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
PScanChIP_DM05.txt 16 1
RSAT_peak-motifs_DM05.txt 17 2

RESULTS

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

Dataset #: 1 Motif ID: 1 Motif name: HNF4A

Original motif Reverse complement motif
Consensus sequence: RGGBCAAAGKYCA Consensus sequence: TGMYCTTTGBCCK

Best Matches for Motif ID 1 (Highest to Lowest)

Motif ID: UP00058
Motif name: Tcf3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 13
Similarity score: 0.0357776

Alignment:
HHHASATCAAAGVRHHH
---RGGBCAAAGKYCA-

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

Motif ID: UP00054
Motif name: Tcf7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 13
Similarity score: 0.0357792

Alignment:
BHHASATCAAAGGAHHH
---RGGBCAAAGKYCA-

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

Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 13
Similarity score: 0.0359011

Alignment:
VDDAGATCAAAGGKDDD
---RGGBCAAAGKYCA-

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

Motif ID: UP00083
Motif name: Tcf7l2_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: 13
Similarity score: 0.0360786

Alignment:
BDDASATCAAAGGMDDD
---RGGBCAAAGKYCA-

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

Motif ID: UP00046
Motif name: Tcfe2a_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: 13
Similarity score: 0.0405764

Alignment:
HVDDVCAGATGKYHBBV
-RGGBCAAAGKYCA---

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

Motif ID: UP00062
Motif name: Sox4_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: 13
Similarity score: 0.0409915

Alignment:
HHBBMCTTTGTTHDDBH
-TGMYCTTTGBCCK---

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

Motif ID: UP00101
Motif name: Sox12_secondary
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: 13
Similarity score: 0.0413218

Alignment:
HDTMCTTTGTSTVDBB
TGMYCTTTGBCCK---

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

Motif ID: UP00030
Motif name: Sox11_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: 13
Similarity score: 0.0421105

Alignment:
HHBTMCTTTGTTMDDVH
-TGMYCTTTGBCCK---

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

Motif ID: UP00086
Motif name: Irf3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 13
Similarity score: 0.0442004

Alignment:
DDAGAADGGDSCDV
RGGBCAAAGKYCA-

Original motif Reverse complement motif
Consensus sequence: DDAGAADGGDSCDV Consensus sequence: BHGSDCCDTTCTHH

Motif ID: UP00082
Motif name: Zfp187_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: 13
Similarity score: 0.0446884

Alignment:
DDGMCCTBGTCCHYHV
---RGGBCAAAGKYCA

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

Dataset #: 1 Motif ID: 2 Motif name: NR2F1

Original motif Reverse complement motif
Consensus sequence: TGAMCTTTGMMCYT Consensus sequence: AKGYYCAAAGRTCA

Best Matches for Motif ID 2 (Highest to Lowest)

Motif ID: UP00083
Motif name: Tcf7l2_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: 14
Similarity score: 0.0452364

Alignment:
DDDYCCTTTGATSTDDV
-TGAMCTTTGMMCYT--

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

Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 14
Similarity score: 0.0453449

Alignment:
VDDAGATCAAAGGKDDD
--AKGYYCAAAGRTCA-

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

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: Forward
Position number: 8
Number of overlap: 14
Similarity score: 0.0461358

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-------TGAMCTTTGMMCYT-

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

Motif ID: UP00054
Motif name: Tcf7_primary
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: 0.0461768

Alignment:
BHHASATCAAAGGAHHH
--AKGYYCAAAGRTCA-

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

Motif ID: UP00058
Motif name: Tcf3_primary
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: 0.0473628

Alignment:
HHHASATCAAAGVRHHH
--AKGYYCAAAGRTCA-

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

Motif ID: UP00082
Motif name: Zfp187_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: 0.0480188

Alignment:
DDGMCCTBGTCCHYHV
TGAMCTTTGMMCYT--

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

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: 2
Number of overlap: 14
Similarity score: 0.0495447

Alignment:
HHBBMCTTTGTTHDDBH
-TGAMCTTTGMMCYT--

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

Motif ID: UP00030
Motif name: Sox11_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 14
Similarity score: 0.0499033

Alignment:
HHBTMCTTTGTTMDDVH
-TGAMCTTTGMMCYT--

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

Motif ID: UP00023
Motif name: Sox30_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: 14
Similarity score: 0.0511534

Alignment:
DHDBAACAATDRHHHH
--TGAMCTTTGMMCYT

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

Motif ID: UP00005
Motif name: Tcfap2a_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: 14
Similarity score: 0.0516973

Alignment:
BDGHCCWBVGGKDH
AKGYYCAAAGRTCA

Original motif Reverse complement motif
Consensus sequence: HHRCCBBWGGDCDB Consensus sequence: BDGHCCWBVGGKDH

Dataset #: 1 Motif ID: 3 Motif name: ESR1

Original motif Reverse complement motif
Consensus sequence: VDBHMAGGTCACCCTGACCY Consensus sequence: MGGTCAGGGTGACCTRDBHV

Best Matches for Motif ID 3 (Highest to Lowest)

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: 4
Number of overlap: 20
Similarity score: 0.0658405

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
VDBHMAGGTCACCCTGACCY---

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

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: 20
Similarity score: 0.0689748

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
VDBHMAGGTCACCCTGACCY---

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

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: Backward
Position number: 3
Number of overlap: 20
Similarity score: 0.0701247

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
MGGTCAGGGTGACCTRDBHV--

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

Motif ID: UP00539
Motif name: Gli2_v015681_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: 0.0711267

Alignment:
HVGVSAGGAGGGTCYHHHHYVH
MGGTCAGGGTGACCTRDBHV--

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

Motif ID: UP00540
Motif name: Gli3_v016060_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 20
Similarity score: 0.0742427

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
-VDBHMAGGTCACCCTGACCY-

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

Motif ID: UP00540
Motif name: Gli3_v015681_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: 20
Similarity score: 0.0747053

Alignment:
ABBBBVVRGACCACCCACRDBBM
--VDBHMAGGTCACCCTGACCY-

Original motif Reverse complement motif
Consensus sequence: ABBBBVVRGACCACCCACRDBBM Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Motif ID: UP00538
Motif name: Gli1_v016060_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: 20
Similarity score: 0.0749165

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
---VDBHMAGGTCACCCTGACCY

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

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: 2
Number of overlap: 20
Similarity score: 0.0759307

Alignment:
BBBDVVRGACCACCCAVGABBAB
-VDBHMAGGTCACCCTGACCY--

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

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: 3
Number of overlap: 20
Similarity score: 0.0762689

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
-MGGTCAGGGTGACCTRDBHV--

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

Motif ID: UP00034
Motif name: Sox7_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: 0.0780113

Alignment:
GTVBDAATTGTVTGHGDDHKVB
VDBHMAGGTCACCCTGACCY--

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

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

Original motif Reverse complement motif
Consensus sequence: VBBYCAAGGTCA Consensus sequence: TGACCTTGMBBB

Best Matches for Motif ID 4 (Highest to Lowest)

Motif ID: UP00079
Motif name: Esrra_primary
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: 12
Similarity score: 0

Alignment:
HHBVHTGACCTTGVDHD
-----TGACCTTGMBBB

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

Motif ID: UP00009
Motif name: Nr2f2_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: 12
Similarity score: 0.0205471

Alignment:
DHBHAAAGGTCAHVHB
VBBYCAAGGTCA----

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

Motif ID: UP00048
Motif name: Rara
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: 12
Similarity score: 0.0214372

Alignment:
DHBHAAAGGTCACVHD
VBBYCAAGGTCA----

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

Motif ID: UP00009
Motif name: Nr2f2_secondary
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: 12
Similarity score: 0.0430759

Alignment:
HVBVTGACCCSGBVBV
----TGACCTTGMBBB

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

Motif ID: UP00066
Motif name: Hnf4a_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: 12
Similarity score: 0.0451776

Alignment:
BDBVMGGGGTCAABHDV
VBBYCAAGGTCA-----

Original motif Reverse complement motif
Consensus sequence: BDBVMGGGGTCAABHDV Consensus sequence: BHHVTTGACCCCYVVDB

Motif ID: UP00079
Motif name: Esrra_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 12
Similarity score: 0.0482496

Alignment:
VKBBAGGGGTCAHDBBH
VBBYCAAGGTCA-----

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

Motif ID: UP00053
Motif name: Rxra_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 12
Similarity score: 0.0499025

Alignment:
DBHBDTGACCCCDHVHB
-----TGACCTTGMBBB

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

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: Forward
Position number: 8
Number of overlap: 12
Similarity score: 0.0525354

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-------TGACCTTGMBBB---

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

Motif ID: UP00066
Motif name: Hnf4a_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: 12
Similarity score: 0.0580553

Alignment:
HHAYTGGACTTTHDBV
----TGACCTTGMBBB

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

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: Forward
Position number: 9
Number of overlap: 12
Similarity score: 0.0609738

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
--------TGACCTTGMBBB---

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

Dataset #: 1 Motif ID: 5 Motif name: ZEB1

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

Best Matches for Motif ID 5 (Highest to Lowest)

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

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

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

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

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

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

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

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

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

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

Alignment:
DHDBHGCACCTGBDDVB
------CACCTD-----

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

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

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

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

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

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

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

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

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

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

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

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

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

Motif ID: UP00036
Motif name: Myf6_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 6
Similarity score: 0.0309673

