MOTIFSIM - MOTIF SIMilarity Detection Tool

Version 2.2

INPUT

Input Parameters
Number of files: 4
Number of top significant motifs: 10
Number of best matches: 10
Similarity cutoff >= 0.75
Matching motif database: UniProbe Mus Musculus
Motif tree: Yes
Combined similar motifs: Yes
Output file type: All
Output file format: All

Input files and motif counts
File name Count of motifs Dataset number
DREME_DM721.txt 16 1
MEME-ChIP_DM721.txt 11 2
PScanChIP_DM721.txt 37 3
RSAT_peak-motifs_DM721.txt 40 4

RESULTS

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

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

Original motif Reverse complement motif
Consensus sequence: CACACACA Consensus sequence: TGTGTGTG

Best Matches for Motif ID 2 (Highest to Lowest)

Motif ID: UP00042
Motif name: Gm397_second
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: 8
Similarity score: 0

Alignment:
HBGYGTGTGTGCVRVD
---TGTGTGTG-----

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


Motif ID: UP00026
Motif name: Zscan4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0178637

Alignment:
BHHHTTGTGTGCKHVD
-----TGTGTGTG---

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


Motif ID: UP00004
Motif name: Sox14_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 8
Similarity score: 0.0291592

Alignment:
BKBASACAATRGHBB
CACACACA-------

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


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: 9
Number of overlap: 8
Similarity score: 0.0316665

Alignment:
HHRTATGTGCACATHHD
-TGTGTGTG--------

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


Motif ID: UP00026
Motif name: Zscan4_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: 8
Similarity score: 0.0327662

Alignment:
DHVDTGTGCACAYAHDH
--------CACACACA-

Original motif Reverse complement motif
Consensus sequence: DHVDTGTGCACAYAHDH Consensus sequence: HDHTMTGTGCACADVHD


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: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.0329902

Alignment:
HVHBVTGTCTGGDDHDD
-----TGTGTGTG----

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


Motif ID: UP00041
Motif name: Foxj1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 8
Similarity score: 0.0361089

Alignment:
HDHRTAAACAAAHDDD
--CACACACA------

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


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: 6
Number of overlap: 8
Similarity score: 0.039766

Alignment:
HDTMCTTTGTSTVDBB
-----TGTGTGTG---

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


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: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0414454

Alignment:
HDHADGTAAACAAAVVH
----CACACACA-----

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


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: Backward
Position number: 6
Number of overlap: 8
Similarity score: 0.0420768

Alignment:
HVVHACCCGCATVDHD
---CACACACA-----

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


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

Original motif Reverse complement motif
Consensus sequence: CYBCCTCC Consensus sequence: GGAGGVMG

Best Matches for Motif ID 4 (Highest to Lowest)

Motif ID: UP00021
Motif name: Zfp281_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: 0.0047591

Alignment:
DBCCCCCCCCCCMYC
----CYBCCTCC---

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


Motif ID: UP00538
Motif name: Gli1_v015681_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 7
Number of overlap: 8
Similarity score: 0.0211234

Alignment:
MHHHWHYTMCCHCCCACVAABVH
------CYBCCTCC---------

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


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: 10
Number of overlap: 8
Similarity score: 0.0214303

Alignment:
DVTTVVCVYGGHGGYCHHDMYB
---------GGAGGVMG-----

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


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: Forward
Position number: 2
Number of overlap: 8
Similarity score: 0.0215351

Alignment:
HCCGCCCCCGCAHB
-CYBCCTCC-----

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


Motif ID: UP00033
Motif name: Zfp410_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0262858

Alignment:
BDDYYCATCCCATDDBD
--CYBCCTCC-------

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


Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 8
Similarity score: 0.0273549

Alignment:
HVBCCCCCCCCMHHHB
---CYBCCTCC-----

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


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: 7
Number of overlap: 8
Similarity score: 0.0294721

Alignment:
VHWTTHGGGGGGVDD
------GGAGGVMG-

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


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: Backward
Position number: 3
Number of overlap: 8
Similarity score: 0.0296935

