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: 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
DREME_DM721.txt 16 1
MEME-ChIP_DM721.txt 11 2
PScanChIP_DM721.txt 37 3
RSAT_peak-motifs_DM721.txt 40 4

RESULTS

Top 10 Significant Motifs - Global Matching (Highest to Lowest)

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

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

Best Matches for Top Significant Motif ID 18 (Highest to Lowest)

Dataset #: 1
Motif ID: 2
Motif name: Motif 2
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 5
Similarity score: 0

Alignment:
CACACACA
---AMACA

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


Dataset #: 4
Motif ID: 79
Motif name: CACACACACACA
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 5
Similarity score: 0.0148279

Alignment:
TGTGTGTGTGTG
--TGTRT-----

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 95
Motif name: CACACACACACA
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 5
Similarity score: 0.0228414

Alignment:
TGTGTGTGTGTG
----TGTRT---

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 69
Motif name: aaACAAAACaa
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 6
Number of overlap: 5
Similarity score: 0.0274014

Alignment:
AAACAAAACAA
-----AMACA-

Original motif     Consensus sequence: AAACAAAACAA Reverse complement motif     Consensus sequence: TTGTTTTGTTT


Dataset #: 4
Motif ID: 86
Motif name: aaCAAAAACaa
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 5
Similarity score: 0.0291354

Alignment:
HHCAAAAACAH
-----AMACA-

Original motif     Consensus sequence: HHCAAAAACAH Reverse complement motif     Consensus sequence: HTGTTTTTGHH


Dataset #: 4
Motif ID: 97
Motif name: ryayAyAyrtGTRTrTry
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 5
Number of overlap: 5
Similarity score: 0.0293401

Alignment:
DHAYAYAYRTGTGTRTDH
---------TGTRT----

Original motif     Consensus sequence: DHAYAYAYRTGTGTRTDH Reverse complement motif     Consensus sequence: HDAMACACAKKTKTKTHD


Dataset #: 4
Motif ID: 100
Motif name: wrTGTATACAyw
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 6
Number of overlap: 5
Similarity score: 0.0302831

Alignment:
HDTGTATACAHD
--TGTRT-----

Original motif     Consensus sequence: HDTGTATACAHD Reverse complement motif     Consensus sequence: DHTGTATACADH


Dataset #: 1
Motif ID: 5
Motif name: Motif 5
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 3
Number of overlap: 5
Similarity score: 0.0378142

Alignment:
AAAASAAA
-AMACA--

Original motif     Consensus sequence: AAAASAAA Reverse complement motif     Consensus sequence: TTTSTTTT


Dataset #: 4
Motif ID: 92
Motif name: tyTCTkTkTCyy
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 5
Similarity score: 0.0390126

Alignment:
VHGARAYAGAVV
---AMACA----

Original motif     Consensus sequence: BBTCTKTKTCHB Reverse complement motif     Consensus sequence: VHGARAYAGAVV


Dataset #: 1
Motif ID: 14
Motif name: Motif 14
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 5
Similarity score: 0.042464

Alignment:
GKGTGKGC
-TGTRT--

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


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

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

Best Matches for Top Significant Motif ID 30 (Highest to Lowest)

Dataset #: 4
Motif ID: 89
Motif name: ccCCmCACCcc
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 6
Similarity score: 0.0148347

Alignment:
HBCCMCACCHH
-----CACCTD

Original motif     Consensus sequence: HBCCMCACCHH Reverse complement motif     Consensus sequence: DDGGTGRGGBD


Dataset #: 4
Motif ID: 93
Motif name: rrAGGGGGArr
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: 0.0194512

Alignment:
VVAGGGGGAVV
-HAGGTG----

Original motif     Consensus sequence: VVAGGGGGAVV Reverse complement motif     Consensus sequence: VVTCCCCCTVV


Dataset #: 4
Motif ID: 75
Motif name: yayAyAyACATrya
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 7
Number of overlap: 6
Similarity score: 0.0270731

Alignment:
HACAYAYACATRHD
------CACCTD--

Original motif     Consensus sequence: HACAYAYACATRHD Reverse complement motif     Consensus sequence: DHKATGTKTKTGTD


Dataset #: 4
Motif ID: 97
Motif name: ryayAyAyrtGTRTrTry
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 6
Number of overlap: 6
Similarity score: 0.0321302

