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: 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: 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: 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: 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 #: 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: 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


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

MOTIFSIM is written by Ngoc Tam L. Tran
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