Alignment:
YDYBDHTMCACGTGGADDBMDGT
-------------GGAGGVMG--

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


Motif ID: UP00022
Motif name: Zfp740_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: 8
Similarity score: 0.0314233

Alignment:
HVKDCCGGGGGGWADDD
-------GGAGGVMG--

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


Motif ID: UP00002
Motif name: Sp4_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0324346

Alignment:
BDHHMCGCCCCCTHVBB
----CYBCCTCC-----

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


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

Original motif Reverse complement motif
Consensus sequence: ASASAGAA Consensus sequence: TTCTSTST

Best Matches for Motif ID 7 (Highest to Lowest)

Motif ID: UP00032
Motif name: Gata3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0

Alignment:
BDHDDADAGATAAGADHBDHVD
-----ASASAGAA---------

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


Motif ID: UP00040
Motif name: Irf5_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: 8
Similarity score: 0.00562375

Alignment:
BHDAHCGAGARTHBV
---ASASAGAA----

Original motif Reverse complement motif
Consensus sequence: BHDAHCGAGARTHBV Consensus sequence: VBHAKTCTCGHTHHV


Motif ID: UP00101
Motif name: Sox12_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0120605

Alignment:
VVDBASACAAAGRADH
--ASASAGAA------

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


Motif ID: UP00018
Motif name: Irf4_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: 8
Similarity score: 0.017471

Alignment:
BHHWCCGAGAMTVVB
---ASASAGAA----

Original motif Reverse complement motif
Consensus sequence: VVBAYTCTCGGWHDB Consensus sequence: BHHWCCGAGAMTVVB


Motif ID: UP00090
Motif name: Elf3_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: 8
Similarity score: 0.018291

Alignment:
TDAMTTCCYYDTD
----TTCTSTST-

Original motif Reverse complement motif
Consensus sequence: DAHMMGGAARTDA Consensus sequence: TDAMTTCCYYDTD


Motif ID: UP00004
Motif name: Sox14_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 8
Similarity score: 0.0185351

Alignment:
BBDCMATTGTSTBRB
------TTCTSTST-

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


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: 4
Number of overlap: 8
Similarity score: 0.0187871

Alignment:
HBDDRAACAAAGRABHH
------ASASAGAA---

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: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.0188246

Alignment:
HBDDDAACAAAGRVBHH
------ASASAGAA---

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


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: 3
Number of overlap: 8
Similarity score: 0.0192614

Alignment:
BWAHSMGGAAGTWD
--ASASAGAA----

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


Motif ID: UP00100
Motif name: Gata6_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: 8
Similarity score: 0.0192685

Alignment:
VHDDTCTTATCWHBDHD
------TTCTSTST---

Original motif Reverse complement motif
Consensus sequence: DHDVDWGATAAGADDHV Consensus sequence: VHDDTCTTATCWHBDHD


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

Original motif Reverse complement motif
Consensus sequence: GAGRCAGR Consensus sequence: MCTGKCTC

Best Matches for Motif ID 13 (Highest to Lowest)

Motif ID: UP00205
Motif name: Pknox2
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: 8
Similarity score: 0

Alignment:
HAVSRSCTGTCAATHB
-----MCTGKCTC---

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


Motif ID: UP00203
Motif name: Pknox1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0024357

Alignment:
DRVSASCTGTCAAWVV
-----MCTGKCTC---

Original motif Reverse complement motif
Consensus sequence: DRVSASCTGTCAAWVV Consensus sequence: VVWTTGACAGSTSBKD


Motif ID: UP00226
Motif name: Mrg1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.00532831

Alignment:
WAVBASCTGTCAAWHB
-----MCTGKCTC---

Original motif Reverse complement motif
Consensus sequence: WAVBASCTGTCAAWHB Consensus sequence: BHWTTGACAGSTBBTW


Motif ID: UP00210
Motif name: Mrg2
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.00847279

