus sequence: BDWAGGCGTGBCHHD Consensus sequence: HHDGBCACGCCTWDB

Motif ID: UP00007
Motif name: Egr1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 15
Similarity score: 0.0279869

Alignment:
BHHDTCCCACTCBDBV
BCCGCCCCGCCCCBB-

Original motif Reverse complement motif
Consensus sequence: BBHBGAGTGGGAHHDB Consensus sequence: BHHDTCCCACTCBDBV

Motif ID: UP00540
Motif name: Gli3_v016060_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: 15
Similarity score: 0.0312526

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
---BBGGGGCGGGGCGGB----

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

Motif ID: UP00099
Motif name: Ascl2_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: 15
Similarity score: 0.0318321

Alignment:
BHVDCCCCDCCCBDBH
BCCGCCCCGCCCCBB-

Original motif Reverse complement motif
Consensus sequence: BHVDCCCCDCCCBDBH Consensus sequence: HVDVGGGHGGGGDBHB

Motif ID: UP00527
Motif name: Foxn4_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: 15
Similarity score: 0.0340857

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
----BCCGCCCCGCCCCBB---

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

Motif ID: UP00539
Motif name: Gli2_v015681_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: 15
Similarity score: 0.0345185

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
---BBGGGGCGGGGCGGB----

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

Dataset #: 2 Motif ID: 15 Motif name: kCAGCCAATmr

Original motif Reverse complement motif
Consensus sequence: DCAGCCAATVR Consensus sequence: MBATTGGCTGH

Best Matches for Motif ID 15 (Highest to Lowest)

Motif ID: UP00033
Motif name: Zfp410_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: 0.000708728

Alignment:
BDDYYCATCCCATDDBD
----DCAGCCAATVR--

Original motif Reverse complement motif
Consensus sequence: DVDDATGGGATGKMDDV Consensus sequence: BDDYYCATCCCATDDBD

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: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.00658734

Alignment:
BKBASACAATRGHBB
-DCAGCCAATVR---

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

Motif ID: UP00249
Motif name: Nkx2-5
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: 0.00805715

Alignment:
AAWTTMAAGTGGHTDH
-----MBATTGGCTGH

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

Motif ID: UP00147
Motif name: Nkx2-6
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: 11
Similarity score: 0.0128272

Alignment:
DDADCCACTTAAVHTT
DCAGCCAATVR-----

Original motif Reverse complement motif
Consensus sequence: DDADCCACTTAAVHTT Consensus sequence: AAHVTTAAGTGGHTDD

Motif ID: UP00165
Motif name: Titf1
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: 0.0131729

Alignment:
AAHYTCAAGTGGBTBV
-----MBATTGGCTGH

Original motif Reverse complement motif
Consensus sequence: BVABCCACTTGAMHTT Consensus sequence: AAHYTCAAGTGGBTBV

Motif ID: UP00034
Motif name: Sox7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 11
Similarity score: 0.0131873

Alignment:
HHBDHDDAACAATDRHHHHHBW
----DCAGCCAATVR-------

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Motif ID: UP00258
Motif name: Tgif2
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: 0.0132199

Alignment:
AABBAGCTGTCAAWVV
-----DCAGCCAATVR

Original motif Reverse complement motif
Consensus sequence: AABBAGCTGTCAAWVV Consensus sequence: VBWTTGACAGCTVBTT

Motif ID: UP00205
Motif name: Pknox2
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 11
Similarity score: 0.0138143

Alignment:
VHATTGACAGSKSVTH
MBATTGGCTGH-----

Original motif Reverse complement motif
Consensus sequence: HAVSRSCTGTCAATHB Consensus sequence: VHATTGACAGSKSVTH

Motif ID: UP00023
Motif name: Sox30_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 11
Similarity score: 0.0141895

Alignment:
HHHHMHATTGTTBDHD
----MBATTGGCTGH-

Original motif Reverse complement motif
Consensus sequence: DHDBAACAATDRHHHH Consensus sequence: HHHHMHATTGTTBDHD

Motif ID: UP00227
Motif name: Duxl
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: 11
Similarity score: 0.0154208

Alignment:
YRACCCAATCAACVVHV
DCAGCCAATVR------

Original motif Reverse complement motif
Consensus sequence: YRACCCAATCAACVVHV Consensus sequence: VHVVGTTGATTGGGTMK

Dataset #: 2 Motif ID: 16 Motif name: kcACCTGCAgc

Original motif Reverse complement motif
Consensus sequence: BCACCTGCABC Consensus sequence: GBTGCAGGTGB

