MOTIFSIM - MOTIF SIMilarity Detection Tool

Version 2.1

INPUT

Input Parameters
Number of files: 4
Number of top significant motifs: 10
Number of best matches: 5
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
DREME_DM254.txt 45 1
MEME-CHIP_DM254.txt 24 2
PScanChIP_DM254.txt 63 3
RSAT_peak-motifs_DM254.txt 39 4

RESULTS

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

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

Original motif Reverse complement motif
Consensus sequence: AGRKGGCR Consensus sequence: KGCCYKCT

Best Matches for Motif ID 1 (Highest to Lowest)

Motif ID: UP00002
Motif name: Sp4_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: 8
Similarity score: 0

Alignment:
BVVHAGGGGGCGRDHHB
----AGRKGGCR-----

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


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: 5
Number of overlap: 8
Similarity score: 0.0152094

Alignment:
VKBBAGGGGTCAHDBBH
----AGRKGGCR-----

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


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: Backward
Position number: 3
Number of overlap: 8
Similarity score: 0.0160089

Alignment:
VHTGCGGGGGCGGH
----AGRKGGCR--

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


Motif ID: UP00010
Motif name: Tcfap2b_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: 8
Similarity score: 0.0244919

Alignment:
HTGCCMTVKGGCMD
-KGCCYKCT-----

Original motif Reverse complement motif
Consensus sequence: DYGCCYBARGGCAH Consensus sequence: HTGCCMTVKGGCMD


Motif ID: UP00070
Motif name: Gcm1_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: 8
Similarity score: 0.0267457

Alignment:
DDBVHATAGGGGRBRMB
-------AGRKGGCR--

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


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

Original motif Reverse complement motif
Consensus sequence: CCCCDCCC Consensus sequence: GGGDGGGG

Best Matches for Motif ID 5 (Highest to Lowest)

Motif ID: UP00093
Motif name: Klf7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0

Alignment:
HBDRCCMCGCCCHHHD
----CCCCDCCC----

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


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: 3
Number of overlap: 8
Similarity score: 0.0165797

Alignment:
GKRGGGGGGGGGGBD
-----GGGDGGGG--

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


Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.026633

Alignment:
BHHDYGGGGGGGGBVD
-----GGGDGGGG---

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


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: 8
Number of overlap: 8
Similarity score: 0.0273225

Alignment:
MHHHWHYTMCCHCCCACVAABVH
-------CCCCDCCC--------

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


Motif ID: UP00007
Motif name: Egr1_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: 8
Similarity score: 0.0364166

Alignment:
VHTGCGGGGGCGGH
-----GGGDGGGG-

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


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

Original motif Reverse complement motif
Consensus sequence: AAATAH Consensus sequence: DTATTT

Best Matches for Motif ID 8 (Highest to Lowest)

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: 5
Number of overlap: 6
Similarity score: 0

Alignment:
HHWAWGTAAAYAAAVDB
-------AAATAH----

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


Motif ID: UP00166
Motif name: Barhl1
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: 6
Similarity score: 0.00310877

Alignment:
DDVKTAATTGGTTDTH
---DTATTT-------

Original motif Reverse complement motif
Consensus sequence: HAHAACCAATTARBDH Consensus sequence: DDVKTAATTGGTTDTH


Motif ID: UP00242
Motif name: Hoxc8
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: 0.00420475

Alignment:
BHDDDGTAATTAHHDT
-------AAATAH---

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


Motif ID: UP00179
Motif name: Pou2f3
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: 6
Similarity score: 0.00508605

Alignment:
BHDTATGCAAATBHDV
--------AAATAH--

Original motif Reverse complement motif
Consensus sequence: BHDTATGCAAATBHDV Consensus sequence: BHHVATTTGCATAHHV


Motif ID: UP00202
Motif name: Dlx1
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: 6
Similarity score: 0.00517242

Alignment:
BHGVRDTAATTADY
-----DTATTT---

Original motif Reverse complement motif
Consensus sequence: BHGVRDTAATTADY Consensus sequence: MDTAATTAHMBCHB