Alignment:
DADBASCTGTCAAHVH
-----MCTGKCTC---

Original motif Reverse complement motif
Consensus sequence: DADBASCTGTCAAHVH Consensus sequence: DBHTTGACAGSTVDTD


Motif ID: UP00186
Motif name: Meis1
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.00869293

Alignment:
WAVBASCTGTCAAWVH
-----MCTGKCTC---

Original motif Reverse complement motif
Consensus sequence: WAVBASCTGTCAAWVH Consensus sequence: DBWTTGACAGSTBVTW


Motif ID: UP00000
Motif name: Smad3_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: 8
Similarity score: 0.00919674

Alignment:
HDHDDCCAGACABBHVH
------GAGRCAGR---

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


Motif ID: UP00103
Motif name: Jundm2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.00968214

Alignment:
HDDKTGASTCAKHRDB
-----GAGRCAGR---

Original motif Reverse complement motif
Consensus sequence: VDKDRTGASTCAYHDH Consensus sequence: HDDKTGASTCAKHRDB


Motif ID: UP00095
Motif name: Zfp691_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: 8
Similarity score: 0.0110909

Alignment:
DABBWGACTCCTHDVHV
--MCTGKCTC-------

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


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: 6
Number of overlap: 8
Similarity score: 0.0125857

Alignment:
DABWWTGACAGCTVVBD
----GAGRCAGR-----

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


Motif ID: UP00258
Motif name: Tgif2
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: 8
Similarity score: 0.0145433

Alignment:
AABBAGCTGTCAAWVV
-----MCTGKCTC---

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


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

Original motif Reverse complement motif
Consensus sequence: GCRCACRC Consensus sequence: GKGTGKGC

Best Matches for Motif ID 14 (Highest to Lowest)

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: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0

Alignment:
DVMVGCACACACKCVH
----GCRCACRC----

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


Motif ID: UP00097
Motif name: Mtf1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0261244

Alignment:
HDYTTGCACACGDHBH
-----GCRCACRC---

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


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: Forward
Position number: 9
Number of overlap: 8
Similarity score: 0.0329776

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
--------GKGTGKGC-------

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


Motif ID: UP00540
Motif name: Gli3_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 9
Number of overlap: 8
Similarity score: 0.0341116

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
------GKGTGKGC--------

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


Motif ID: UP00026
Motif name: Zscan4_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0351584

Alignment:
HVHRGCACACAAHHHV
----GCRCACRC----

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


Motif ID: UP00539
Motif name: Gli2_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 9
Number of overlap: 8
Similarity score: 0.0353979

Alignment:
DBCDWHCTGGGTGGTCMDHBBAH
--------GKGTGKGC-------

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: 8
Number of overlap: 8
Similarity score: 0.0359411

Alignment:
BTBVTCVTGGGTGGTCMVVDVBB
--------GKGTGKGC-------

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


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: 8
Similarity score: 0.0360788

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
------GKGTGKGC--------

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


Motif ID: UP00042
Motif name: Gm397_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 8
Similarity score: 0.0376684

Alignment:
HHDATGTGCACATAMDH
-------GCRCACRC--

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


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: Backward
Position number: 9
Number of overlap: 8
Similarity score: 0.0381663

Alignment:
YBVDMGTGGGTGGTCKVVBVBBT
-------GKGTGKGC--------

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


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

Original motif Reverse complement motif
Consensus sequence: AMACA Consensus sequence: TGTRT

Best Matches for Motif ID 18 (Highest to Lowest)

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: 7
Number of overlap: 5
Similarity score: 0

Alignment:
DVMVGCACACACKCVH
------AMACA-----

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


Motif ID: UP00025
Motif name: Foxk1_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: 5
Similarity score: 0.00605402

Alignment:
DDAATGTAAACAAAVVB
-------AMACA-----

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


Motif ID: UP00041
Motif name: Foxj1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0.00753267

Alignment:
HDHRTAAACAAAHDDD
-----AMACA------

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


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: Forward
Position number: 8
Number of overlap: 5
Similarity score: 0.00965634