Alignment:
HDAMACACAKKTKTKTHD
-----CACCTD-------

Original motif     Consensus sequence: DHAYAYAYRTGTGTRTDH Reverse complement motif     Consensus sequence: HDAMACACAKKTKTKTHD


Dataset #: 4
Motif ID: 96
Motif name: yrTGTGCACAyr
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 6
Similarity score: 0.0342918

Alignment:
BVTGTGCACABV
HAGGTG------

Original motif     Consensus sequence: BVTGTGCACABV Reverse complement motif     Consensus sequence: BBTGTGCACAVV


Dataset #: 4
Motif ID: 91
Motif name: ssCGCCsCCrCCCss
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: 0.0456166

Alignment:
SSCGCCSCCGCCCSS
--------CACCTD-

Original motif     Consensus sequence: SSCGCCSCCGCCCSS Reverse complement motif     Consensus sequence: SSGGGCGGSGGCGSS


Dataset #: 1
Motif ID: 4
Motif name: Motif 4
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 6
Similarity score: 0.0458702

Alignment:
CYBCCTCC
-CACCTD-

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


Dataset #: 4
Motif ID: 84
Motif name: wsAGCTACwy
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 6
Similarity score: 0.0461351

Alignment:
VHGTAGCTVD
---CACCTD-

Original motif     Consensus sequence: DVAGCTACHB Reverse complement motif     Consensus sequence: VHGTAGCTVD


Dataset #: 4
Motif ID: 88
Motif name: ssCrCYyYCGss
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: 0.0554152

Alignment:
BBCRCCYCCGBB
--CACCTD----

Original motif     Consensus sequence: BBCRCCYCCGBB Reverse complement motif     Consensus sequence: BBCGGKGGMGBB


Dataset #: 4
Motif ID: 90
Motif name: ssCGsCwsCss
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 6
Similarity score: 0.0564656

Alignment:
BBCGSCWSCBB
-----CACCTD

Original motif     Consensus sequence: BBCGSCWSCBB Reverse complement motif     Consensus sequence: BBGSWGSCGBB


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

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

Best Matches for Top Significant Motif ID 7 (Highest to Lowest)

Dataset #: 4
Motif ID: 92
Motif name: tyTCTkTkTCyy
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: 0.00355249

Alignment:
BBTCTKTKTCHB
-TTCTSTST---

Original motif     Consensus sequence: BBTCTKTKTCHB Reverse complement motif     Consensus sequence: VHGARAYAGAVV


Dataset #: 4
Motif ID: 69
Motif name: aaACAAAACaa
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 8
Similarity score: 0.0313478

Alignment:
AAACAAAACAA
ASASAGAA---

Original motif     Consensus sequence: AAACAAAACAA Reverse complement motif     Consensus sequence: TTGTTTTGTTT


Dataset #: 4
Motif ID: 82
Motif name: rmACAGCAGsr
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 8
Similarity score: 0.0319191

Alignment:
DVCTGCTGTVB
---TTCTSTST

Original motif     Consensus sequence: VVACAGCAGVD Reverse complement motif     Consensus sequence: DVCTGCTGTVB


Dataset #: 4
Motif ID: 95
Motif name: CACACACACACA
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.0398795

Alignment:
TGTGTGTGTGTG
-TTCTSTST---

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 79
Motif name: CACACACACACA
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 4
Number of overlap: 8
Similarity score: 0.0407034

Alignment:
TGTGTGTGTGTG
-TTCTSTST---

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 102
Motif name: AAAAAAAAAAA
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 8
Similarity score: 0.0441956

Alignment:
AAAAAAAAAAA
ASASAGAA---

Original motif     Consensus sequence: AAAAAAAAAAA Reverse complement motif     Consensus sequence: TTTTTTTTTTT


Dataset #: 2
Motif ID: 26
Motif name: Motif 26
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: 0.0451851

Alignment:
TKKTTTGTTTTTTT
----TTCTSTST--

Original motif     Consensus sequence: TKKTTTGTTTTTTT Reverse complement motif     Consensus sequence: AAAAAAACAAARRA


Dataset #: 2
Motif ID: 27
Motif name: Motif 27
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: 0.0493389

Alignment:
TGTGTGTGTGTKTG
-----TTCTSTST-

Original motif     Consensus sequence: CAYACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTKTG


Dataset #: 2
Motif ID: 25
Motif name: Motif 25
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: 0.0494079