Alignment:
VVDBAACAGBTGBYHB
------HAGGTG----

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

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

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

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

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

Original motif Reverse complement motif
Consensus sequence: HSCACGTGGC Consensus sequence: GCCACGTGSD

Best Matches for Motif ID 6 (Highest to Lowest)

Motif ID: UP00060
Motif name: Max_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: 10
Similarity score: 0

Alignment:
DDASCACGTGBTBVDD
--HSCACGTGGC----

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

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: 7
Number of overlap: 10
Similarity score: 0.00783793

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
-------GCCACGTGSD------

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

Motif ID: UP00050
Motif name: Bhlhb2_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: 10
Similarity score: 0.0132858

Alignment:
DDHBHBSTCACGTGAHBBDHHM
------GCCACGTGSD------

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

Motif ID: UP00046
Motif name: Tcfe2a_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 10
Similarity score: 0.0227933

Alignment:
VBHHVCAGGTGCDVDHD
---GCCACGTGSD----

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

Motif ID: UP00060
Motif name: Max_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: 10
Similarity score: 0.0257011

Alignment:
BBGHCACGCGACDD
--HSCACGTGGC--

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

Motif ID: UP00165
Motif name: Titf1
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: 10
Similarity score: 0.0344833

Alignment:
BVABCCACTTGAMHTT
---GCCACGTGSD---

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

Motif ID: UP00231
Motif name: Nkx2-2
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: 10
Similarity score: 0.035228

Alignment:
HDVRCCACTTGARADBD
---GCCACGTGSD----

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

Motif ID: UP00084
Motif name: Gmeb1_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: 10
Similarity score: 0.0358581

Alignment:
BVVDVRYACGTRYVBHB
----GCCACGTGSD---

Original motif Reverse complement motif
Consensus sequence: BHBBKKACGTMMVDBVB Consensus sequence: BVVDVRYACGTRYVBHB

Motif ID: UP00084
Motif name: Gmeb1_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: 10
Similarity score: 0.03725

Alignment:
HHMACKACGTMGBVCD
---HSCACGTGGC---

Original motif Reverse complement motif
Consensus sequence: DGVBCRACGTYGTYHH Consensus sequence: HHMACKACGTMGBVCD

Motif ID: UP00526
Motif name: Foxn1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 7
Number of overlap: 10
Similarity score: 0.0383187

Alignment:
WHVBVVMACGCGCGTCDYHWDH
------HSCACGTGGC------

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

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

Original motif Reverse complement motif
Consensus sequence: TTCAGCACCATGGACAGCKCC Consensus sequence: GGYGCTGTCCATGGTGCTGAA

Best Matches for Motif ID 7 (Highest to Lowest)

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: 3
Number of overlap: 21
Similarity score: 0.0699178

Alignment:
BBBDVVRGACCACCCAVGABBAB
--TTCAGCACCATGGACAGCKCC

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

Motif ID: UP00540
Motif name: Gli3_v015681_secondary
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: 21
Similarity score: 0.0734685

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
GGYGCTGTCCATGGTGCTGAA-

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

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: 2
Number of overlap: 21
Similarity score: 0.0740652

Alignment:
VYWVVHCRCCACMCACGAHSBHH
-TTCAGCACCATGGACAGCKCC-

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

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: 1
Number of overlap: 21
Similarity score: 0.0750152

Alignment:
MHHHWHYTMCCHCCCACVAABVH
--TTCAGCACCATGGACAGCKCC

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

Motif ID: UP00538
Motif name: Gli1_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 21
Similarity score: 0.0751449

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
GGYGCTGTCCATGGTGCTGAA--

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

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: 2
Number of overlap: 21
Similarity score: 0.075832

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
-TTCAGCACCATGGACAGCKCC-

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: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 21
Similarity score: 0.0773446

Alignment:
DTVBDDRGACCACCCAGDWDGBH
--TTCAGCACCATGGACAGCKCC

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: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 21
Similarity score: 0.0775367

Alignment:
YDYBDHTMCACGTGGADDBMDGT
--TTCAGCACCATGGACAGCKCC

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

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: 21
Similarity score: 0.077977

Alignment:
DCATDBTGHGCATKMTTBRSWR
-GGYGCTGTCCATGGTGCTGAA

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

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: 1
Number of overlap: 21
Similarity score: 0.0785969

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
--GGYGCTGTCCATGGTGCTGAA

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

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

Original motif Reverse complement motif
Consensus sequence: VGCACGTGGH Consensus sequence: DCCACGTGCV

Best Matches for Motif ID 8 (Highest to Lowest)

Motif ID: UP00060
Motif name: Max_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: 10
Similarity score: 0

Alignment:
DDASCACGTGBTBVDD
--VGCACGTGGH----

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

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: 8
Number of overlap: 10
Similarity score: 0.00631885

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
-------DCCACGTGCV------

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

Motif ID: UP00050
Motif name: Bhlhb2_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: 10
Similarity score: 0.00821668

Alignment:
DDHBHBSTCACGTGAHBBDHHM
------DCCACGTGCV------

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

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: 4
Number of overlap: 10
Similarity score: 0.0140005

Alignment:
DHDBHGCACCTGBDDVB
----VGCACGTGGH---

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

Motif ID: UP00060
Motif name: Max_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: 10
Similarity score: 0.0308912

Alignment:
BBGHCACGCGACDD
--VGCACGTGGH--

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

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: 4
Number of overlap: 10
Similarity score: 0.0311723

Alignment:
BVABCCACTTGAMHTT
---DCCACGTGCV---

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

Motif ID: UP00249
Motif name: Nkx2-5
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: 10
Similarity score: 0.031308

Alignment:
HDADCCACTTRAAWTT
---DCCACGTGCV---

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

Motif ID: UP00231
Motif name: Nkx2-2
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: 10
Similarity score: 0.0334845

Alignment:
HDVRCCACTTGARADBD
---DCCACGTGCV----

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

Motif ID: UP00147
Motif name: Nkx2-6
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: 10
Similarity score: 0.0345548

Alignment:
DDADCCACTTAAVHTT
---DCCACGTGCV---

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

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: Forward
Position number: 6
Number of overlap: 10
Similarity score: 0.0363818

Alignment:
VDWDARRGACGCGGWHGGAKHV
-----VGCACGTGGH-------

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

Dataset #: 1 Motif ID: 9 Motif name: ESR2

Original motif Reverse complement motif
Consensus sequence: VHRGGTCABDBTGMCCTB Consensus sequence: BAGGYCABHBTGACCKHV

Best Matches for Motif ID 9 (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: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 18
Similarity score: 0.0443894

Alignment:
GTVBDAATTGTVTGHGDDHKVB
---VHRGGTCABDBTGMCCTB-

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

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: Forward
Position number: 4
Number of overlap: 18
Similarity score: 0.049219

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
---VHRGGTCABDBTGMCCTB--

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

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: 3
Number of overlap: 18
Similarity score: 0.0509182

Alignment:
DDHBHBSTCACGTGAHBBDHHM
--VHRGGTCABDBTGMCCTB--

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

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: Forward
Position number: 2
Number of overlap: 18
Similarity score: 0.0527075

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
-BAGGYCABHBTGACCKHV---

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

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: 2
Number of overlap: 18
Similarity score: 0.0541044

Alignment:
WBHHHHHMDATTGTTHDHDVHH
-BAGGYCABHBTGACCKHV---

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

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: Forward
Position number: 3
Number of overlap: 18
Similarity score: 0.0541108

Alignment:
VCTBHBVCTTGGWTACVVVVVDB
--BAGGYCABHBTGACCKHV---

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

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: 2
Number of overlap: 18
Similarity score: 0.0543733

Alignment:
VDWDARRGACGCGGWHGGAKHV
---VHRGGTCABDBTGMCCTB-

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

Motif ID: UP00538
Motif name: Gli1_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 18
Similarity score: 0.0548087

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-BAGGYCABHBTGACCKHV----

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

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: 5
Number of overlap: 18
Similarity score: 0.055453

Alignment:
DCATDBTGHGCATKMTTBRSWR
----VHRGGTCABDBTGMCCTB

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: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 18
Similarity score: 0.0566426

Alignment:
HBHDVBWGATHBTATCRVBHHH
-VHRGGTCABDBTGMCCTB---

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

Dataset #: 1 Motif ID: 10 Motif name: NR1H2RXRA

Original motif Reverse complement motif
Consensus sequence: AAAGGTCAAAGGTCAAC Consensus sequence: GTTGACCTTTGACCTTT

Best Matches for Motif ID 10 (Highest to Lowest)

Motif ID: UP00539
Motif name: Gli2_v015681_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 17
Similarity score: 0.0538452

Alignment:
DVMHHDHKGACCCTCCTSVCBH
-----GTTGACCTTTGACCTTT

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

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: Backward
Position number: 1
Number of overlap: 17
Similarity score: 0.0545098

Alignment:
BDHDDADAGATAAGADHBDHVD
-----AAAGGTCAAAGGTCAAC

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

Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 16
Similarity score: 0.521114

Alignment:
VDDAGATCAAAGGKDDD-
-AAAGGTCAAAGGTCAAC

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

Motif ID: UP00083
Motif name: Tcf7l2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 16
Similarity score: 0.527825