Best Matches for Motif ID 16 (Highest to Lowest)

Motif ID: UP00070
Motif name: Gcm1_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: 11
Similarity score: 0

Alignment:
DHDVATGCGGGTHVVH
---GBTGCAGGTGB--

Original motif Reverse complement motif
Consensus sequence: HVVHACCCGCATVDHD Consensus sequence: DHDVATGCGGGTHVVH

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: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.000503863

Alignment:
BBBAVTGCAGTGBBVDD
---GBTGCAGGTGB---

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

Motif ID: UP00046
Motif name: Tcfe2a_primary
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: 11
Similarity score: 0.000557448

Alignment:
DHDBHGCACCTGBDDVB
-----BCACCTGCABC-

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

Motif ID: UP00099
Motif name: Ascl2_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: 0.00842747

Alignment:
BBYVVCAGCTGCBVHHD
----BCACCTGCABC--

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

Motif ID: UP00420
Motif name: Elk3
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: 11
Similarity score: 0.0111732

Alignment:
DVBBACCGGAAGYDVVV
--BCACCTGCABC----

Original motif Reverse complement motif
Consensus sequence: DVBBACCGGAAGYDVVV Consensus sequence: VBVDMCTTCCGGTVBVD

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: Forward
Position number: 9
Number of overlap: 11
Similarity score: 0.0122671

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
--------BCACCTGCABC----

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

Motif ID: UP00092
Motif name: Myb_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: 11
Similarity score: 0.015733

Alignment:
BDACCAACTGCCRBBH
---BCACCTGCABC--

Original motif Reverse complement motif
Consensus sequence: BDACCAACTGCCRBBH Consensus sequence: DBVKGGCAGTTGGTHB

Motif ID: UP00236
Motif name: Irx2
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: 11
Similarity score: 0.0163141

Alignment:
WVWDDTACATGTADDDW
---GBTGCAGGTGB---

Original motif Reverse complement motif
Consensus sequence: WDDDTACATGTADDWBW Consensus sequence: WVWDDTACATGTADDDW

Motif ID: UP00223
Motif name: Irx3_0920.1
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: 11
Similarity score: 0.0165255

Alignment:
DDWWBTACATGTADDDD
----BCACCTGCABC--

Original motif Reverse complement motif
Consensus sequence: DDDDTACATGTAVWWHD Consensus sequence: DDWWBTACATGTADDDD

Motif ID: UP00057
Motif name: Zic2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 11
Similarity score: 0.0169178

Alignment:
DVBCYTGCTGBGDDD
BCACCTGCABC----

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

Dataset #: 2 Motif ID: 17 Motif name: wwAAATAATAtw

Original motif Reverse complement motif
Consensus sequence: HDAAATAATADD Consensus sequence: DDTATTATTTDH

Best Matches for Motif ID 17 (Highest to Lowest)

Motif ID: UP00244
Motif name: Tlx2
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: 0.00576686

Alignment:
WWDTTATTAATTHATTV
--DDTATTATTTDH---

Original motif Reverse complement motif
Consensus sequence: BAATHAATTAATAAHWW Consensus sequence: WWDTTATTAATTHATTV

Motif ID: UP00121
Motif name: Hoxd10
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: 12
Similarity score: 0.00673636

Alignment:
HDDDATTTTATTKVRDB
---DDTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: VDKVYAATAAAATDDDH Consensus sequence: HDDDATTTTATTKVRDB

Motif ID: UP00180
Motif name: Hoxd13
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: 12
Similarity score: 0.00685179

Alignment:
HDHHTTTTATTKKHDD
--DDTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: HDHYYAATAAAAHHHH Consensus sequence: HDHHTTTTATTKKHDD

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: Forward
Position number: 1
Number of overlap: 12
Similarity score: 0.0108327

Alignment:
VVDAATAACAAAVVB
HDAAATAATADD---

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

Motif ID: UP00134
Motif name: Hoxb13
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: 12
Similarity score: 0.0121723

Alignment:
VDHWTTTTATTGGDKB
--DDTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: VRHCCAATAAAAWHHV Consensus sequence: VDHWTTTTATTGGDKB

Motif ID: UP00255
Motif name: Dbx1
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: 0.0133808

Alignment:
DHDBTAWTAATTHAKTH
--DDTATTATTTDH---

Original motif Reverse complement motif
Consensus sequence: HARTHAATTAWTAVDHD Consensus sequence: DHDBTAWTAATTHAKTH

Motif ID: UP00034
Motif name: Sox7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 12
Similarity score: 0.0144702

