MOTIFSIM - MOTIF SIMilarity Detection Tool

Version 2.2

INPUT

Input Parameters
Number of files: 5
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_DM230.txt 1 1
MEME_DM230.txt 20 2
PScanChIP_DM230.txt 14 3
RSAT_peak-motifs_DM230.txt 10 4
PScanChIP_DM230.txt 14 5

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: GGCGGGGC Consensus sequence: GCCCCGCC

Best Matches for Motif ID 1 (Highest to Lowest)

Motif ID: UP00093
Motif name: Klf7_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: 8
Similarity score: 0

Alignment:
HBDRCCMCGCCCHHHD
---GCCCCGCC-----

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


Motif ID: UP00000
Motif name: Smad3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 8
Similarity score: 0.00617043

Alignment:
BHBHDTGGCGGGGBDHD
------GGCGGGGC---

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


Motif ID: UP00002
Motif name: Sp4_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: 0.0145996

Alignment:
BDWAGGCGTGBCHHD
----GGCGGGGC---

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


Motif ID: UP00002
Motif name: Sp4_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 8
Similarity score: 0.0233506

Alignment:
BDHHMCGCCCCCTHVBB
-GCCCCGCC--------

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


Motif ID: UP00024
Motif name: Glis2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.0291232

Alignment:
HHHVGACCCCCCVBRD
----GCCCCGCC----

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


Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 8
Similarity score: 0.0338469

Alignment:
BHHDYGGGGGGGGBVD
-----GGCGGGGC---

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


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: 4
Number of overlap: 8
Similarity score: 0.0361147

Alignment:
VHTGCGGGGGCGGH
---GGCGGGGC---

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


Motif ID: UP00539
Motif name: Gli2_v016060_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 8
Number of overlap: 8
Similarity score: 0.0374146

Alignment:
DTVBDDRGACCACCCAGDWDGBH
-------GCCCCGCC--------

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


Motif ID: UP00540
Motif name: Gli3_v015681_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 9
Number of overlap: 8
Similarity score: 0.0376381

Alignment:
ABBBBVVRGACCACCCACRDBBM
--------GCCCCGCC-------

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


Motif ID: UP00021
Motif name: Zfp281_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 8
Similarity score: 0.0392043

Alignment:
GKRGGGGGGGGGGBD
---GGCGGGGC----

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


Dataset #: 3 Motif ID: 24 Motif name: SP1

Original motif Reverse complement motif
Consensus sequence: CCCCKCCCCC Consensus sequence: GGGGGYGGGG

Best Matches for Motif ID 24 (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: 10
Similarity score: 0.0231018

Alignment:
DBCCCCCCCCCCMYC
--CCCCKCCCCC---

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


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: 3
Number of overlap: 10
Similarity score: 0.0303207

Alignment:
HBDRCCMCGCCCHHHD
----CCCCKCCCCC--

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


Motif ID: UP00033
Motif name: Zfp410_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: 10
Similarity score: 0.0323007

Alignment:
HHHHDGGGGCGGDBHDV
----GGGGGYGGGG---

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


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: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0340973

Alignment:
HVDVGGGHGGGGDBHB
--GGGGGYGGGG----

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: Backward
Position number: 3
Number of overlap: 10
Similarity score: 0.0351051

Alignment:
BHHHWGGGGCGGBBVH
----GGGGGYGGGG--

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


Motif ID: UP00539
Motif name: Gli2_v016060_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 10
Similarity score: 0.0390437

Alignment:
HDBABCGBKRGYGGCGMSBHAK
------GGGGGYGGGG------

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


Motif ID: UP00540
Motif name: Gli3_v016060_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 7
Number of overlap: 10
Similarity score: 0.0393358

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
-------GGGGGYGGGG------

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


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: 10
Similarity score: 0.0413863

Alignment:
DHHBCCCCGCCAHHBHB
----CCCCKCCCCC---

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


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: 10
Similarity score: 0.0418947

Alignment:
HVBCCCCCCCCMHHHB
---CCCCKCCCCC---

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


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: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.0420708