Alignment:
CACACAVRCACACA
-----ASASAGAA-

Original motif     Consensus sequence: CACACAVRCACACA Reverse complement motif     Consensus sequence: TGTGTGKVTGTGTG


Dataset #: 3
Motif ID: 48
Motif name: EWSR1-FLI1
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: 0.0559328

Alignment:
CCTTCCTTCCTTCCTTCC
---TTCTSTST-------

Original motif     Consensus sequence: GGAAGGAAGGAAGGAAGG Reverse complement motif     Consensus sequence: CCTTCCTTCCTTCCTTCC


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

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

Best Matches for Top Significant Motif ID 21 (Highest to Lowest)

Dataset #: 1
Motif ID: 15
Motif name: Motif 15
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 5
Similarity score: 0.0065927

Alignment:
CATTTKC
-ATKTM-

Original motif     Consensus sequence: GRAAATG Reverse complement motif     Consensus sequence: CATTTKC


Dataset #: 1
Motif ID: 10
Motif name: Motif 10
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 5
Similarity score: 0.0217628

Alignment:
TAMATA
-RARAT

Original motif     Consensus sequence: TAMATA Reverse complement motif     Consensus sequence: TATRTA


Dataset #: 4
Motif ID: 85
Motif name: wtATTTTTAww
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 5
Number of overlap: 5
Similarity score: 0.0314602

Alignment:
DDTAAAAATHD
----RARAT--

Original motif     Consensus sequence: DHATTTTTADD Reverse complement motif     Consensus sequence: DDTAAAAATHD


Dataset #: 4
Motif ID: 71
Motif name: wyATTTTAww
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 3
Number of overlap: 5
Similarity score: 0.0314958

Alignment:
DDTAAAATHD
---RARAT--

Original motif     Consensus sequence: DHATTTTADD Reverse complement motif     Consensus sequence: DDTAAAATHD


Dataset #: 4
Motif ID: 92
Motif name: tyTCTkTkTCyy
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 6
Number of overlap: 5
Similarity score: 0.0326182

Alignment:
VHGARAYAGAVV
--RARAT-----

Original motif     Consensus sequence: BBTCTKTKTCHB Reverse complement motif     Consensus sequence: VHGARAYAGAVV


Dataset #: 4
Motif ID: 74
Motif name: twTACATAvw
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 5
Similarity score: 0.0335447

Alignment:
DBTATGTAHH
---ATKTM--

Original motif     Consensus sequence: HHTACATAVD Reverse complement motif     Consensus sequence: DBTATGTAHH


Dataset #: 4
Motif ID: 83
Motif name: wwTAAAwAww
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 4
Number of overlap: 5
Similarity score: 0.0514182

Alignment:
HHTWTTTADD
---ATKTM--

Original motif     Consensus sequence: DDTAAAWAHH Reverse complement motif     Consensus sequence: HHTWTTTADD


Dataset #: 4
Motif ID: 76
Motif name: wwWAAAAAwa
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 5
Similarity score: 0.0597589

Alignment:
WWAAAAAAWH
----RARAT-

Original motif     Consensus sequence: WWAAAAAAWH Reverse complement motif     Consensus sequence: HWTTTTTTWW


Dataset #: 4
Motif ID: 101
Motif name: AAAAAAAAAAA
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 10
Number of overlap: 5
Similarity score: 0.0609742

Alignment:
DVTGCATGCATGBH
---------ATKTM

Original motif     Consensus sequence: HVCATGCATGCABD Reverse complement motif     Consensus sequence: DVTGCATGCATGBH


Dataset #: 4
Motif ID: 100
Motif name: wrTGTATACAyw
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 2
Number of overlap: 5
Similarity score: 0.0620607

Alignment:
DHTGTATACADH
-ATKTM------

Original motif     Consensus sequence: HDTGTATACAHD Reverse complement motif     Consensus sequence: DHTGTATACADH


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

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

Best Matches for Top Significant Motif ID 4 (Highest to Lowest)

Dataset #: 3
Motif ID: 48
Motif name: EWSR1-FLI1
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: 0.022644

Alignment:
GGAAGGAAGGAAGGAAGG
-----GGAGGVMG-----

Original motif     Consensus sequence: GGAAGGAAGGAAGGAAGG Reverse complement motif     Consensus sequence: CCTTCCTTCCTTCCTTCC