Alignment:
HHBDHDDAACAATDRHHHHHBW
----HDAAATAATADD------

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Motif ID: UP00051
Motif name: Sox8_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 12
Similarity score: 0.0145614

Alignment:
DDATBWATTGTTHHDDD
---DDTATTATTTDH--

Original motif Reverse complement motif
Consensus sequence: DDATBWATTGTTHHDDD Consensus sequence: DDDHDAACAATWBATDD

Motif ID: UP00024
Motif name: Glis2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 12
Similarity score: 0.0148858

Alignment:
BVTTTAHTAATADH
--HDAAATAATADD

Original motif Reverse complement motif
Consensus sequence: HDTATTAHTAAAVV Consensus sequence: BVTTTAHTAATADH

Motif ID: UP00096
Motif name: Sox13_primary
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: 12
Similarity score: 0.014968

Alignment:
DHDRGAACAATWWDHW
--HDAAATAATADD--

Original motif Reverse complement motif
Consensus sequence: DHDRGAACAATWWDHW Consensus sequence: WHDWWATTGTTCKDHD

Dataset #: 2 Motif ID: 18 Motif name: sSGTCACGTGACSs

Original motif Reverse complement motif
Consensus sequence: SGGTCACGTGACCS Consensus sequence: SGGTCACGTGACCS

Best Matches for Motif ID 18 (Highest to Lowest)

Motif ID: UP00050
Motif name: Bhlhb2_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: 14
Similarity score: 0

Alignment:
RDHDBVDTCACGTGASBHVHDH
----SGGTCACGTGACCS----

Original motif Reverse complement motif
Consensus sequence: RDHDBVDTCACGTGASBHVHDH Consensus sequence: DDHBHBSTCACGTGAHBBDHHM

Motif ID: UP00060
Motif name: Max_primary
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: 14
Similarity score: 0.0226905

Alignment:
DDASCACGTGBTBVDD
--SGGTCACGTGACCS

Original motif Reverse complement motif
Consensus sequence: DDASCACGTGBTBVDD Consensus sequence: HHVBABCACGTGSTHD

Motif ID: UP00060
Motif name: Max_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 14
Similarity score: 0.0240371

Alignment:
BBGHCACGCGACDD
SGGTCACGTGACCS

Original motif Reverse complement motif
Consensus sequence: BBGHCACGCGACDD Consensus sequence: HDGTCGCGTGDCVB

Motif ID: UP00103
Motif name: Jundm2_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: 14
Similarity score: 0.0253986

Alignment:
BBGATGACGTCAYCVH
-SGGTCACGTGACCS-

Original motif Reverse complement motif
Consensus sequence: BBGATGACGTCAYCVH Consensus sequence: HVGMTGACGTCATCBB

Motif ID: UP00020
Motif name: Atf1_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: 14
Similarity score: 0.0259163

Alignment:
DBDRTGACGTCAYHRD
-SGGTCACGTGACCS-

Original motif Reverse complement motif
Consensus sequence: DBDRTGACGTCAYHRD Consensus sequence: DMDMTGACGTCAKHBD

Motif ID: UP00050
Motif name: Bhlhb2_secondary
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: 14
Similarity score: 0.0403911

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
-----SGGTCACGTGACCS----

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

Motif ID: UP00036
Motif name: Myf6_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: 14
Similarity score: 0.0440464

Alignment:
VVDBAACAGBTGBYHB
--SGGTCACGTGACCS

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

Motif ID: UP00046
Motif name: Tcfe2a_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: 14
Similarity score: 0.0471124

Alignment:
VBBDMYCATCTGVHHBH
--SGGTCACGTGACCS-

Original motif Reverse complement motif
Consensus sequence: HVDDVCAGATGKYHBBV Consensus sequence: VBBDMYCATCTGVHHBH

Motif ID: UP00165
Motif name: Titf1
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: 14
Similarity score: 0.0471926

Alignment:
BVABCCACTTGAMHTT
-SGGTCACGTGACCS-

Original motif Reverse complement motif
Consensus sequence: BVABCCACTTGAMHTT Consensus sequence: AAHYTCAAGTGGBTBV

Motif ID: UP00046
Motif name: Tcfe2a_primary
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: 14
Similarity score: 0.0506329

Alignment:
DHDBHGCACCTGBDDVB
--SGGTCACGTGACCS-

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

Dataset #: 2 Motif ID: 19 Motif name: wsTACwGTAsw

Original motif Reverse complement motif
Consensus sequence: HVTACWGTABD Consensus sequence: DBTACWGTAVH