Alignment:
-DDDYCCTTTGATSTDDV
GTTGACCTTTGACCTTT-

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

Motif ID: UP00054
Motif name: Tcf7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 16
Similarity score: 0.531154

Alignment:
BHHASATCAAAGGAHHH-
-AAAGGTCAAAGGTCAAC

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

Motif ID: UP00058
Motif name: Tcf3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 16
Similarity score: 0.531876

Alignment:
-HHHASATCAAAGVRHHH
AAAGGTCAAAGGTCAAC-

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

Motif ID: UP00030
Motif name: Sox11_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 16
Similarity score: 0.544403

Alignment:
HBDDRAACAAAGRABHH-
-AAAGGTCAAAGGTCAAC

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

Motif ID: UP00062
Motif name: Sox4_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: 16
Similarity score: 0.544565

Alignment:
-HHBBMCTTTGTTHDDBH
GTTGACCTTTGACCTTT-

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

Motif ID: UP00019
Motif name: Zbtb12_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: 16
Similarity score: 0.550511

Alignment:
-BBGATCTAGAACBKHDB
GTTGACCTTTGACCTTT-

Original motif Reverse complement motif
Consensus sequence: BDHRBGTTCTAGATCVB Consensus sequence: BBGATCTAGAACBKHDB

Motif ID: UP00046
Motif name: Tcfe2a_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 16
Similarity score: 0.552064

Alignment:
-HVDDVCAGATGKYHBBV
AAAGGTCAAAGGTCAAC-

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

Dataset #: 1 Motif ID: 11 Motif name: NR4A2

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

Best Matches for Motif ID 11 (Highest to Lowest)

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

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

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

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

Alignment:
DHBHAAAGGTCAHVHB
-----AAGGTCAC---

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

Motif ID: UP00079
Motif name: Esrra_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.01542

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

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

Motif ID: UP00009
Motif name: Nr2f2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0395644

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

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

Motif ID: UP00082
Motif name: Zfp187_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 8
Similarity score: 0.0407874

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

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

Motif ID: UP00053
Motif name: Rxra_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0422933

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Dataset #: 1 Motif ID: 12 Motif name: RORA_1

Original motif Reverse complement motif
Consensus sequence: AWVDAGGTCA Consensus sequence: TGACCTDVWT

Best Matches for Motif ID 12 (Highest to Lowest)

Motif ID: UP00009
Motif name: Nr2f2_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: 10
Similarity score: 0.0154749

Alignment:
DHBHAAAGGTCAHVHB
--AWVDAGGTCA----

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

Motif ID: UP00079
Motif name: Esrra_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 10
Similarity score: 0.0176661

Alignment:
HHBVHTGACCTTGVDHD
-----TGACCTDVWT--

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

Motif ID: UP00048
Motif name: Rara
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: 10
Similarity score: 0.0189599

Alignment:
DHBHAAAGGTCACVHD
--AWVDAGGTCA----

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

Motif ID: UP00009
Motif name: Nr2f2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 10
Similarity score: 0.0331999

Alignment:
VBVBCSGGGTCAVBBH
--AWVDAGGTCA----

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

Motif ID: UP00066
Motif name: Hnf4a_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: 10
Similarity score: 0.0341771

Alignment:
BDBVMGGGGTCAABHDV
--AWVDAGGTCA-----

Original motif Reverse complement motif
Consensus sequence: BDBVMGGGGTCAABHDV Consensus sequence: BHHVTTGACCCCYVVDB

Motif ID: UP00053
Motif name: Rxra_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 10
Similarity score: 0.0363566

Alignment:
DBHBDTGACCCCDHVHB
-----TGACCTDVWT--

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

Motif ID: UP00079
Motif name: Esrra_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0391284

Alignment:
VKBBAGGGGTCAHDBBH
--AWVDAGGTCA-----

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

Motif ID: UP00035
Motif name: Hic1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 10
Similarity score: 0.0444205

Alignment:
DBDDRTGCCCAWDHDV
-----TGACCTDVWT-

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

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: Forward
Position number: 1
Number of overlap: 10
Similarity score: 0.0461434

Alignment:
RDHDBVDTCACGTGASBHVHDH
AWVDAGGTCA------------

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

Motif ID: UP00538
Motif name: Gli1_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 10
Similarity score: 0.0489571

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-----------TGACCTDVWT--

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

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

Original motif Reverse complement motif
Consensus sequence: BAACGTCCGC Consensus sequence: GCGGACGTTV

Best Matches for Motif ID 13 (Highest to Lowest)

Motif ID: UP00419
Motif name: Spic
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: 10
Similarity score: 0

Alignment:
DWACTTCCRCTTTB
BAACGTCCGC----

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

Motif ID: UP00409
Motif name: Elf5
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: 10
Similarity score: 0.00379999

Alignment:
BWAHSMGGAAGTWD
BAACGTCCGC----

Original motif Reverse complement motif
Consensus sequence: BWAHSMGGAAGTWD Consensus sequence: DWACTTCCRSDTWV

Motif ID: UP00413
Motif name: Elf4
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: 10
Similarity score: 0.0124101

Alignment:
DBBHACTTCCGGKWTH
--BAACGTCCGC----

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

Motif ID: UP00404
Motif name: Elf2
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0128348

Alignment:
DBBHACTTCCGGDWDB
--BAACGTCCGC----

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

Motif ID: UP00085
Motif name: Sfpi1_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: 10
Similarity score: 0.0141516

Alignment:
BDAWGVGGAAGTDH
BAACGTCCGC----

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

Motif ID: UP00423
Motif name: Gm5454
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: 10
Similarity score: 0.0144665

Alignment:
DVHACCGGAAGTHDDV
----GCGGACGTTV--

Original motif Reverse complement motif
Consensus sequence: VDHHACTTCCGGTHVH Consensus sequence: DVHACCGGAAGTHDDV

Motif ID: UP00412
Motif name: Etv5
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: 10
Similarity score: 0.0155825

Alignment:
DHHACCGGAWGTTDDV
----GCGGACGTTV--

Original motif Reverse complement motif
Consensus sequence: VDHAACWTCCGGTHHH Consensus sequence: DHHACCGGAWGTTDDV

Motif ID: UP00015
Motif name: Ehf_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: 0.0162018

Alignment:
VBDABCCGGAAGTDD
-----GCGGACGTTV

Original motif Reverse complement motif
Consensus sequence: VBDABCCGGAAGTDD Consensus sequence: DDACTTCCGGBTHBB

Motif ID: UP00418
Motif name: Etv6
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: 10
Similarity score: 0.0171234

Alignment:
DVHBTACTTCCGGHTHB
---BAACGTCCGC----

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

Motif ID: UP00421
Motif name: Etv1
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: 10
Similarity score: 0.0184147

Alignment:
MVHBACCGGAAGTVDVH
-----GCGGACGTTV--

Original motif Reverse complement motif
Consensus sequence: MVHBACCGGAAGTVDVH Consensus sequence: HBDBACTTCCGGTBHVY

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

Original motif Reverse complement motif
Consensus sequence: BTRGGDCARAGGKCA Consensus sequence: TGRCCTKTGHCCKAB

Best Matches for Motif ID 14 (Highest to Lowest)

Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 15
Similarity score: 0.0304954

Alignment:
VDDAGATCAAAGGKDDD
-BTRGGDCARAGGKCA-

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

Motif ID: UP00058
Motif name: Tcf3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 15
Similarity score: 0.0319475

Alignment:
HHHASATCAAAGVRHHH
-BTRGGDCARAGGKCA-

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

Motif ID: UP00054
Motif name: Tcf7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 15
Similarity score: 0.032779

Alignment:
BHHASATCAAAGGAHHH
-BTRGGDCARAGGKCA-

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

Motif ID: UP00082
Motif name: Zfp187_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: 15
Similarity score: 0.0334185

Alignment:
VHMDGGACVAGGRCDH
BTRGGDCARAGGKCA-

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

Motif ID: UP00062
Motif name: Sox4_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 15
Similarity score: 0.0352539

Alignment:
HBDDDAACAAAGRVBHH
-BTRGGDCARAGGKCA-

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

Motif ID: UP00030
Motif name: Sox11_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 15
Similarity score: 0.0358782

Alignment:
HBDDRAACAAAGRABHH
-BTRGGDCARAGGKCA-

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

Motif ID: UP00101
Motif name: Sox12_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 15
Similarity score: 0.0374729

Alignment:
HDTMCTTTGTSTVDBB
TGRCCTKTGHCCKAB-

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

Motif ID: UP00083
Motif name: Tcf7l2_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 15
Similarity score: 0.0379757

Alignment:
BDDASATCAAAGGMDDD
-BTRGGDCARAGGKCA-

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

Motif ID: UP00093
Motif name: Klf7_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: 15
Similarity score: 0.0382733

Alignment:
DHHDGGGCGRGGKHBH
BTRGGDCARAGGKCA-

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

Motif ID: UP00055
Motif name: Hbp1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 15
Similarity score: 0.0397168

Alignment:
DDDYCCCATTGTVHABH
BTRGGDCARAGGKCA--

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

Dataset #: 1 Motif ID: 15 Motif name: Tcfcp2l1

Original motif Reverse complement motif
Consensus sequence: CCAGYYHVADCCRG Consensus sequence: CKGGDTBDMMCTGG

Best Matches for Motif ID 15 (Highest to Lowest)