Alignment:
HDHADGTAAACAAAVVH
-------AMACA-----

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


Motif ID: UP00061
Motif name: Foxl1_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: 5
Similarity score: 0.00989492

Alignment:
DWAATRTAAACAAWVVB
-------AMACA-----

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


Motif ID: UP00004
Motif name: Sox14_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 5
Similarity score: 0.0116453

Alignment:
BBDCMATTGTSTBRB
-------TGTRT---

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


Motif ID: UP00073
Motif name: Foxa2_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 5
Similarity score: 0.0143122

Alignment:
HHWAWGTAAAYAAAVDB
-------AMACA-----

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


Motif ID: UP00026
Motif name: Zscan4_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0.0153228

Alignment:
BHHHTTGTGTGCKHVD
-----TGTRT------

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


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: Backward
Position number: 8
Number of overlap: 5
Similarity score: 0.024195

Alignment:
DHDBTKGTTTCGHTHDD
-----TGTRT-------

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


Motif ID: UP00000
Motif name: Smad3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 5
Similarity score: 0.0255974

Alignment:
HDHDDCCAGACABBHVH
-------AMACA-----

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


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

Original motif Reverse complement motif
Consensus sequence: CTCTGY Consensus sequence: KCAGAG

Best Matches for Motif ID 20 (Highest to Lowest)

Motif ID: UP00031
Motif name: Zbtb3_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 6
Similarity score: 0

Alignment:
BBBAVTGCAGTGBBVDD
------KCAGAG-----

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


Motif ID: UP00018
Motif name: Irf4_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: 6
Similarity score: 0.00610915

Alignment:
BHHWCCGAGAMTVVB
---KCAGAG------

Original motif Reverse complement motif
Consensus sequence: VVBAYTCTCGGWHDB Consensus sequence: BHHWCCGAGAMTVVB


Motif ID: UP00095
Motif name: Zfp691_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: 6
Similarity score: 0.00648219

Alignment:
VHBDDAGGAGTCWBBTD
----KCAGAG-------

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


Motif ID: UP00006
Motif name: Zic3_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 6
Similarity score: 0.00853125

Alignment:
DDDCACAGCAKGHVD
--KCAGAG-------

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


Motif ID: UP00007
Motif name: Egr1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 6
Similarity score: 0.00895004

Alignment:
BHHDTCCCACTCBDBV
---------CTCTGY-

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


Motif ID: UP00095
Motif name: Zfp691_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: 0.00955889

Alignment:
DDHBYGAGCACTGBHHB
--------CTCTGY---

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


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: 6
Number of overlap: 6
Similarity score: 0.0106184

Alignment:
VDDAGATCAAAGGKDDD
------KCAGAG-----

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


Motif ID: UP00102
Motif name: Zic1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 6
Similarity score: 0.0122635

Alignment:
BHDCVCAGCAGGHVD
--KCAGAG-------

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


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: 6
Number of overlap: 6
Similarity score: 0.0131237

Alignment:
BDDASATCAAAGGMDDD
------KCAGAG-----

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


Motif ID: UP00057
Motif name: Zic2_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 6
Similarity score: 0.0136526

Alignment:
HHDCVCAGCAKGVVD
--KCAGAG-------

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


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

Original motif Reverse complement motif
Consensus sequence: ATKTM Consensus sequence: RARAT

Best Matches for Motif ID 21 (Highest to Lowest)

Motif ID: UP00080
Motif name: Gata5_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 9
Number of overlap: 5
Similarity score: 0

Alignment:
VVBHRAGATATCWDHBB
----RARAT--------

Original motif Reverse complement motif
Consensus sequence: VVBHRAGATATCWDHBB Consensus sequence: VVHHWGATATCTMHBBV


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: 5
Similarity score: 0.00279496

Alignment:
DDKDHGAAATCAHHBHV
-----RARAT-------

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


Motif ID: UP00032
Motif name: Gata3_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: 5
Similarity score: 0.00967655

Alignment:
BDHDDADAGATAAGADHBDHVD
------RARAT-----------

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


Motif ID: UP00250
Motif name: Irx5
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 5
Similarity score: 0.0116566