Dataset #: 3
Motif ID: 32
Motif name: SP1
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0247246

Alignment:
CCCCKCCCCC
--CYBCCTCC

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


Dataset #: 4
Motif ID: 93
Motif name: rrAGGGGGArr
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 8
Similarity score: 0.0300296

Alignment:
VVTCCCCCTVV
---CYBCCTCC

Original motif     Consensus sequence: VVAGGGGGAVV Reverse complement motif     Consensus sequence: VVTCCCCCTVV


Dataset #: 4
Motif ID: 91
Motif name: ssCGCCsCCrCCCss
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: 0.0335629

Alignment:
SSCGCCSCCGCCCSS
----CYBCCTCC---

Original motif     Consensus sequence: SSCGCCSCCGCCCSS Reverse complement motif     Consensus sequence: SSGGGCGGSGGCGSS


Dataset #: 3
Motif ID: 52
Motif name: Klf4
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.0354458

Alignment:
GCCYCMCCCD
-CYBCCTCC-

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


Dataset #: 4
Motif ID: 88
Motif name: ssCrCYyYCGss
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 8
Similarity score: 0.045829

Alignment:
BBCRCCYCCGBB
----CYBCCTCC

Original motif     Consensus sequence: BBCRCCYCCGBB Reverse complement motif     Consensus sequence: BBCGGKGGMGBB


Dataset #: 4
Motif ID: 73
Motif name: ssCGsCTCss
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 8
Similarity score: 0.0472644

Alignment:
VVCGSCTCBB
-CYBCCTCC-

Original motif     Consensus sequence: VVCGSCTCBB Reverse complement motif     Consensus sequence: BBGAGSCGVV


Dataset #: 3
Motif ID: 57
Motif name: MZF1_5-13
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 8
Similarity score: 0.049303

Alignment:
BTHCCCCTYB
--CYBCCTCC

Original motif     Consensus sequence: BKAGGGGDAD Reverse complement motif     Consensus sequence: BTHCCCCTYB


Dataset #: 3
Motif ID: 34
Motif name: RREB1
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: 0.0528666

Alignment:
BGRRRGRGGRTGRTTYGGGG
----GGAGGVMG--------

Original motif     Consensus sequence: CCCCMAAMCAMCCMCMMMCV Reverse complement motif     Consensus sequence: BGRRRGRGGRTGRTTYGGGG


Dataset #: 4
Motif ID: 89
Motif name: ccCCmCACCcc
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: 0.0549805

Alignment:
HBCCMCACCHH
-CYBCCTCC--

Original motif     Consensus sequence: HBCCMCACCHH Reverse complement motif     Consensus sequence: DDGGTGRGGBD


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

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

Best Matches for Top Significant Motif ID 2 (Highest to Lowest)

Dataset #: 4
Motif ID: 79
Motif name: CACACACACACA
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.00486551

Alignment:
CACACACACACA
--CACACACA--

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 95
Motif name: CACACACACACA
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: 0.0100991

Alignment:
TGTGTGTGTGTG
----TGTGTGTG

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 2
Motif ID: 27
Motif name: Motif 27
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0101254

Alignment:
TGTGTGTGTGTKTG
--TGTGTGTG----

Original motif     Consensus sequence: CAYACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTKTG


Dataset #: 2
Motif ID: 25
Motif name: Motif 25
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 7
Number of overlap: 8
Similarity score: 0.0226631

Alignment:
TGTGTGKVTGTGTG
TGTGTGTG------

Original motif     Consensus sequence: CACACAVRCACACA Reverse complement motif     Consensus sequence: TGTGTGKVTGTGTG


Dataset #: 4
Motif ID: 97
Motif name: ryayAyAyrtGTRTrTry
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.0393219

Alignment:
DHAYAYAYRTGTGTRTDH
---------TGTGTGTG-

Original motif     Consensus sequence: DHAYAYAYRTGTGTRTDH Reverse complement motif     Consensus sequence: HDAMACACAKKTKTKTHD


Dataset #: 4
Motif ID: 75
Motif name: yayAyAyACATrya
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0468047

Alignment:
HACAYAYACATRHD
--CACACACA----

Original motif     Consensus sequence: HACAYAYACATRHD Reverse complement motif     Consensus sequence: DHKATGTKTKTGTD


Dataset #: 4
Motif ID: 86
Motif name: aaCAAAAACaa
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0633924