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: 5
Number of overlap: 14
Similarity score: 0.0527249

Alignment:
HBHDVBWGATHBTATCRVBHHH
----CCAGYYHVADCCRG----

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

Motif ID: UP00539
Motif name: Gli2_v016060_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: 14
Similarity score: 0.0551691

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
--------CCAGYYHVADCCRG

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

Motif ID: UP00005
Motif name: Tcfap2a_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: 14
Similarity score: 0.0560983

Alignment:
HHRCCBBWGGDCDB
CCAGYYHVADCCRG

Original motif Reverse complement motif
Consensus sequence: HHRCCBBWGGDCDB Consensus sequence: BDGHCCWBVGGKDH

Motif ID: UP00013
Motif name: Gabpa_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: 0.0566467

Alignment:
CYDBYWTCCSMHBVVH
CCAGYYHVADCCRG--

Original motif Reverse complement motif
Consensus sequence: CYDBYWTCCSMHBVVH Consensus sequence: DBVVDRSGGAWKVHKG

Motif ID: UP00075
Motif name: Sox15_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: 14
Similarity score: 0.0577636

Alignment:
BBVAATGDMATTHVA
-CCAGYYHVADCCRG

Original motif Reverse complement motif
Consensus sequence: BBVAATGDMATTHVA Consensus sequence: TVDAATYDCATTVVV

Motif ID: UP00096
Motif name: Sox13_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: 14
Similarity score: 0.0587893

Alignment:
DDDHTGGGTGGGHAHHD
---CKGGDTBDMMCTGG

Original motif Reverse complement motif
Consensus sequence: DDDHTGGGTGGGHAHHD Consensus sequence: DHHTHCCCACCCAHDDH

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: 3
Number of overlap: 14
Similarity score: 0.0590238

Alignment:
VVYDDDCHCAVACAATTDBVAC
--CCAGYYHVADCCRG------

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

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: 9
Number of overlap: 14
Similarity score: 0.0596904

Alignment:
VYWVVHCRCCACMCACGAHSBHH
--------CCAGYYHVADCCRG-

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

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: Backward
Position number: 1
Number of overlap: 14
Similarity score: 0.0597695

Alignment:
BBBDVVRGACCACCCAVGABBAB
---------CCAGYYHVADCCRG

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

Motif ID: UP00539
Motif name: Gli2_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: 14
Similarity score: 0.0598357

Alignment:
HVGVSAGGAGGGTCYHHHHYVH
-------CKGGDTBDMMCTGG-

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

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

Original motif Reverse complement motif
Consensus sequence: YDRCCASYAGRKGGCRSYV Consensus sequence: BMSMGCCYMCTKSTGGMHM

Best Matches for Motif ID 16 (Highest to Lowest)

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: 1
Number of overlap: 19
Similarity score: 0.0409369

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
----BMSMGCCYMCTKSTGGMHM

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

Motif ID: UP00538
Motif name: Gli1_v016060_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: 19
Similarity score: 0.0409815

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB
-YDRCCASYAGRKGGCRSYV---

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: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 19
Similarity score: 0.0431951

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
---BMSMGCCYMCTKSTGGMHM

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

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: 19
Similarity score: 0.0469794

Alignment:
RTHBSYCGCCMCMYVCGBTVDH
---BMSMGCCYMCTKSTGGMHM

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

Motif ID: UP00538
Motif name: Gli1_v016060_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: 19
Similarity score: 0.0482204

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
YDRCCASYAGRKGGCRSYV----

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

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: Backward
Position number: 4
Number of overlap: 19
Similarity score: 0.0491604

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
-YDRCCASYAGRKGGCRSYV---

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

Motif ID: UP00538
Motif name: Gli1_v015681_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: 19
Similarity score: 0.0511535

Alignment:
BBBDVVRGACCACCCAVGABBAB
---BMSMGCCYMCTKSTGGMHM-

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

Motif ID: UP00539
Motif name: Gli2_v015681_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: 19
Similarity score: 0.0520741

Alignment:
HVGVSAGGAGGGTCYHHHHYVH
YDRCCASYAGRKGGCRSYV---

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: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 19
Similarity score: 0.0532334

Alignment:
DVVTTVGTGGGHGGYAMHWHHHY
YDRCCASYAGRKGGCRSYV----

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

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: 3
Number of overlap: 19
Similarity score: 0.0535675

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
--BMSMGCCYMCTKSTGGMHM--

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

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

Original motif Reverse complement motif
Consensus sequence: TGTGGTGTCACAGTGCTCC Consensus sequence: GGAGCACTGTGACACCACA

Best Matches for Motif ID 17 (Highest to Lowest)

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: 2
Number of overlap: 19
Similarity score: 0.043204

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB
---TGTGGTGTCACAGTGCTCC-

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: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 18
Similarity score: 0.553914

Alignment:
HVBDAGCGBGGGTGGCRDBDDDB-
-----TGTGGTGTCACAGTGCTCC

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

Motif ID: UP00192
Motif name: Six1
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: 17
Similarity score: 1.04528

Alignment:
AVHDHTGATACCCMDHH--
--GGAGCACTGTGACACCACA

Original motif Reverse complement motif
Consensus sequence: DHDRGGGTATCAHDHBT Consensus sequence: AVHDHTGATACCCMDHH

Motif ID: UP00193
Motif name: Rhox11_2205.1
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: 17
Similarity score: 1.0459

Alignment:
--AVDHCGCTGTWAWDVVW
TGTGGTGTCACAGTGCTCC

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

Motif ID: UP00193
Motif name: Rhox11_1765.2
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: 17
Similarity score: 1.0462

Alignment:
--WVVHWTWACAGCGBHBT
TGTGGTGTCACAGTGCTCC

Original motif Reverse complement motif
Consensus sequence: AVDVCGCTGTWAWDVVW Consensus sequence: WVVHWTWACAGCGBHBT

Motif ID: UP00068
Motif name: Eomes_primary
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: 17
Similarity score: 1.04631

Alignment:
--HHHTTTCACACCTDHBV
GGAGCACTGTGACACCACA--

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

Motif ID: UP00067
Motif name: Lef1_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: 17
Similarity score: 1.04807

Alignment:
VDDAGATCAAAGGKDDD--
-GGAGCACTGTGACACCACA

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

Motif ID: UP00540
Motif name: Gli3_v015681_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 17
Similarity score: 1.04831

Alignment:
YBVDMGTGGGTGGTCKVVBVBBT--
--GGAGCACTGTGACACCACA----

Original motif Reverse complement motif
Consensus sequence: ABBBBVVRGACCACCCACRDBBM Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

Motif ID: UP00053
Motif name: Rxra_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: 17
Similarity score: 1.04867

Alignment:
--DBHBDTGACCCCDHVHB
TGTGGTGTCACAGTGCTCC--

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

Motif ID: UP00388
Motif name: Six6_2267.4
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: 17
Similarity score: 1.0491

Alignment:
AHWDHTGATACCCKATD--
--GGAGCACTGTGACACCACA

Original motif Reverse complement motif
Consensus sequence: DATRGGGTATCAHDWHT Consensus sequence: AHWDHTGATACCCKATD

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

Original motif Reverse complement motif
Consensus sequence: BSCCCCGCGBS Consensus sequence: SBCGCGGGGSB

Best Matches for Motif ID 18 (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: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 11
Similarity score: 0.00934222

Alignment:
BHBHDTGGCGGGGBDHD
----SBCGCGGGGSB--

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

Motif ID: UP00006
Motif name: Zic3_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: 11
Similarity score: 0.0105793

Alignment:
BMCCCCCGGGGGGGB
-BSCCCCGCGBS---

Original motif Reverse complement motif
Consensus sequence: BMCCCCCGGGGGGGB Consensus sequence: VCCCCCCCGGGGGRB

Motif ID: UP00057
Motif name: Zic2_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: 0.0112489

Alignment:
VCCCCCCCGGGGGRB
---SBCGCGGGGSB-

Original motif Reverse complement motif
Consensus sequence: BMCCCCCGGGGGGGB Consensus sequence: VCCCCCCCGGGGGRB

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: 7
Number of overlap: 11
Similarity score: 0.014467

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
------SBCGCGGGGSB------

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

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: 4
Number of overlap: 11
Similarity score: 0.0150561

Alignment:
HDWHMHGACGCGCGTRBVVBHW
--------SBCGCGGGGSB---

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: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.0169049

Alignment:
DMMDGMGCGCGCGCHD
--BSCCCCGCGBS---

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

Motif ID: UP00102
Motif name: Zic1_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: 11
Similarity score: 0.0186112

Alignment:
BHCCCCCGGGGGGG
-BSCCCCGCGBS--

Original motif Reverse complement motif
Consensus sequence: BHCCCCCGGGGGGG Consensus sequence: CCCCCCCGGGGGHB

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: 8
Number of overlap: 11
Similarity score: 0.0192401

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
----BSCCCCGCGBS-------

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

Motif ID: UP00022
Motif name: Zfp740_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: 0.0204596

Alignment:
BHHDYGGGGGGGGBVD
--SBCGCGGGGSB---

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

Motif ID: UP00526
Motif name: Foxn1_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: 11
Similarity score: 0.0232114

Alignment:
DDRMHBACGCGYGCGTDGBBDB
-------SBCGCGGGGSB----

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

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

Original motif Reverse complement motif
Consensus sequence: ATACTTTGGC Consensus sequence: GCCAAAGTAT