Dataset #: 1 Motif ID: 20 Motif name: Motif 20

Original motif Reverse complement motif
Consensus sequence: CACGTR Consensus sequence: MACGTG

Best Matches for Motif ID 20 (Highest to Lowest)

Motif ID: UP00050
Motif name: Bhlhb2_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 9
Number of overlap: 6
Similarity score: 0

Alignment:
DDHBHBSTCACGTGAHBBDHHM
--------CACGTR--------

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


Motif ID: UP00060
Motif name: Max_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 6
Similarity score: 0.00504882

Alignment:
DDASCACGTGBTBVDD
----MACGTG------

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: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 9
Number of overlap: 6
Similarity score: 0.0050835

Alignment:
ACHRBHDTCCACGTGYAHHBMHM
---------CACGTR--------

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


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: Forward
Position number: 6
Number of overlap: 6
Similarity score: 0.0336216

Alignment:
VBHHVCAGGTGCDVDHD
-----MACGTG------

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


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: 0.0339468

Alignment:
HDADCCACTTRAAWTT
-----CACGTR-----

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


Dataset #: 2 Motif ID: 46 Motif name: Motif 46

Original motif Reverse complement motif
Consensus sequence: AGRKGGCR Consensus sequence: KGCCYKCT

Best Matches for Motif ID 46 (Highest to Lowest)

Motif ID: UP00002
Motif name: Sp4_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: 8
Similarity score: 0

Alignment:
BVVHAGGGGGCGRDHHB
----AGRKGGCR-----

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


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: 5
Number of overlap: 8
Similarity score: 0.0154192

Alignment:
VKBBAGGGGTCAHDBBH
----AGRKGGCR-----

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


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: Backward
Position number: 3
Number of overlap: 8
Similarity score: 0.0160089

Alignment:
VHTGCGGGGGCGGH
----AGRKGGCR--

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


Motif ID: UP00010
Motif name: Tcfap2b_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: 8
Similarity score: 0.0241611

Alignment:
HTGCCMTVKGGCMD
-KGCCYKCT-----

Original motif Reverse complement motif
Consensus sequence: DYGCCYBARGGCAH Consensus sequence: HTGCCMTVKGGCMD


Motif ID: UP00070
Motif name: Gcm1_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: 8
Similarity score: 0.0267457

Alignment:
DDBVHATAGGGGRBRMB
-------AGRKGGCR--

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


Dataset #: 2 Motif ID: 48 Motif name: Motif 48

Original motif Reverse complement motif
Consensus sequence: CCACYAGR Consensus sequence: MCTKGTGG

Best Matches for Motif ID 48 (Highest to Lowest)

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: 10
Number of overlap: 8
Similarity score: 0

Alignment:
HGDHVHKGACCACCCGGBGBGDB
---------CCACYAGR------

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: Backward
Position number: 11
Number of overlap: 8
Similarity score: 0.000875703

Alignment:
CBDMCMGGGTGGTCCHVBVBAH
----MCTKGTGG----------

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


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: Forward
Position number: 8
Number of overlap: 8
Similarity score: 0.00261558

Alignment:
BDDRVGACCACCHBDVB
-------CCACYAGR--

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


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: 5
Number of overlap: 8
Similarity score: 0.00296024

Alignment:
CVHBSCGGGTGGTCMHVHHCDH
----MCTKGTGG----------

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


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: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0161251

Alignment:
VBHHVCAGGTGCDVDHD
----MCTKGTGG-----

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


Dataset #: 2 Motif ID: 65 Motif name: Motif 65

Original motif Reverse complement motif
Consensus sequence: ARAACA Consensus sequence: TGTTMT

Best Matches for Motif ID 65 (Highest to Lowest)

Motif ID: UP00101
Motif name: Sox12_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 6
Similarity score: 0