Best Matches for Motif ID 19 (Highest to Lowest)

Motif ID: UP00052
Motif name: Osr2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 11
Similarity score: 0

Alignment:
HHHHGCTACKGTHVHH
----DBTACWGTAVH-

Original motif Reverse complement motif
Consensus sequence: HHVHACRGTAGCHHHD Consensus sequence: HHHHGCTACKGTHVHH

Motif ID: UP00027
Motif name: Osr1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 11
Similarity score: 0.00480574

Alignment:
DHBHGCTACKGTHDHH
----DBTACWGTAVH-

Original motif Reverse complement motif
Consensus sequence: HHDHACRGTAGCHVHD Consensus sequence: DHBHGCTACKGTHDHH

Motif ID: UP00031
Motif name: Zbtb3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 11
Similarity score: 0.0165381

Alignment:
BBBAVTGCAGTGBBVDD
---HVTACWGTABD---

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

Motif ID: UP00034
Motif name: Sox7_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: 11
Similarity score: 0.0248017

Alignment:
HHBDHDDAACAATDRHHHHHBW
-----DBTACWGTAVH------

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

Motif ID: UP00023
Motif name: Sox30_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: 0.0294174

Alignment:
HHHHMHATTGTTBDHD
---HVTACWGTABD--

Original motif Reverse complement motif
Consensus sequence: DHDBAACAATDRHHHH Consensus sequence: HHHHMHATTGTTBDHD

Motif ID: UP00075
Motif name: Sox15_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 11
Similarity score: 0.0301544

Alignment:
DHVKMWATTGTTHDHDH
---HVTACWGTABD---

Original motif Reverse complement motif
Consensus sequence: HDDDDAACAATWRRBHD Consensus sequence: DHVKMWATTGTTHDHDH

Motif ID: UP00016
Motif name: Sry_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: 11
Similarity score: 0.0310991

Alignment:
VHVHDATTGTTMHDDDH
--DBTACWGTAVH----

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

Motif ID: UP00064
Motif name: Sox18_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: 0.031364

Alignment:
BWBHATTGTTBTHDHH
-DBTACWGTAVH----

Original motif Reverse complement motif
Consensus sequence: BWBHATTGTTBTHDHH Consensus sequence: HHDHABAACAATHBWV

Motif ID: UP00092
Motif name: Myb_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 11
Similarity score: 0.0314236

Alignment:
HDDDHAACCGTTAHHHD
---DBTACWGTAVH---

Original motif Reverse complement motif
Consensus sequence: HDDDHAACCGTTAHHHD Consensus sequence: DHHHTAACGGTTHHHDH

Motif ID: UP00071
Motif name: Sox21_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: 11
Similarity score: 0.0319794

Alignment:
VVYBWATTGTTCVBHDV
--HVTACWGTABD----

Original motif Reverse complement motif
Consensus sequence: VVYBWATTGTTCVBHDV Consensus sequence: BDDBVGAACAATWBMBV

Dataset #: 2 Motif ID: 20 Motif name: dhACATTCTkh

Original motif Reverse complement motif
Consensus sequence: DHACATTCTGH Consensus sequence: HCAGAATGTHD

Best Matches for Motif ID 20 (Highest to Lowest)

Motif ID: UP00038
Motif name: Spdef_secondary
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: 11
Similarity score: 0.00581553

Alignment:
VDWYTAGGATGTHVDH
---HCAGAATGTHD--

Original motif Reverse complement motif
Consensus sequence: DDBHACATCCTAKWDV Consensus sequence: VDWYTAGGATGTHVDH

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: 8
Number of overlap: 11
Similarity score: 0.00582895

Alignment:
DCATDBTGHGCATKMTTBRSWR
-------DHACATTCTGH----

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

Motif ID: UP00023
Motif name: Sox30_primary
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: 11
Similarity score: 0.00613057

Alignment:
HHHHMHATTGTTBDHD
--DHACATTCTGH---

Original motif Reverse complement motif
Consensus sequence: DHDBAACAATDRHHHH Consensus sequence: HHHHMHATTGTTBDHD

Motif ID: UP00034
Motif name: Sox7_primary
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: 11
Similarity score: 0.0119275

Alignment:
WBHHHHHMDATTGTTHDHDVHH
-----DHACATTCTGH------

Original motif Reverse complement motif
Consensus sequence: HHBDHDDAACAATDRHHHHHBW Consensus sequence: WBHHHHHMDATTGTTHDHDVHH