Best Matches for Motif ID 19 (Highest to Lowest)

Motif ID: UP00156
Motif name: Msx2
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: 0.0221581

Alignment:
ADHKCTAATTKGTCDBV
----ATACTTTGGC---

Original motif Reverse complement motif
Consensus sequence: VVDGACYAATTAGYDHT Consensus sequence: ADHKCTAATTKGTCDBV

Motif ID: UP00101
Motif name: Sox12_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.027519

Alignment:
HDTMCTTTGTSTVDBB
-ATACTTTGGC-----

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

Motif ID: UP00066
Motif name: Hnf4a_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.0285786

Alignment:
BBHHAAAGTCCAMTHH
-GCCAAAGTAT-----

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

Motif ID: UP00418
Motif name: Etv6
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 10
Similarity score: 0.030488

Alignment:
BHAHCCGGAAGTABDVD
----GCCAAAGTAT---

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

Motif ID: UP00083
Motif name: Tcf7l2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 10
Similarity score: 0.0314685

Alignment:
BDDASATCAAAGGMDDD
-----GCCAAAGTAT--

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

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: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.0317293

Alignment:
HHBTMCTTTGTTMDDVH
--ATACTTTGGC-----

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

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: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.031914

Alignment:
HHBBMCTTTGTTHDDBH
--ATACTTTGGC-----

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

Motif ID: UP00035
Motif name: Hic1_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: 0.0323012

Alignment:
DBBATGCCAACCHVHH
-----GCCAAAGTAT-

Original motif Reverse complement motif
Consensus sequence: DBBATGCCAACCHVHH Consensus sequence: DDBHGGTTGGCATVBD

Motif ID: UP00146
Motif name: Pou6f1_3733.1
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: 10
Similarity score: 0.032571

Alignment:
VHHVATAATGAGSTDDH
----ATACTTTGGC---

Original motif Reverse complement motif
Consensus sequence: VHHVATAATGAGSTDDH Consensus sequence: DHDASCTCATTATVHHB

Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.0330221

Alignment:
DDDYCCTTTGATCTDDV
--ATACTTTGGC-----

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

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

Original motif Reverse complement motif
Consensus sequence: CAGTGCTCCACTGTGBT Consensus sequence: ABCACAGTGGAGCACTG

Best Matches for Motif ID 20 (Highest to Lowest)

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: Backward
Position number: 4
Number of overlap: 17
Similarity score: 0.0419306

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
--ABCACAGTGGAGCACTG---

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

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: 1
Number of overlap: 17
Similarity score: 0.0501904

Alignment:
HHBDHDDAACAATDRHHHHHBW
-----ABCACAGTGGAGCACTG

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

Motif ID: UP00538
Motif name: Gli1_v016060_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: 17
Similarity score: 0.0504778

Alignment:
HGDHVHKGACCACCCGGBGBGDB
--CAGTGCTCCACTGTGBT----

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

Motif ID: UP00022
Motif name: Zfp740_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: 17
Similarity score: 0.0513094

Alignment:
DDDTWCCCCCCGGDRVH
CAGTGCTCCACTGTGBT

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

Motif ID: UP00540
Motif name: Gli3_v015681_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: 17
Similarity score: 0.0516506

Alignment:
VMYDHDGMCCHCCKBGVVAAVH
-CAGTGCTCCACTGTGBT----

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

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: 3
Number of overlap: 17
Similarity score: 0.0523515

Alignment:
VHVRCAYGATGCATCDTVVADTH
--ABCACAGTGGAGCACTG----

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

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: 3
Number of overlap: 17
Similarity score: 0.053668

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
--ABCACAGTGGAGCACTG---

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

Motif ID: UP00050
Motif name: Bhlhb2_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: 17
Similarity score: 0.0539016

Alignment:
YDYBDHTMCACGTGGADDBMDGT
-----ABCACAGTGGAGCACTG-

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

Motif ID: UP00042
Motif name: Gm397_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: 17
Similarity score: 0.0558205

Alignment:
HHRTATGTGCACATHHD
ABCACAGTGGAGCACTG

Original motif Reverse complement motif
Consensus sequence: HHDATGTGCACATAMDH Consensus sequence: HHRTATGTGCACATHHD

Motif ID: UP00526
Motif name: Foxn1_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: 0.0558674

Alignment:
BDVBCDACGCKCGCGTBHRKHD
----CAGTGCTCCACTGTGBT-

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

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

Original motif Reverse complement motif
Consensus sequence: AMTGTGACACCACAGT Consensus sequence: ACTGTGGTGTCACART

Best Matches for Motif ID 21 (Highest to Lowest)

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: Forward
Position number: 1
Number of overlap: 16
Similarity score: 0.0273934

Alignment:
DBDRTGACGTCAYHRD
AMTGTGACACCACAGT

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

Motif ID: UP00159
Motif name: Six2
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: 16
Similarity score: 0.0303245

Alignment:
AHWDGTGATACCCMRTD
-AMTGTGACACCACAGT

Original motif Reverse complement motif
Consensus sequence: DAKRGGGTATCACDWHT Consensus sequence: AHWDGTGATACCCMRTD

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: 1
Number of overlap: 16
Similarity score: 0.0344928

Alignment:
BBGATGACGTCAYCVH
AMTGTGACACCACAGT

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

Motif ID: UP00122
Motif name: Tgif1
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: 16
Similarity score: 0.0348371

Alignment:
DBVVAGCTGTCAWWVTH
ACTGTGGTGTCACART-

Original motif Reverse complement motif
Consensus sequence: DABWWTGACAGCTVVBD Consensus sequence: DBVVAGCTGTCAWWVTH

Motif ID: UP00195
Motif name: Six3
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: 0.0349083

Alignment:
DATRGGGTATCAHHWHT
ACTGTGGTGTCACART-

Original motif Reverse complement motif
Consensus sequence: DATRGGGTATCAHHWHT Consensus sequence: AHWHDTGATACCCKATH

Motif ID: UP00388
Motif name: Six6_2267.4
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: 0.0354092

Alignment:
DATRGGGTATCAHDWHT
ACTGTGGTGTCACART-

Original motif Reverse complement motif
Consensus sequence: DATRGGGTATCAHDWHT Consensus sequence: AHWDHTGATACCCKATD

Motif ID: UP00192
Motif name: Six1
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: 16
Similarity score: 0.0354313

Alignment:
AVHDHTGATACCCMDHH
ACTGTGGTGTCACART-

Original motif Reverse complement motif
Consensus sequence: DHDRGGGTATCAHDHBT Consensus sequence: AVHDHTGATACCCMDHH

Motif ID: UP00199
Motif name: Six4
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: 16
Similarity score: 0.0355151

Alignment:
ADDHATGACACCBHBBV
-AMTGTGACACCACAGT

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

Motif ID: UP00053
Motif name: Rxra_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: 16
Similarity score: 0.0362492

Alignment:
DBHBDTGACCCCDHVHB
-AMTGTGACACCACAGT

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

Motif ID: UP00388
Motif name: Six6_2267.5
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: 0.0374881

Alignment:
DDDRGGGTATCAWHWHT
-AMTGTGACACCACAGT

Original motif Reverse complement motif
Consensus sequence: DDDRGGGTATCAWHWHT Consensus sequence: AHWHWTGATACCCKDDD

Dataset #: 2 Motif ID: 22 Motif name: CACTGTGrYrtCACAGTGswsCAcT

Original motif Reverse complement motif
Consensus sequence: CACTGTGRTRTCACAGTGSWSCACT Consensus sequence: AGTGSWSCACTGTGAMAMCACAGTG

Best Matches for Motif ID 22 (Highest to Lowest)

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: Backward
Position number: 2
Number of overlap: 21
Similarity score: 0.0558366

Alignment:
----HHBDHDDAACAATDRHHHHHBW
CACTGTGRTRTCACAGTGSWSCACT-

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

Motif ID: UP00540
Motif name: Gli3_v015681_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: 20
Similarity score: 0.55477

Alignment:
VMYDHDGMCCHCCKBGVVAAVH-----
--AGTGSWSCACTGTGAMAMCACAGTG

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

Motif ID: UP00539
Motif name: Gli2_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 7
Number of overlap: 19
Similarity score: 1.05722

Alignment:
DBCDWHCTGGGTGGTCMDHBBAH------
------AGTGSWSCACTGTGAMAMCACAGTG

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

Motif ID: UP00538
Motif name: Gli1_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 19
Similarity score: 1.05946

Alignment:
HGDHVHKGACCACCCGGBGBGDB------
------AGTGSWSCACTGTGAMAMCACAGTG

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

Motif ID: UP00539
Motif name: Gli2_v015681_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 8
Number of overlap: 18
Similarity score: 1.5496

Alignment:
HTBVVVDGGACCACCCRGRDBG-------
-------CACTGTGRTRTCACAGTGSWSCACT

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

Motif ID: UP00528
Motif name: Foxm1_primary
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: 18
Similarity score: 1.55149

Alignment:
HADTBVADGATGCATCMTGMVHB-------
-------CACTGTGRTRTCACAGTGSWSCACT

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

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: Backward
Position number: 8
Number of overlap: 18
Similarity score: 1.55607