Alignment:
HHCAAAAACAH
--CACACACA-

Original motif     Consensus sequence: HHCAAAAACAH Reverse complement motif     Consensus sequence: HTGTTTTTGHH


Dataset #: 4
Motif ID: 74
Motif name: twTACATAvw
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 1
Number of overlap: 8
Similarity score: 0.0691437

Alignment:
DBTATGTAHH
TGTGTGTG--

Original motif     Consensus sequence: HHTACATAVD Reverse complement motif     Consensus sequence: DBTATGTAHH


Dataset #: 3
Motif ID: 34
Motif name: RREB1
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 8
Similarity score: 0.0752394

Alignment:
CCCCMAAMCAMCCMCMMMCV
------CACACACA------

Original motif     Consensus sequence: CCCCMAAMCAMCCMCMMMCV Reverse complement motif     Consensus sequence: BGRRRGRGGRTGRTTYGGGG


Dataset #: 4
Motif ID: 101
Motif name: AAAAAAAAAAA
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 7
Number of overlap: 8
Similarity score: 0.0764586

Alignment:
DVTGCATGCATGBH
------TGTGTGTG

Original motif     Consensus sequence: HVCATGCATGCABD Reverse complement motif     Consensus sequence: DVTGCATGCATGBH


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

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

Best Matches for Top Significant Motif ID 20 (Highest to Lowest)

Dataset #: 4
Motif ID: 77
Motif name: ssGCTswGCCms
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: 0.0323407

Alignment:
VBGCTSAGCCHB
---CTCTGY---

Original motif     Consensus sequence: VBGCTSAGCCHB Reverse complement motif     Consensus sequence: BDGGCTSAGCBV


Dataset #: 1
Motif ID: 7
Motif name: Motif 7
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 6
Similarity score: 0.0352938

Alignment:
ASASAGAA
--KCAGAG

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


Dataset #: 3
Motif ID: 59
Motif name: NR1H2RXRA
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: 0.0398495

Alignment:
AAAGGTCAAAGGTCAAC
-----KCAGAG------

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


Dataset #: 3
Motif ID: 36
Motif name: PPARGRXRA
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: 0.0415907

Alignment:
BTRGGDCARAGGKCA
-----KCAGAG----

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


Dataset #: 1
Motif ID: 11
Motif name: Motif 11
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 6
Similarity score: 0.0430865

Alignment:
CCGCCGCC
-CTCTGY-

Original motif     Consensus sequence: CCGCCGCC Reverse complement motif     Consensus sequence: GGCGGCGG


Dataset #: 4
Motif ID: 72
Motif name: ssCKCwsCGss
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 6
Similarity score: 0.0439226

Alignment:
BVCGCWSCGBV
----CTCTGY-

Original motif     Consensus sequence: BVCGCWSCGBV Reverse complement motif     Consensus sequence: VBCGSWGCGVB


Dataset #: 3
Motif ID: 38
Motif name: NR2F1
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: 0.0462597

Alignment:
AKGYYCAAAGRTCA
----KCAGAG----

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


Dataset #: 4
Motif ID: 92
Motif name: tyTCTkTkTCyy
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 2
Number of overlap: 6
Similarity score: 0.0467436

Alignment:
BBTCTKTKTCHB
-CTCTGY-----

Original motif     Consensus sequence: BBTCTKTKTCHB Reverse complement motif     Consensus sequence: VHGARAYAGAVV


Dataset #: 3
Motif ID: 50
Motif name: HNF4A
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 4
Number of overlap: 6
Similarity score: 0.0481824

Alignment:
RGGBCAAAGKYCA
---KCAGAG----

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


Dataset #: 3
Motif ID: 53
Motif name: MIZF
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 5
Number of overlap: 6
Similarity score: 0.049747

Alignment:
BAACGTCCGC
----CTCTGY

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


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

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

Best Matches for Top Significant Motif ID 42 (Highest to Lowest)

Dataset #: 2
Motif ID: 27
Motif name: Motif 27
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: 0.0388571

Alignment:
TGTGTGTGTGTKTG
------YGCGTG--

Original motif     Consensus sequence: CAYACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTKTG


Dataset #: 4
Motif ID: 79
Motif name: CACACACACACA
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 7
Number of overlap: 6
Similarity score: 0.0420782