Alignment:
BDHHMCGCCCCCTHVBB
--CCCCKCCCCC-----

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


Dataset #: 3 Motif ID: 27 Motif name: Klf4

Original motif Reverse complement motif
Consensus sequence: DGGGYGKGGC Consensus sequence: GCCYCMCCCD

Best Matches for Motif ID 27 (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: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 10
Similarity score: 0

Alignment:
DHHDGGGCGRGGKHBH
---DGGGYGKGGC---

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: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 10
Similarity score: 0.0153308

Alignment:
DBCCCCCCCCCCMYC
---GCCYCMCCCD--

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


Motif ID: UP00002
Motif name: Sp4_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: 0.0186791

Alignment:
BDWAGGCGTGBCHHD
--DGGGYGKGGC---

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


Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0218399

Alignment:
HVBCCCCCCCCMHHHB
--GCCYCMCCCD----

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


Motif ID: UP00007
Motif name: Egr1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 10
Similarity score: 0.0249586

Alignment:
VHTGCGGGGGCGGH
GCCYCMCCCD----

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


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: 2
Number of overlap: 10
Similarity score: 0.0299159

Alignment:
BVVHAGGGGGCGRDHHB
------DGGGYGKGGC-

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


Motif ID: UP00000
Motif name: Smad3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 10
Similarity score: 0.0308595

Alignment:
BHBHDTGGCGGGGBDHD
----DGGGYGKGGC---

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


Motif ID: UP00047
Motif name: Zbtb7b_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 10
Similarity score: 0.0345891

Alignment:
DDVCCCCCCHAAWHB
GCCYCMCCCD-----

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


Motif ID: UP00043
Motif name: Bcl6b_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 10
Similarity score: 0.0346735

Alignment:
HBBBCCGCCCCWHHHV
--GCCYCMCCCD----

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


Motif ID: UP00538
Motif name: Gli1_v015681_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 10
Similarity score: 0.0351496

Alignment:
MHHHWHYTMCCHCCCACVAABVH
------GCCYCMCCCD-------

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


Dataset #: 3 Motif ID: 29 Motif name: HIF1AARNT

Original motif Reverse complement motif
Consensus sequence: VBACGTGV Consensus sequence: VCACGTBV

Best Matches for Motif ID 29 (Highest to Lowest)

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: 8
Number of overlap: 8
Similarity score: 0

Alignment:
HDYTTGCACACGDHBH
-------VCACGTBV-

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


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: 4
Number of overlap: 8
Similarity score: 0.000574345

Alignment:
DDASCACGTGBTBVDD
---VBACGTGV-----

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: Original Motif
Direction: Backward
Position number: 9
Number of overlap: 8
Similarity score: 0.00642455

Alignment:
YDYBDHTMCACGTGGADDBMDGT
-------VBACGTGV--------

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


Motif ID: UP00084
Motif name: Gmeb1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.0131171

Alignment:
BVVDVRYACGTRYVBHB
-----VBACGTGV----

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


Motif ID: UP00050
Motif name: Bhlhb2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 8
Similarity score: 0.014006

Alignment:
RDHDBVDTCACGTGASBHVHDH
-------VCACGTBV-------

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: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0184296

Alignment:
VBHHVCAGGTGCDVDHD
----VBACGTGV-----

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


Motif ID: UP00068
Motif name: Eomes_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: 8
Similarity score: 0.0188154

Alignment:
VVBVCKACACCTHVBV
------VCACGTBV--

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


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: 9
Number of overlap: 8
Similarity score: 0.0189568

Alignment:
DHVDTGTGCACAYAHDH
-VBACGTGV--------

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


Motif ID: UP00042
Motif name: Gm397_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 8
Number of overlap: 8
Similarity score: 0.0198987

Alignment:
HHRTATGTGCACATHHD
--VBACGTGV-------

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


Motif ID: UP00060
Motif name: Max_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.021967

Alignment:
BBGHCACGCGACDD
---VCACGTBV---

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


Dataset #: 3 Motif ID: 32 Motif name: ArntAhr

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

Best Matches for Motif ID 32 (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: Backward
Position number: 5
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