Alignment:
-------CVHBSCGGGTGGTCMHVHHCDH
AGTGSWSCACTGTGAMAMCACAGTG-------

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

Motif ID: UP00228
Motif name: Bapx1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 17
Similarity score: 2.04247

Alignment:
--------DTBVTTAAGTGGTTHHV
AGTGSWSCACTGTGAMAMCACAGTG-------

Original motif Reverse complement motif
Consensus sequence: VHHAACCACTTAAVVAH Consensus sequence: DTBVTTAAGTGGTTHHV

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: 7
Number of overlap: 17
Similarity score: 2.04316

Alignment:
DDBBBCACTGCABTBBB--------
------CACTGTGRTRTCACAGTGSWSCACT

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

Motif ID: UP00193
Motif name: Rhox11_1765.2
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: 17
Similarity score: 2.04346

Alignment:
WVVHWTWACAGCGBHBT--------
---AGTGSWSCACTGTGAMAMCACAGTG

Original motif Reverse complement motif
Consensus sequence: AVDVCGCTGTWAWDVVW Consensus sequence: WVVHWTWACAGCGBHBT

Dataset #: 2 Motif ID: 23 Motif name: TGGAGCACTGTGACAcCACAGTGg

Original motif Reverse complement motif
Consensus sequence: TGGAGCACTGTGACAVCACAGTGG Consensus sequence: CCACTGTGVTGTCACAGTGCTCCA

Best Matches for Motif ID 23 (Highest to Lowest)

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: Forward
Position number: 4
Number of overlap: 21
Similarity score: 0.0391954

Alignment:
BDBBVBVGTAWCCAAGVBHBAGB---
---CCACTGTGVTGTCACAGTGCTCCA

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

Motif ID: UP00540
Motif name: Gli3_v015681_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: 21
Similarity score: 0.0400271

Alignment:
YBVDMGTGGGTGGTCKVVBVBBT---
--CCACTGTGVTGTCACAGTGCTCCA

Original motif Reverse complement motif
Consensus sequence: ABBBBVVRGACCACCCACRDBBM Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

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: Backward
Position number: 5
Number of overlap: 20
Similarity score: 0.535486

Alignment:
----DBCDWHCTGGGTGGTCMDHBBAH
CCACTGTGVTGTCACAGTGCTCCA----

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

Motif ID: UP00538
Motif name: Gli1_v015681_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: 20
Similarity score: 0.536069

Alignment:
----BTBVTCVTGGGTGGTCMVVDVBB
CCACTGTGVTGTCACAGTGCTCCA----

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

Motif ID: UP00538
Motif name: Gli1_v016060_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: 20
Similarity score: 0.539704

Alignment:
----HGDHVHKGACCACCCGGBGBGDB
TGGAGCACTGTGACAVCACAGTGG---

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

Motif ID: UP00540
Motif name: Gli3_v015681_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: 18
Similarity score: 1.53819

Alignment:
------DVTTVVCVYGGHGGYCHHDMYB
TGGAGCACTGTGACAVCACAGTGG------

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

Motif ID: UP00122
Motif name: Tgif1
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: 17
Similarity score: 2.02534

Alignment:
-------DABWWTGACAGCTVVBD
TGGAGCACTGTGACAVCACAGTGG--

Original motif Reverse complement motif
Consensus sequence: DABWWTGACAGCTVVBD Consensus sequence: DBVVAGCTGTCAWWVTH

Motif ID: UP00159
Motif name: Six2
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: 17
Similarity score: 2.02571

Alignment:
AHWDGTGATACCCMRTD-------
--CCACTGTGVTGTCACAGTGCTCCA

Original motif Reverse complement motif
Consensus sequence: DAKRGGGTATCACDWHT Consensus sequence: AHWDGTGATACCCMRTD

Motif ID: UP00192
Motif name: Six1
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: 17
Similarity score: 2.02892

Alignment:
AVHDHTGATACCCMDHH-------
--CCACTGTGVTGTCACAGTGCTCCA

Original motif Reverse complement motif
Consensus sequence: DHDRGGGTATCAHDHBT Consensus sequence: AVHDHTGATACCCMDHH

Motif ID: UP00076
Motif name: Rfxdc2_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 17
Similarity score: 2.0292

Alignment:
HDDVSGTRTCMADGBVB-------
---CCACTGTGVTGTCACAGTGCTCCA

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

Dataset #: 2 Motif ID: 24 Motif name: ssCCCCGCSssk

Original motif Reverse complement motif
Consensus sequence: SBCCCCGCCSBB Consensus sequence: BBSGGCGGGGBS

Best Matches for Motif ID 24 (Highest to Lowest)

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: 4
Number of overlap: 12
Similarity score: 0.0114847

Alignment:
DHHBCCCCGCCAHHBHB
--SBCCCCGCCSBB---

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

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: 3
Number of overlap: 12
Similarity score: 0.0165262

Alignment:
HBDRCCMCGCCCHHHD
--SBCCCCGCCSBB--

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

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: 3
Number of overlap: 12
Similarity score: 0.0276137

Alignment:
HVBCCCCCCCCMHHHB
--SBCCCCGCCSBB--

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

Motif ID: UP00003
Motif name: E2F3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 12
Similarity score: 0.0328578

Alignment:
WHSGCGCGCCHTDHB
-SBCCCCGCCSBB--

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

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: 2
Number of overlap: 12
Similarity score: 0.0336734

Alignment:
BHHBHCCGCCCCDHHHH
-SBCCCCGCCSBB----

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

Motif ID: UP00001
Motif name: E2F2_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 12
Similarity score: 0.0345737

Alignment:
HHVGCGCGCCKTDHB
-SBCCCCGCCSBB--

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

Motif ID: UP00099
Motif name: Ascl2_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 12
Similarity score: 0.0347468

Alignment:
HVDVGGGHGGGGDBHB
--BBSGGCGGGGBS--

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

Motif ID: UP00043
Motif name: Bcl6b_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: 12
Similarity score: 0.0358124

Alignment:
BHHHWGGGGCGGBBVH
--BBSGGCGGGGBS--

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

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: 9
Number of overlap: 12
Similarity score: 0.0365354

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
--------SBCCCCGCCSBB---

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

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: 6
Number of overlap: 12
Similarity score: 0.0389727

Alignment:
HDWHMHGACGCGCGTRBVVBHW
-----BBSGGCGGGGBS-----

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

Dataset #: 2 Motif ID: 25 Motif name: wwCCAmAGTCmt

Original motif Reverse complement motif
Consensus sequence: DDCCAMAGTCHB Consensus sequence: VDGACTRTGGDD

Best Matches for Motif ID 25 (Highest to Lowest)

Motif ID: UP00079
Motif name: Esrra_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 12
Similarity score: 0.00927341

Alignment:
DHDBCAAGGTCAHVBDH
-DDCCAMAGTCHB----

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

Motif ID: UP00066
Motif name: Hnf4a_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 12
Similarity score: 0.0157554

Alignment:
BBHHAAAGTCCAMTHH
DDCCAMAGTCHB----

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

Motif ID: UP00023
Motif name: Sox30_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 12
Similarity score: 0.0218941

Alignment:
DHDBAACAATDRHHHH
--VDGACTRTGGDD--

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

Motif ID: UP00028
Motif name: Tcfap2e_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: 12
Similarity score: 0.023236

Alignment:
DTHGCCTSAGGCHHH
--DDCCAMAGTCHB-

Original motif Reverse complement motif
Consensus sequence: HHHGCCTSAGGCDAD Consensus sequence: DTHGCCTSAGGCHHH

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: 6
Number of overlap: 12
Similarity score: 0.0235871

Alignment:
HHBDHDDAACAATDRHHHHHBW
-----VDGACTRTGGDD-----

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

Motif ID: UP00095
Motif name: Zfp691_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: 12
Similarity score: 0.0240897

Alignment:
VHBDDAGGAGTCWBBTD
--DDCCAMAGTCHB---

Original motif Reverse complement motif
Consensus sequence: DABBWGACTCCTHDVHV Consensus sequence: VHBDDAGGAGTCWBBTD

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: 12
Similarity score: 0.025783

Alignment:
BKBASACAATRGHBB
--VDGACTRTGGDD-

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

Motif ID: UP00081
Motif name: Mybl1_primary
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: 12
Similarity score: 0.026472

Alignment:
HDDDHAACCGTTAHHHD
---VDGACTRTGGDD--

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

Motif ID: UP00052
Motif name: Osr2_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: 12
Similarity score: 0.027027

Alignment:
HHHHGCTACKGTHVHH
---DDCCAMAGTCHB-

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

Motif ID: UP00000
Motif name: Smad3_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: 0.0270662

Alignment:
HVHBVTGTCTGGDDHDD
--VDGACTRTGGDD---

Original motif Reverse complement motif
Consensus sequence: HDHDDCCAGACABBHVH Consensus sequence: HVHBVTGTCTGGDDHDD

Dataset #: 2 Motif ID: 26 Motif name: CAcCACAGTGGAGCAct

Original motif Reverse complement motif
Consensus sequence: CAHCACAGTGGAGCACT Consensus sequence: AGTGCTCCACTGTGDTG

Best Matches for Motif ID 26 (Highest to Lowest)

Motif ID: UP00539
Motif name: Gli2_v015681_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 17
Similarity score: 0.0381337