Alignment:
TGTGTGTGTGTG
YGCGTG------

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 2
Motif ID: 25
Motif name: Motif 25
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 6
Similarity score: 0.0430749

Alignment:
CACACAVRCACACA
--------CACGCM

Original motif     Consensus sequence: CACACAVRCACACA Reverse complement motif     Consensus sequence: TGTGTGKVTGTGTG


Dataset #: 4
Motif ID: 101
Motif name: AAAAAAAAAAA
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 3
Number of overlap: 6
Similarity score: 0.043218

Alignment:
HVCATGCATGCABD
--CACGCM------

Original motif     Consensus sequence: HVCATGCATGCABD Reverse complement motif     Consensus sequence: DVTGCATGCATGBH


Dataset #: 4
Motif ID: 95
Motif name: CACACACACACA
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: 0.0440329

Alignment:
TGTGTGTGTGTG
----YGCGTG--

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 96
Motif name: yrTGTGCACAyr
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 7
Number of overlap: 6
Similarity score: 0.0477579

Alignment:
BVTGTGCACABV
YGCGTG------

Original motif     Consensus sequence: BVTGTGCACABV Reverse complement motif     Consensus sequence: BBTGTGCACAVV


Dataset #: 4
Motif ID: 89
Motif name: ccCCmCACCcc
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 6
Similarity score: 0.0479115

Alignment:
HBCCMCACCHH
-----CACGCM

Original motif     Consensus sequence: HBCCMCACCHH Reverse complement motif     Consensus sequence: DDGGTGRGGBD


Dataset #: 4
Motif ID: 65
Motif name: ssCGrGCGss
Matching format of first motif: Reverse Complement
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 6
Similarity score: 0.0487655

Alignment:
VBCGCMCGSV
----CACGCM

Original motif     Consensus sequence: VSCGRGCGBV Reverse complement motif     Consensus sequence: VBCGCMCGSV


Dataset #: 1
Motif ID: 2
Motif name: Motif 2
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 1
Number of overlap: 6
Similarity score: 0.0505006

Alignment:
CACACACA
CACGCM--

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


Dataset #: 4
Motif ID: 67
Motif name: ssGMsGRGCGss
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: 0.0538134

Alignment:
BBCGCCCSGCVV
CACGCM------

Original motif     Consensus sequence: VVGCSGGGCGBB Reverse complement motif     Consensus sequence: BBCGCCCSGCVV


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

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

Best Matches for Top Significant Motif ID 13 (Highest to Lowest)

Dataset #: 4
Motif ID: 92
Motif name: tyTCTkTkTCyy
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0131318

Alignment:
VHGARAYAGAVV
--GAGRCAGR--

Original motif     Consensus sequence: BBTCTKTKTCHB Reverse complement motif     Consensus sequence: VHGARAYAGAVV


Dataset #: 4
Motif ID: 73
Motif name: ssCGsCTCss
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Forward
Position number: 3
Number of overlap: 8
Similarity score: 0.0334555

Alignment:
BBGAGSCGVV
--GAGRCAGR

Original motif     Consensus sequence: VVCGSCTCBB Reverse complement motif     Consensus sequence: BBGAGSCGVV


Dataset #: 3
Motif ID: 48
Motif name: EWSR1-FLI1
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Forward
Position number: 7
Number of overlap: 8
Similarity score: 0.0397014

Alignment:
GGAAGGAAGGAAGGAAGG
------GAGRCAGR----

Original motif     Consensus sequence: GGAAGGAAGGAAGGAAGG Reverse complement motif     Consensus sequence: CCTTCCTTCCTTCCTTCC


Dataset #: 4
Motif ID: 99
Motif name: sgCTGGCCAGcs
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: 0.0475948

Alignment:
VVCTGGCCAGBB
-MCTGKCTC---

Original motif     Consensus sequence: BBCTGGCCAGVV Reverse complement motif     Consensus sequence: VVCTGGCCAGBB


Dataset #: 3
Motif ID: 35
Motif name: REST
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: 0.049302

Alignment:
GGYGCTGTCCATGGTGCTGAA
---MCTGKCTC----------

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


Dataset #: 2
Motif ID: 23
Motif name: Motif 23
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 1
Number of overlap: 8
Similarity score: 0.0551203

Alignment:
GGGGMGGG
GAGRCAGR

Original motif     Consensus sequence: CCCRCCCC Reverse complement motif     Consensus sequence: GGGGMGGG