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: 3
Number of overlap: 11
Similarity score: 0.0122803

Alignment:
HHBTMCTTTGTTMDDVH
--DHACATTCTGH----

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

Motif ID: UP00250
Motif name: Irx5
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: 0.0132772

Alignment:
WVTDHWACATGTWHDDD
----DHACATTCTGH--

Original motif Reverse complement motif
Consensus sequence: DDDHWACATGTWHDABW Consensus sequence: WVTDHWACATGTWHDDD

Motif ID: UP00057
Motif name: Zic2_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: 11
Similarity score: 0.0141401

Alignment:
HHDCVCAGCAKGVVD
----HCAGAATGTHD

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

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: 3
Number of overlap: 11
Similarity score: 0.0143902

Alignment:
HHBBMCTTTGTTHDDBH
--DHACATTCTGH----

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

Motif ID: UP00004
Motif name: Sox14_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 11
Similarity score: 0.0151959

Alignment:
BKBASACAATRGHBB
---HCAGAATGTHD-

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

Motif ID: UP00064
Motif name: Sox18_primary
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: 11
Similarity score: 0.015273

Alignment:
BWBHATTGTTBTHDHH
DHACATTCTGH-----

Original motif Reverse complement motif
Consensus sequence: BWBHATTGTTBTHDHH Consensus sequence: HHDHABAACAATHBWV

Dataset #: 2 Motif ID: 21 Motif name: wbgTAAATAww

Original motif Reverse complement motif
Consensus sequence: DBGTAAATAHD Consensus sequence: DHTATTTACBD

Best Matches for Motif ID 21 (Highest to Lowest)

Motif ID: UP00242
Motif name: Hoxc8
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: 11
Similarity score: 0

Alignment:
AHDHTAATTACHHHHV
--DHTATTTACBD---

Original motif Reverse complement motif
Consensus sequence: BHDDDGTAATTAHHDT Consensus sequence: AHDHTAATTACHHHHV

Motif ID: UP00073
Motif name: Foxa2_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: 0.00453517

Alignment:
HHWAWGTAAAYAAAVDB
---DBGTAAATAHD---

Original motif Reverse complement motif
Consensus sequence: HHWAWGTAAAYAAAVDB Consensus sequence: BDVTTTKTTTACWTWHH

Motif ID: UP00039
Motif name: Foxj3_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: 0.00490457

Alignment:
HDHADGTAAACAAAVVH
---DBGTAAATAHD---

Original motif Reverse complement motif
Consensus sequence: HDHADGTAAACAAAVVH Consensus sequence: DVVTTTGTTTACDTHDH

Motif ID: UP00041
Motif name: Foxj1_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: 11
Similarity score: 0.00656547

Alignment:
HDHRTAAACAAAHDDD
-DBGTAAATAHD----

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

Motif ID: UP00182
Motif name: Hoxa6
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: 0.0086354

Alignment:
DTHHGGTAATTAYCYT
---DBGTAAATAHD--

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

Motif ID: UP00260
Motif name: Hoxc6
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 11
Similarity score: 0.0092156

Alignment:
BRHVKTAATTAMBDVVD
---DHTATTTACBD---

Original motif Reverse complement motif
Consensus sequence: BRHVKTAATTAMBDVVD Consensus sequence: DBBDVYTAATTARBHKB

Motif ID: UP00164
Motif name: Hoxa7_2668.2
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.00942246

Alignment:
VVHDDTAATTAHTDDBC
---DHTATTTACBD---

Original motif Reverse complement motif
Consensus sequence: VVHDDTAATTAHTDDBC Consensus sequence: GBDDAHTAATTADHHVV

Motif ID: UP00259
Motif name: Hoxb6
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: 0.00949005

Alignment:
VDVGTAATTACBDAWW
-DBGTAAATAHD----

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

Motif ID: UP00254
Motif name: Pou2f1
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: 0.00998499

Alignment:
WABKTAATTAHKHHHD
-DBGTAAATAHD----

Original motif Reverse complement motif
Consensus sequence: DHDHRHTAATTARBTW Consensus sequence: WABKTAATTAHKHHHD

Motif ID: UP00110
Motif name: Dlx4
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 11
Similarity score: 0.0107458

Alignment:
GHVRGTAATTATDVVGV
--DBGTAAATAHD----

Original motif Reverse complement motif
Consensus sequence: BCVVDATAATTACMVHC Consensus sequence: GHVRGTAATTATDVVGV

Results created by MOTIFSIM on 11-20-2016 13:21:41
Runtime: 601.6 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
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