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
-CAHCACAGTGGAGCACT----

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

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: 1
Number of overlap: 17
Similarity score: 0.0393208

Alignment:
BBBAVTGCAGTGBBVDD
AGTGCTCCACTGTGDTG

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: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 17
Similarity score: 0.0441166

Alignment:
HHBDHDDAACAATDRHHHHHBW
----CAHCACAGTGGAGCACT-

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

Motif ID: UP00538
Motif name: Gli1_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: 17
Similarity score: 0.0477617

Alignment:
HGDHVHKGACCACCCGGBGBGDB
---AGTGCTCCACTGTGDTG---

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

Motif ID: UP00231
Motif name: Nkx2-2
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: 17
Similarity score: 0.0479423

Alignment:
HDVRCCACTTGARADBD
CAHCACAGTGGAGCACT

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

Motif ID: UP00528
Motif name: Foxm1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 6
Number of overlap: 17
Similarity score: 0.0484681

Alignment:
VHVRCAYGATGCATCDTVVADTH
-CAHCACAGTGGAGCACT-----

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

Motif ID: UP00540
Motif name: Gli3_v016060_secondary
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: 17
Similarity score: 0.0487437

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
AGTGCTCCACTGTGDTG------

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

Motif ID: UP00046
Motif name: Tcfe2a_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: 17
Similarity score: 0.048891

Alignment:
DHDBHGCACCTGBDDVB
AGTGCTCCACTGTGDTG

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

Motif ID: UP00540
Motif name: Gli3_v016060_primary
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: 17
Similarity score: 0.0491352

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
-CAHCACAGTGGAGCACT----

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

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: Forward
Position number: 4
Number of overlap: 17
Similarity score: 0.0515016

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
---CAHCACAGTGGAGCACT--

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

Dataset #: 2 Motif ID: 27 Motif name: AgTGCTCCACTGTGgTGTCACAgT

Original motif Reverse complement motif
Consensus sequence: AGTGCTCCACTGTGGTGTCACAGT Consensus sequence: ACTGTGACACCACAGTGGAGCACT

Best Matches for Motif ID 27 (Highest to Lowest)

Motif ID: UP00538
Motif name: Gli1_v015681_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: 23
Similarity score: 0.0509731

Alignment:
BBBDVVRGACCACCCAVGABBAB-
ACTGTGACACCACAGTGGAGCACT

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

Motif ID: UP00539
Motif name: Gli2_v016060_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: 21
Similarity score: 1.0488

Alignment:
DTVBDDRGACCACCCAGDWDGBH---
---AGTGCTCCACTGTGGTGTCACAGT

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

Motif ID: UP00538
Motif name: Gli1_v016060_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: 21
Similarity score: 1.05087

Alignment:
HGDHVHKGACCACCCGGBGBGDB---
--ACTGTGACACCACAGTGGAGCACT

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

Motif ID: UP00539
Motif name: Gli2_v015681_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 18
Similarity score: 2.54748

Alignment:
CBDMCMGGGTGGTCCHVBVBAH------
------ACTGTGACACCACAGTGGAGCACT

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

Motif ID: UP00045
Motif name: Mafb_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: 17
Similarity score: 3.0367

Alignment:
-------HAAWDTGCTGACDWARH
AGTGCTCCACTGTGGTGTCACAGT

Original motif Reverse complement motif
Consensus sequence: HAAWDTGCTGACDWARH Consensus sequence: DMTWDGTCAGCADWTTH

Motif ID: UP00055
Motif name: Hbp1_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: 17
Similarity score: 3.04028

Alignment:
-------DDDYCCCATTGTVHABH
AGTGCTCCACTGTGGTGTCACAGT------

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

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: Backward
Position number: 8
Number of overlap: 17
Similarity score: 3.04347

Alignment:
-------DDBBBCACTGCABTBBB
AGTGCTCCACTGTGGTGTCACAGT-------

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

Motif ID: UP00067
Motif name: Lef1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 17
Similarity score: 3.04662

Alignment:
VDDAGATCAAAGGKDDD-------
---ACTGTGACACCACAGTGGAGCACT

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

Motif ID: UP00070
Motif name: Gcm1_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: 17
Similarity score: 3.04663

Alignment:
DDBVHATAGGGGRBRMB-------
-AGTGCTCCACTGTGGTGTCACAGT

Original motif Reverse complement motif
Consensus sequence: DDBVHATAGGGGRBRMB Consensus sequence: BYMBKCCCCTATDVBHD

Motif ID: UP00148
Motif name: Hdx
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 17
Similarity score: 3.04907

Alignment:
-------BDBDHTGATTTCDHYDD
ACTGTGACACCACAGTGGAGCACT-------

Original motif Reverse complement motif
Consensus sequence: DDKDHGAAATCAHHBHV Consensus sequence: BDBDHTGATTTCDHYDD

Dataset #: 2 Motif ID: 28 Motif name: ssGCkTGCssk

Original motif Reverse complement motif
Consensus sequence: SSGCKTGCSSK Consensus sequence: YSSGCAYGCSS

Best Matches for Motif ID 28 (Highest to Lowest)

Motif ID: UP00003
Motif name: E2F3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.00463328

Alignment:
VHDADGGCGCGCSHW
----SSGCKTGCSSK

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

Motif ID: UP00094
Motif name: Zfp128_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: 0.00482124

Alignment:
BHHDKGGCGTACCCBHD
----SSGCKTGCSSK--

Original motif Reverse complement motif
Consensus sequence: BHHDKGGCGTACCCBHD Consensus sequence: DHVGGGTACGCCRDHDV

Motif ID: UP00035
Motif name: Hic1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.00562779

Alignment:
VHHDWTGGGCAMDHBH
-----YSSGCAYGCSS

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

Motif ID: UP00065
Motif name: Zfp161_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 11
Similarity score: 0.00595984

Alignment:
DDGCGCGCGCRCHYRD
--SSGCKTGCSSK---

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: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 11
Similarity score: 0.00821725

Alignment:
HHVGCGCGCCKTDHB
-SSGCKTGCSSK---

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

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: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.0109259

Alignment:
HDGTCGCGTGDCVB
---SSGCKTGCSSK

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

Motif ID: UP00527
Motif name: Foxn4_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: 11
Similarity score: 0.0150199

Alignment:
VDWDARRGACGCGGWHGGAKHV
---YSSGCAYGCSS--------

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

Motif ID: UP00002
Motif name: Sp4_secondary
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: 11
Similarity score: 0.0160778

Alignment:
HHDGBCACGCCTWDB
-YSSGCAYGCSS---

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

Motif ID: UP00526
Motif name: Foxn1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 11
Similarity score: 0.0171602

Alignment:
HDWHMHGACGCGCGTRBVVBHW
---------SSGCKTGCSSK--

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

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: 6
Number of overlap: 11
Similarity score: 0.0172713

Alignment:
DCATDBTGHGCATKMTTBRSWR
------YSSGCAYGCSS-----

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

Dataset #: 2 Motif ID: 29 Motif name: cCGCGGrCACG

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

Best Matches for Motif ID 29 (Highest to Lowest)

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

Alignment:
DDGCGCGCGCRCHYRD
----CCGCGGRCACG-

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

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

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

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

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

Alignment:
DVMVGCACACACKCVH
--CCGCGGRCACG---

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

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

Alignment:
VHTGCGGGGGCGGH
-CCGCGGRCACG--

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

Motif ID: UP00050
Motif name: Bhlhb2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 9
Number of overlap: 11
Similarity score: 0.0335378

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

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

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

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

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

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

Alignment:
GYCGCGCARBGCVB
-CCGCGGRCACG--

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

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

Alignment:
DBDHCGTGTGCAAMDH
---CCGCGGRCACG--

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

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

Alignment:
HDDVSGTRTCMADGBVB
----CGTGKCCGCGG--

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

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

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

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

Dataset #: 2 Motif ID: 30 Motif name: taaacgatgcc

Original motif Reverse complement motif
Consensus sequence: TAAACGATGCC Consensus sequence: GGCATCGTTTA

Best Matches for Motif ID 30 (Highest to Lowest)

Motif ID: UP00114
Motif name: Homez
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: 0.0207645

Alignment:
HDTVAAAACGATRWWHT
----TAAACGATGCC--

Original motif Reverse complement motif
Consensus sequence: AHWWMATCGTTTTBADD Consensus sequence: HDTVAAAACGATRWWHT

Motif ID: UP00061
Motif name: Foxl1_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: 11
Similarity score: 0.0294316

Alignment:
VVVWTTGTTTAMATTWD
GGCATCGTTTA------

Original motif Reverse complement motif
Consensus sequence: DWAATRTAAACAAWVVB Consensus sequence: VVVWTTGTTTAMATTWD

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: 1
Number of overlap: 11
Similarity score: 0.030091

Alignment:
HDHADGTAAACAAAVVH
------TAAACGATGCC

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

Motif ID: UP00025
Motif name: Foxk1_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: 11
Similarity score: 0.0306614

Alignment:
BBVTTTGTTTACATTDD
GGCATCGTTTA------

Original motif Reverse complement motif
Consensus sequence: DDAATGTAAACAAAVVB Consensus sequence: BBVTTTGTTTACATTDD

Motif ID: UP00527
Motif name: Foxn4_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 10
Number of overlap: 11
Similarity score: 0.0342477