Dataset #: 4
Motif ID: 80
Motif name: ssCwGGCCwGCss
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: 0.055328

Alignment:
BBCWGGCCAGCBB
-MCTGKCTC----

Original motif     Consensus sequence: BBCWGGCCAGCBB Reverse complement motif     Consensus sequence: BBGCTGGCCWGBB


Dataset #: 4
Motif ID: 93
Motif name: rrAGGGGGArr
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 1
Number of overlap: 8
Similarity score: 0.0555608

Alignment:
VVAGGGGGAVV
---GAGRCAGR

Original motif     Consensus sequence: VVAGGGGGAVV Reverse complement motif     Consensus sequence: VVTCCCCCTVV


Dataset #: 3
Motif ID: 45
Motif name: ESR1
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Forward
Position number: 13
Number of overlap: 8
Similarity score: 0.055859

Alignment:
VDBHMAGGTCACCCTGACCY
------------MCTGKCTC

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


Dataset #: 3
Motif ID: 36
Motif name: PPARGRXRA
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: 0.0596402

Alignment:
TGRCCTKTGHCCKAB
---MCTGKCTC----

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


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

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

Best Matches for Top Significant Motif ID 14 (Highest to Lowest)

Dataset #: 2
Motif ID: 27
Motif name: Motif 27
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: 0.0307099

Alignment:
CAYACACACACACA
---GCRCACRC---

Original motif     Consensus sequence: CAYACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTKTG


Dataset #: 4
Motif ID: 79
Motif name: CACACACACACA
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: 0.0357914

Alignment:
CACACACACACA
-GCRCACRC---

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 4
Motif ID: 95
Motif name: CACACACACACA
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: 0.0366948

Alignment:
CACACACACACA
-GCRCACRC---

Original motif     Consensus sequence: CACACACACACA Reverse complement motif     Consensus sequence: TGTGTGTGTGTG


Dataset #: 3
Motif ID: 52
Motif name: Klf4
Matching format of first motif: Reverse Complement
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.03983

Alignment:
DGGGYGKGGC
-GKGTGKGC-

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


Dataset #: 2
Motif ID: 25
Motif name: Motif 25
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.0418776

Alignment:
CACACAVRCACACA
-----GCRCACRC-

Original motif     Consensus sequence: CACACAVRCACACA Reverse complement motif     Consensus sequence: TGTGTGKVTGTGTG


Dataset #: 3
Motif ID: 44
Motif name: Egr1
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: 0.0429433

Alignment:
HGCGTGGGCGK
-GKGTGKGC--

Original motif     Consensus sequence: HGCGTGGGCGK Reverse complement motif     Consensus sequence: YCGCCCACGCH


Dataset #: 4
Motif ID: 89
Motif name: ccCCmCACCcc
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: 0.0505252

Alignment:
DDGGTGRGGBD
-GKGTGKGC--

Original motif     Consensus sequence: HBCCMCACCHH Reverse complement motif     Consensus sequence: DDGGTGRGGBD


Dataset #: 4
Motif ID: 96
Motif name: yrTGTGCACAyr
Matching format of first motif: Original Motif
Matching format of second motif: Original Motif
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.0537384

Alignment:
BVTGTGCACABV
---GCRCACRC-

Original motif     Consensus sequence: BVTGTGCACABV Reverse complement motif     Consensus sequence: BBTGTGCACAVV


Dataset #: 4
Motif ID: 65
Motif name: ssCGrGCGss
Matching format of first motif: Original Motif
Matching format of second motif: Reverse Complement
Direction: Backward
Position number: 2
Number of overlap: 8
Similarity score: 0.067702

Alignment:
VBCGCMCGSV
-GCRCACRC-

Original motif     Consensus sequence: VSCGRGCGBV Reverse complement motif     Consensus sequence: VBCGCMCGSV


Dataset #: 4
Motif ID: 91
Motif name: ssCGCCsCCrCCCss
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: 0.0685867

Alignment:
SSCGCCSCCGCCCSS
---GCRCACRC----

Original motif     Consensus sequence: SSCGCCSCCGCCCSS Reverse complement motif     Consensus sequence: SSGGGCGGSGGCGSS


Results created by MOTIFSIM on 11-20-2016 23:29:46
Runtime: 1002.53 seconds

MOTIFSIM is written by Ngoc Tam L. Tran
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