Alignment:
DWTHAVAACAATHA
----ARAACA----

Original motif Reverse complement motif
Consensus sequence: THATTGTTVTHAWH Consensus sequence: DWTHAVAACAATHA


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: 4
Number of overlap: 6
Similarity score: 0.000395587

Alignment:
HBDDRAACAAAGRABHH
---ARAACA--------

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: Forward
Position number: 9
Number of overlap: 6
Similarity score: 0.00357565

Alignment:
HHBBMCTTTGTTHDDBH
--------TGTTMT---

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


Motif ID: UP00034
Motif name: Sox7_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 6
Similarity score: 0.00753019

Alignment:
HHBDHDDAACAATDRHHHHHBW
-----ARAACA-----------

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


Motif ID: UP00039
Motif name: Foxj3_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: 0.0083324

Alignment:
DVHWDTGTTWTGDTBDH
-----TGTTMT------

Original motif Reverse complement motif
Consensus sequence: HDBAHCAWAACADWDVD Consensus sequence: DVHWDTGTTWTGDTBDH


Dataset #: 3 Motif ID: 72 Motif name: ArntAhr

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

Best Matches for Motif ID 72 (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


Dataset #: 3 Motif ID: 101 Motif name: NFIC

Original motif Reverse complement motif
Consensus sequence: TTGGCD Consensus sequence: DGCCAA

Best Matches for Motif ID 101 (Highest to Lowest)

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: Backward
Position number: 7
Number of overlap: 6
Similarity score: 0

Alignment:
DBBATGCCAACCHVHH
----DGCCAA------

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


Motif ID: UP00538
Motif name: Gli1_v016060_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 12
Number of overlap: 6
Similarity score: 0.0174701

Alignment:
BDDHVDKGCCACCCVCGCTDBVH
------DGCCAA-----------

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


Motif ID: UP00003
Motif name: E2F3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 6
Similarity score: 0.0231918

Alignment:
BBBDYTGGCGCCKWDBD
----TTGGCD-------

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


Motif ID: UP00001
Motif name: E2F2_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 6
Similarity score: 0.0258343

Alignment:
BBBDTTGGCGCCKWVVD
----TTGGCD-------

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


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: 2
Number of overlap: 6
Similarity score: 0.0266372

Alignment:
HDGTCGCGTGDCVB
-------TTGGCD-

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


Dataset #: 3 Motif ID: 127 Motif name: YY1

Original motif Reverse complement motif
Consensus sequence: RCCATB Consensus sequence: BATGGM

Best Matches for Motif ID 127 (Highest to Lowest)

Motif ID: UP00033
Motif name: Zfp410_primary
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: 6
Similarity score: 0

Alignment:
DVDDATGGGATGKMDDV
--------BATGGM---

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


Motif ID: UP00046
Motif name: Tcfe2a_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: 6
Similarity score: 0.00378844

Alignment:
HVDDVCAGATGKYHBBV
-------BATGGM----

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


Motif ID: UP00207
Motif name: Hoxb9
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: 6
Similarity score: 0.0208704

Alignment:
VRRGCMATAAAAHHHD
---RCCATB-------

Original motif Reverse complement motif
Consensus sequence: VRRGCMATAAAAHHHD Consensus sequence: HDHHTTTTATRGCKMV


Motif ID: UP00077
Motif name: Srf_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: 6
Similarity score: 0.023319

Alignment:
HHCCWTATAWGGHA
-------BATGGM-

Original motif Reverse complement motif
Consensus sequence: HHCCWTATAWGGHA Consensus sequence: THCCWTATAWGGHH


Motif ID: UP00213
Motif name: Hoxa9
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: 6
Similarity score: 0.0242984

Alignment:
DCGGYCATWAAAWTADW
---RCCATB--------

Original motif Reverse complement motif
Consensus sequence: DCGGYCATWAAAWTADW Consensus sequence: WDTAWTTTWATGKCCGD


Results created by MOTIFSIM on 11-19-2016 22:45:25
Runtime: 1028.98 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
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