Alignment:
DDDHWACATGTWHDABW
-------ATKTM-----

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


Motif ID: UP00236
Motif name: Irx2
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: 5
Similarity score: 0.0120196

Alignment:
WDDDTACATGTADDWBW
-------ATKTM-----

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


Motif ID: UP00150
Motif name: Irx6
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 5
Similarity score: 0.0120601

Alignment:
HAHDTACATGTAVDWHT
-------ATKTM-----

Original motif Reverse complement motif
Consensus sequence: HAHDTACATGTAVDWHT Consensus sequence: AHWDBTACATGTADHTH


Motif ID: UP00223
Motif name: Irx3_2226.1
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 5
Similarity score: 0.0124884

Alignment:
DDDHTACATGTAVWDHD
-------ATKTM-----

Original motif Reverse complement motif
Consensus sequence: DDDHTACATGTAVWDHD Consensus sequence: DHDWBTACATGTAHDDD


Motif ID: UP00033
Motif name: Zfp410_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 10
Number of overlap: 5
Similarity score: 0.0150044

Alignment:
DVDDATGGGATGKMDDV
---------ATKTM---

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


Motif ID: UP00223
Motif name: Irx3_0920.1
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: 5
Similarity score: 0.0150192

Alignment:
DDDDTACATGTAVWWHD
-------ATKTM-----

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


Motif ID: UP00528
Motif name: Foxm1_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 12
Number of overlap: 5
Similarity score: 0.0166075

Alignment:
MWSMBAARRATGCDCABHATGD
------RARAT-----------

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


Dataset #: 3 Motif ID: 30 Motif name: ZEB1

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

Best Matches for Motif ID 30 (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: Forward
Position number: 12
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: Forward
Position number: 7
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: Backward
Position number: 6
Number of overlap: 6
Similarity score: 0.031502

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

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


Dataset #: 3 Motif ID: 42 Motif name: ArntAhr

Original motif Reverse complement motif
Consensus sequence: YGCGTG Consensus sequence: CACGCM

Best Matches for Motif ID 42 (Highest to Lowest)

Motif ID: UP00400
Motif name: Zif268
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 6
Similarity score: 0

Alignment:
VVVDHHTGCGYGGGCGDHVHHTB
------YGCGTG-----------

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


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: 6
Number of overlap: 6
Similarity score: 0.00183587

Alignment:
HHDGBCACGCCTWDB
-----CACGCM----

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


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: 5
Number of overlap: 6
Similarity score: 0.00348048

Alignment:
HDGTCGCGTGDCVB
----YGCGTG----

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


Motif ID: UP00527
Motif name: Foxn4_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 8
Number of overlap: 6
Similarity score: 0.00526158

Alignment:
TCDAMVBGACGCMAKDDDVBBD
-------CACGCM---------

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


Motif ID: UP00042
Motif name: Gm397_second
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: 6
Similarity score: 0.00558171

Alignment:
HBGYGTGTGTGCVRVD
---YGCGTG-------

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


Motif ID: UP00097
Motif name: Mtf1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 9
Number of overlap: 6
Similarity score: 0.00702416

Alignment:
HDYTTGCACACGDHBH
--------CACGCM--

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


Motif ID: UP00526
Motif name: Foxn1_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 6
Similarity score: 0.0123233

Alignment:
DDRMHBACGCGYGCGTDGBBDB
-------YGCGTG---------

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: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 6
Similarity score: 0.0141579

Alignment:
HCCGCCCCCGCAHB
------CACGCM--

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


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: 11
Number of overlap: 6
Similarity score: 0.0144485

Alignment:
BHCBCBCCGGGTGGTCYHVHDCH
-------YGCGTG----------

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


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: 6
Similarity score: 0.0172109

Alignment:
VHYTCCDWCCGCGTCMMTHWHV
---------YGCGTG-------

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


Results created by MOTIFSIM on 06-18-2018 15:30:26
Runtime: 835.059 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
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