Dataset #: 4 Motif ID: 45 Motif name: wbgTAAATAww

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

Best Matches for Motif ID 45 (Highest to Lowest)

Motif ID: UP00242
Motif name: Hoxc8
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 11
Similarity score: 0

Alignment:
AHDHTAATTACHHHHV
--DHTATTTACBD---

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


Motif ID: UP00073
Motif name: Foxa2_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.00453517

Alignment:
HHWAWGTAAAYAAAVDB
---DBGTAAATAHD---

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


Motif ID: UP00039
Motif name: Foxj3_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 11
Similarity score: 0.00490457

Alignment:
HDHADGTAAACAAAVVH
---DBGTAAATAHD---

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


Motif ID: UP00041
Motif name: Foxj1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 11
Similarity score: 0.00656547

Alignment:
HDHRTAAACAAAHDDD
-DBGTAAATAHD----

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


Motif ID: UP00182
Motif name: Hoxa6
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 11
Similarity score: 0.0086354

Alignment:
DTHHGGTAATTAYCYT
---DBGTAAATAHD--

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


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

Alignment:
BRHVKTAATTAMBDVVD
---DHTATTTACBD---

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


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

Alignment:
VVHDDTAATTAHTDDBC
---DHTATTTACBD---

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


Motif ID: UP00259
Motif name: Hoxb6
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 11
Similarity score: 0.00949005

Alignment:
VDVGTAATTACBDAWW
-DBGTAAATAHD----

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


Motif ID: UP00254
Motif name: Pou2f1
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 11
Similarity score: 0.00998499

Alignment:
WABKTAATTAHKHHHD
-DBGTAAATAHD----

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


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

Alignment:
GHVRGTAATTATDVVGV
--DBGTAAATAHD----

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


Dataset #: 5 Motif ID: 48 Motif name: SP1

Original motif Reverse complement motif
Consensus sequence: CCCCKCCCCC Consensus sequence: GGGGGYGGGG

Best Matches for Motif ID 48 (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: 10
Similarity score: 0.0231018

Alignment:
DBCCCCCCCCCCMYC
--CCCCKCCCCC---

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


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: 5
Number of overlap: 10
Similarity score: 0.0303207

Alignment:
HBDRCCMCGCCCHHHD
----CCCCKCCCCC--

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


Motif ID: UP00033
Motif name: Zfp410_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: 10
Similarity score: 0.0323007

Alignment:
HHHHDGGGGCGGDBHDV
----GGGGGYGGGG---

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


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: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0340973

Alignment:
HVDVGGGHGGGGDBHB
--GGGGGYGGGG----

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: Backward
Position number: 3
Number of overlap: 10
Similarity score: 0.0351051

Alignment:
BHHHWGGGGCGGBBVH
----GGGGGYGGGG--

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


Motif ID: UP00539
Motif name: Gli2_v016060_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 10
Similarity score: 0.0390437

Alignment:
HDBABCGBKRGYGGCGMSBHAK
------GGGGGYGGGG------

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


Motif ID: UP00540
Motif name: Gli3_v016060_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 7
Number of overlap: 10
Similarity score: 0.0393358

Alignment:
HHBSHTCGTGRGTGGKGDBVWMV
-------GGGGGYGGGG------

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


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: 10
Similarity score: 0.0413863

Alignment:
DHHBCCCCGCCAHHBHB
----CCCCKCCCCC---

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


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: 10
Similarity score: 0.0418947

Alignment:
HVBCCCCCCCCMHHHB
---CCCCKCCCCC---

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


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: Backward
Position number: 6
Number of overlap: 10
Similarity score: 0.0420708

Alignment:
BDHHMCGCCCCCTHVBB
--CCCCKCCCCC-----

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


Dataset #: 5 Motif ID: 51 Motif name: Klf4

Original motif Reverse complement motif
Consensus sequence: DGGGYGKGGC Consensus sequence: GCCYCMCCCD