Alignment:
DBBVDDDRTRGCGTCBBYTHGA
---------GGCATCGTTTA--

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

Motif ID: UP00040
Motif name: Irf5_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: 11
Similarity score: 0.0345017

Alignment:
BDKGTTTCGKTWDDD
--GGCATCGTTTA--

Original motif Reverse complement motif
Consensus sequence: DDDWAYCGAAACYDV Consensus sequence: BDKGTTTCGKTWDDD

Motif ID: UP00528
Motif name: Foxm1_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: 0.0351616

Alignment:
VHVRCAYGATGCATCDTVVADTH
--TAAACGATGCC----------

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

Motif ID: UP00232
Motif name: Dobox4
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: 0.0371486

Alignment:
DAWKGGGTATCTAWHWH
-----GGCATCGTTTA-

Original motif Reverse complement motif
Consensus sequence: HWHWTAGATACCCYWTD Consensus sequence: DAWKGGGTATCTAWHWH

Motif ID: UP00073
Motif name: Foxa2_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: 11
Similarity score: 0.0384798

Alignment:
BDVTTTKTTTACWTWHH
GGCATCGTTTA------

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

Motif ID: UP00011
Motif name: Irf6_primary
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: 11
Similarity score: 0.0388532

Alignment:
DHDBTKGTTTCGHTHDD
-----GGCATCGTTTA-

Original motif Reverse complement motif
Consensus sequence: HDDAHCGAAACYAVDDD Consensus sequence: DHDBTKGTTTCGHTHDD

Dataset #: 2 Motif ID: 31 Motif name: ctatacggacg

Original motif Reverse complement motif
Consensus sequence: CTATACGGACG Consensus sequence: CGTCCGTATAG

Best Matches for Motif ID 31 (Highest to Lowest)

Motif ID: UP00038
Motif name: Spdef_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: 0.027939

Alignment:
VVHHATCCGGATGKHV
--CTATACGGACG---

Original motif Reverse complement motif
Consensus sequence: VHRCATCCGGATHHBB Consensus sequence: VVHHATCCGGATGKHV

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: Forward
Position number: 1
Number of overlap: 11
Similarity score: 0.0308121

Alignment:
VDWDARRGACGCGGWHGGAKHV
CTATACGGACG-----------

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

Motif ID: UP00413
Motif name: Elf4
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: 0.0328673

Alignment:
HAWYCCGGAAGTHBBD
CTATACGGACG-----

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

Motif ID: UP00418
Motif name: Etv6
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 11
Similarity score: 0.0334005

Alignment:
BHAHCCGGAAGTABDVD
------CGTCCGTATAG

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

Motif ID: UP00409
Motif name: Elf5
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: 0.0336391

Alignment:
BWAHSMGGAAGTWD
CTATACGGACG---

Original motif Reverse complement motif
Consensus sequence: BWAHSMGGAAGTWD Consensus sequence: DWACTTCCRSDTWV

Motif ID: UP00097
Motif name: Mtf1_primary
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: 0.0346533

Alignment:
DBDHCGTGTGCAAMDH
----CGTCCGTATAG-

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

Motif ID: UP00135
Motif name: Hoxc12
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: 0.0360998

Alignment:
DDVHWTTTACGACCKHH
----CTATACGGACG--

Original motif Reverse complement motif
Consensus sequence: HHRGGTCGTAAAWHBDH Consensus sequence: DDVHWTTTACGACCKHH

Motif ID: UP00084
Motif name: Gmeb1_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: 11
Similarity score: 0.0365466

Alignment:
BVVDVRYACGTRYVBHB
----CGTCCGTATAG--

Original motif Reverse complement motif
Consensus sequence: BHBBKKACGTMMVDBVB Consensus sequence: BVVDVRYACGTRYVBHB

Motif ID: UP00015
Motif name: Ehf_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: 11
Similarity score: 0.0367131

Alignment:
VBDABCCGGAAGTDD
-CTATACGGACG---

Original motif Reverse complement motif
Consensus sequence: VBDABCCGGAAGTDD Consensus sequence: DDACTTCCGGBTHBB

Motif ID: UP00421
Motif name: Etv1
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: 0.0373

Alignment:
HBDBACTTCCGGTBHVY
-----CGTCCGTATAG-

Original motif Reverse complement motif
Consensus sequence: MVHBACCGGAAGTVDVH Consensus sequence: HBDBACTTCCGGTBHVY

Dataset #: 2 Motif ID: 32 Motif name: gCGCGCsCgsG

Original motif Reverse complement motif
Consensus sequence: GCGCGCSCGCG Consensus sequence: CGCGSGCGCGC

Best Matches for Motif ID 32 (Highest to Lowest)

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: 2
Number of overlap: 11
Similarity score: 0

Alignment:
DDGCGCGCGCRCHYRD
-CGCGSGCGCGC----

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

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: 5
Number of overlap: 11
Similarity score: 0.0102009

Alignment:
WHSGCGCGCCHTDHB
CGCGSGCGCGC----

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: Forward
Position number: 1
Number of overlap: 11
Similarity score: 0.0124455

Alignment:
HHVGCGCGCCKTDHB
CGCGSGCGCGC----

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

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: 8
Number of overlap: 11
Similarity score: 0.0192204

Alignment:
WHVBVVMACGCGCGTCDYHWDH
----CGCGSGCGCGC-------

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

Motif ID: UP00526
Motif name: Foxn1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 11
Similarity score: 0.0231982

Alignment:
DDRMHBACGCGYGCGTDGBBDB
-------CGCGSGCGCGC----

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

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: 11
Similarity score: 0.0289369

Alignment:
HCCGCCCCCGCAHB
-GCGCGCSCGCG--

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

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: 7
Number of overlap: 11
Similarity score: 0.0297254

Alignment:
BADHBDHCGCCCMCGCAHHDBBV
------GCGCGCSCGCG------

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

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: 2
Number of overlap: 11
Similarity score: 0.0316913

Alignment:
BHDGGGGSSCCCCBVV
-CGCGSGCGCGC----

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

Motif ID: UP00002
Motif name: Sp4_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: 11
Similarity score: 0.0323627

Alignment:
BVVHAGGGGGCGRDHHB
----CGCGSGCGCGC--

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

Motif ID: UP00527
Motif name: Foxn4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 11
Similarity score: 0.039112

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
-----CGCGSGCGCGC------

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

Dataset #: 2 Motif ID: 33 Motif name: srACyCCGAyr

Original motif Reverse complement motif
Consensus sequence: SRACYCCGAYR Consensus sequence: KKTCGGKGTKS

Best Matches for Motif ID 33 (Highest to Lowest)

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: 3
Number of overlap: 11
Similarity score: 0.0129914

Alignment:
HKBBGGGGGGTCVHHH
--KKTCGGKGTKS---

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

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: Forward
Position number: 7
Number of overlap: 11
Similarity score: 0.013032

Alignment:
VDWDARRGACGCGGWHGGAKHV
------SRACYCCGAYR-----

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

Motif ID: UP00070
Motif name: Gcm1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 11
Similarity score: 0.0132459

Alignment:
BYMBKCCCCTATDVBHD
--SRACYCCGAYR----

Original motif Reverse complement motif
Consensus sequence: DDBVHATAGGGGRBRMB Consensus sequence: BYMBKCCCCTATDVBHD

Motif ID: UP00070
Motif name: Gcm1_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: 11
Similarity score: 0.0135374

Alignment:
HVVHACCCGCATVDHD
--SRACYCCGAYR---

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

Motif ID: UP00021
Motif name: Zfp281_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: 11
Similarity score: 0.0136908

Alignment:
DKKWDACCCCCAHTDDV
---SRACYCCGAYR---

Original motif Reverse complement motif
Consensus sequence: DKKWDACCCCCAHTDDV Consensus sequence: VDDAHTGGGGGTHWYYD

Motif ID: UP00047
Motif name: Zbtb7b_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: 11
Similarity score: 0.0146089

Alignment:
VHWTTHGGGGGGVDD
--KKTCGGKGTKS--

Original motif Reverse complement motif
Consensus sequence: DDVCCCCCCHAAWHB Consensus sequence: VHWTTHGGGGGGVDD

Motif ID: UP00040
Motif name: Irf5_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: 11
Similarity score: 0.0148195

Alignment:
BDKGTTTCGKTWDDD
----KKTCGGKGTKS

Original motif Reverse complement motif
Consensus sequence: DDDWAYCGAAACYDV Consensus sequence: BDKGTTTCGKTWDDD

Motif ID: UP00540
Motif name: Gli3_v015681_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 9
Number of overlap: 11
Similarity score: 0.014859

Alignment:
ABBBBVVRGACCACCCACRDBBM
--------SRACYCCGAYR----

Original motif Reverse complement motif
Consensus sequence: ABBBBVVRGACCACCCACRDBBM Consensus sequence: YBVDMGTGGGTGGTCKVVBVBBT

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: 5
Number of overlap: 11
Similarity score: 0.0153296

Alignment:
GKRGGGGGGGGGGBD
KKTCGGKGTKS----

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

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: Backward
Position number: 10
Number of overlap: 11
Similarity score: 0.0155548

Alignment:
DBCDWHCTGGGTGGTCMDHBBAH
---KKTCGGKGTKS---------

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

Results created by MOTIFSIM on 11-20-2016 21:11:03
Runtime: 725.149 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
Motif logo generated by weblogo