Best Matches for Motif ID 51 (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: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 10
Similarity score: 0

Alignment:
DHHDGGGCGRGGKHBH
---DGGGYGKGGC---

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: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 10
Similarity score: 0.0153308

Alignment:
DBCCCCCCCCCCMYC
---GCCYCMCCCD--

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


Motif ID: UP00002
Motif name: Sp4_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: 0.0186791

Alignment:
BDWAGGCGTGBCHHD
--DGGGYGKGGC---

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


Motif ID: UP00022
Motif name: Zfp740_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0218399

Alignment:
HVBCCCCCCCCMHHHB
--GCCYCMCCCD----

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


Motif ID: UP00007
Motif name: Egr1_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 10
Similarity score: 0.0249586

Alignment:
VHTGCGGGGGCGGH
GCCYCMCCCD----

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


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: 2
Number of overlap: 10
Similarity score: 0.0299159

Alignment:
BVVHAGGGGGCGRDHHB
------DGGGYGKGGC-

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


Motif ID: UP00000
Motif name: Smad3_secondary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 10
Similarity score: 0.0308595

Alignment:
BHBHDTGGCGGGGBDHD
----DGGGYGKGGC---

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


Motif ID: UP00047
Motif name: Zbtb7b_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 10
Similarity score: 0.0345891

Alignment:
VHWTTHGGGGGGVDD
GCCYCMCCCD-----

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


Motif ID: UP00043
Motif name: Bcl6b_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 10
Similarity score: 0.0346735

Alignment:
HBBBCCGCCCCWHHHV
--GCCYCMCCCD----

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


Motif ID: UP00538
Motif name: Gli1_v015681_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 10
Similarity score: 0.0351496

Alignment:
MHHHWHYTMCCHCCCACVAABVH
------GCCYCMCCCD-------

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


Dataset #: 5 Motif ID: 53 Motif name: HIF1AARNT

Original motif Reverse complement motif
Consensus sequence: VBACGTGV Consensus sequence: VCACGTBV

Best Matches for Motif ID 53 (Highest to Lowest)

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: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0

Alignment:
HDYTTGCACACGDHBH
-------VCACGTBV-

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


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: 4
Number of overlap: 8
Similarity score: 0.000574345

Alignment:
DDASCACGTGBTBVDD
---VBACGTGV-----

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: Original Motif
Direction: Backward
Position number: 9
Number of overlap: 8
Similarity score: 0.00642455

Alignment:
YDYBDHTMCACGTGGADDBMDGT
-------VBACGTGV--------

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


Motif ID: UP00084
Motif name: Gmeb1_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 5
Number of overlap: 8
Similarity score: 0.0131171

Alignment:
BVVDVRYACGTRYVBHB
-----VBACGTGV----

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


Motif ID: UP00050
Motif name: Bhlhb2_primary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 8
Number of overlap: 8
Similarity score: 0.014006

Alignment:
RDHDBVDTCACGTGASBHVHDH
-------VCACGTBV-------

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: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 8
Similarity score: 0.0184296

Alignment:
VBHHVCAGGTGCDVDHD
----VBACGTGV-----

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


Motif ID: UP00068
Motif name: Eomes_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: 8
Similarity score: 0.0188154

Alignment:
VVBVCKACACCTHVBV
------VCACGTBV--

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


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: 9
Number of overlap: 8
Similarity score: 0.0189568

Alignment:
DHVDTGTGCACAYAHDH
-VBACGTGV--------

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


Motif ID: UP00042
Motif name: Gm397_primary
Species: Mus musculus
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 8
Number of overlap: 8
Similarity score: 0.0198987

Alignment:
HHRTATGTGCACATHHD
--VBACGTGV-------

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


Motif ID: UP00060
Motif name: Max_secondary
Species: Mus musculus
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.021967

Alignment:
BBGHCACGCGACDD
---VCACGTBV---

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


Dataset #: 5 Motif ID: 56 Motif name: ArntAhr

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

Best Matches for Motif ID 56 (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: Backward
Position number: 5
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 14:32:36
Runtime: 695.758 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
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