**************************************************************************************************************************************************************************************************** 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 # MEME_DM05.txt 46 1 MEME-ChIP_DM05.txt 4 2 PScanChIP_DM05.txt 16 3 RSAT_peak-motifs_DM05.txt 17 4 W-ChIPMotifs_DM05.txt 11 5 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ************************************************************ Combined Motifs for Top Global Significant Motif ID 84 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW3 TgTGgTGTCACAGTGCTCC Original Motif Reverse Complement GCACTG GGAGCACTGTGACACCACA ACAGMMMYSGGAGCACTGT Direction: Backward Position #: 4 Overlap #: 6 Alignment: ----------GCACTG--- GGAGCACTGTGACACCACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Original Motif ACAGTGCTCCSMRRYCTGT CACTGTGRTRTCACAGTGSWSCACT CACWGTGVTVYCAVABYKSTSCACT Direction: Forward Position #: 2 Overlap #: 19 Alignment: -ACAGTGCTCCSMRRYCTGT----- CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Reverse Complement CACWGTGVTVYCAVABYKSTSCACT CCACTGTGVTGTCACAGTGCTCCA CCACTGTGVTGTCACAGTGCTCCACT Direction: Forward Position #: 2 Overlap #: 23 Alignment: -CACWGTGVTVYCAVABYKSTSCACT CCACTGTGVTGTCACAGTGCTCCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Reverse Complement Reverse Complement AGTGGAGCACTGTGACAVCACAGTGG AGTGCTCCACTGTGDTG AGTGSWSCACTGTGVYRVCACAGTGG Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGGAGCACTGTGACAVCACAGTGG AGTGCTCCACTGTGDTG--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif AGTGSWSCACTGTGVYRVCACAGTGG CAGTGCTCCACTGTGBT CAGTGCTCCACTGTGVTRVCACAGTGG Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGSWSCACTGTGVYRVCACAGTGG CAGTGCTCCACTGTGBT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AgTGCTCCACTGTGgTGTCACAgT Combined Motif Reverse Complement Reverse Complement CCACTGTGVKAVCACAGTGGAGCACTG ACTGTGACACCACAGTGGAGCACT CCACTGTGABABCACAGTGGAGCACTG Direction: Forward Position #: 3 Overlap #: 24 Alignment: CCACTGTGVKAVCACAGTGGAGCACTG --ACTGTGACACCACAGTGGAGCACT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Reverse Complement CAGTGCTCCACTGTGBTBTCACAGTGG GGYGCTGTCCATGGTGCTGAA GSHGYKSTCCAYKGTGCTGHMACAGTGG Direction: Forward Position #: 2 Overlap #: 20 Alignment: -CAGTGCTCCACTGTGBTBTCACAGTGG GGYGCTGTCCATGGTGCTGAA------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Tcfcp2l1 Original Motif Original Motif GSHGYKSTCCAYKGTGCTGHMACAGTGG CCAGYYHVADCCRG SCAGYTBTMVMCDGTGCTGHMACAGTGG Direction: Forward Position #: 1 Overlap #: 14 Alignment: GSHGYKSTCCAYKGTGCTGHMACAGTGG CCAGYYHVADCCRG-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 5 Combined Motif Reverse Complement Original Motif CCACTGTRHCAGCACHGRVRABAMCTGS CWGAGCCAYCTYTC CCACTGWGCCABCWCTBRVRABAMCTGS Direction: Forward Position #: 4 Overlap #: 14 Alignment: CCACTGTRHCAGCACHGRVRABAMCTGS ---CWGAGCCAYCTYTC----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwCCAmAGTCmt Original Motif Reverse Complement CCACTGWGCCABCWCTBRVRABAMCTGS VDGACTRTGGDD VVSACTGTGSHABCWCTBRVRABAMCTGS Direction: Forward Position #: 2 Overlap #: 11 Alignment: -CCACTGWGCCABCWCTBRVRABAMCTGS VDGACTRTGGDD----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 85 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW1 Motif 21 Original Motif Reverse Complement TTGCGCAA TTYGGAAAGCAG KWRMGCARTTYG Direction: Backward Position #: 1 Overlap #: 8 Alignment: ----TTGCGCAA TTYGGAAAGCAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif KWRMGCARTTYG TGAMCTTTGMMCYT TGAMCTTTRMVCADTTYG Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------KWRMGCARTTYG TGAMCTTTGMMCYT---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Original Motif Reverse Complement TGAMCTTTRMVCADTTYG TGRCCTKTGHCCKAB TGACCTTTGVVCDDTTYG Direction: Forward Position #: 1 Overlap #: 15 Alignment: TGAMCTTTRMVCADTTYG TGRCCTKTGHCCKAB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 28 Original Motif Original Motif TGACCTTTGVVCDDTTYG ATTTAGTAAA TAAARTTYAGTGACCTTTGVVC Direction: Backward Position #: 5 Overlap #: 6 Alignment: TGACCTTTGVVCDDTTYG---- ------------ATTTAGTAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CAcCACAGTGGAGCAct Combined Motif Reverse Complement Original Motif GVVCAAAGGTCACTMAAKTTTA CAHCACAGTGGAGCACT GVVCAAAGGTCACYACAKTKKAGCACT Direction: Forward Position #: 11 Overlap #: 12 Alignment: GVVCAAAGGTCACTMAAKTTTA----- ----------CAHCACAGTGGAGCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Original Motif GVVCAAAGGTCACYACAKTKKAGCACT TGGAGCACTGTGACAVCACAGTGG TGGRGVMMWRKGWCACCACAGTGKAGCACT Direction: Forward Position #: 4 Overlap #: 21 Alignment: ---GVVCAAAGGTCACYACAKTKKAGCACT TGGAGCACTGTGACAVCACAGTGG------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Reverse Complement Original Motif AGTGCTYCACTGTGGTGWCYMWYYVCKCCA AGTGCTCCACTGTGGTGTCACAGT AGTGCTCCACTGTGGTGTCMCABTVCKCCA Direction: Forward Position #: 1 Overlap #: 24 Alignment: AGTGCTYCACTGTGGTGWCYMWYYVCKCCA AGTGCTCCACTGTGGTGTCACAGT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif AGTGCTCCACTGTGGTGTCMCABTVCKCCA CAGTGCTCCACTGTGBT CAGTGCTCCACTGTGGTGTCMCABTVCKCCA Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGCTCCACTGTGGTGTCMCABTVCKCCA CAGTGCTCCACTGTGBT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CACTGTGrYrtCACAGTGswsCAcT Combined Motif Reverse Complement Original Motif TGGRGVABTGYGACACCACAGTGGAGCACTG CACTGTGRTRTCACAGTGSWSCACT TGGRGCACTGTGAYRYCACAGTGSAGCACTG Direction: Forward Position #: 6 Overlap #: 25 Alignment: TGGRGVABTGYGACACCACAGTGGAGCACTG -----CACTGTGRTRTCACAGTGSWSCACT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 41 Original Motif Original Motif TGGRGCACTGTGAYRYCACAGTGSAGCACTG TGGAGGAAA TGGAGSAMWGTGAYRYCACAGTGSAGCACTG Direction: Forward Position #: 1 Overlap #: 9 Alignment: TGGRGCACTGTGAYRYCACAGTGSAGCACTG TGGAGGAAA---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 55 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ZEB1 Motif 47 Original Motif Original Motif CACCTD YGCCACCTDSTGGY STGGYCACCTDYGC Direction: Backward Position #: 6 Overlap #: 6 Alignment: ---CACCTD----- YGCCACCTDSTGGY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif STGGYCACCTDYGC CWGAGCCAYCTYTC CBKGGCCACCTBTSC Direction: Forward Position #: 2 Overlap #: 13 Alignment: -STGGYCACCTDYGC CWGAGCCAYCTYTC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 46 Combined Motif Original Motif Reverse Complement CBKGGCCACCTBTSC TATKCTAAACCTAT CBKGGCCACCTATKCTAAACCTAT Direction: Forward Position #: 11 Overlap #: 5 Alignment: CBKGGCCACCTBTSC--------- ----------TATKCTAAACCTAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 20 Original Motif Original Motif CBKGGCCACCTATKCTAAACCTAT TCCTCCTGGAA TGGAATCYWMMCBKGGCCACCTATKCTAA Direction: Backward Position #: 6 Overlap #: 6 Alignment: CBKGGCCACCTATKCTAAACCTAT----- ------------------TCCTCCTGGAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 12 Combined Motif Original Motif Original Motif TGGAATCYWMMCBKGGCCACCTATKCTAA ACAACACATTT TGGAATCYWMMCBKGGCCACCTATKMYAACACATTT Direction: Forward Position #: 26 Overlap #: 4 Alignment: TGGAATCYWMMCBKGGCCACCTATKCTAA------- -------------------------ACAACACATTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 34 Reverse Complement Original Motif AAATGTGTTKYYATAGGTGGCCYVGYYWKGATTCCA AAAGATGA AAAKRTGWTKYYATAGGTGGCCYVGYYWKGATTCCA Direction: Forward Position #: 1 Overlap #: 8 Alignment: AAATGTGTTKYYATAGGTGGCCYVGYYWKGATTCCA AAAGATGA---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 22 Combined Motif Reverse Complement Original Motif TGGAATCYWKKCBKGGCCACCTATKKYAWCAKYTTT TTTATGGTGAGCAT TGGAATCYWKKCBKGGCCACCTATKKYAWCATTTWTGGTGAGCAT Direction: Forward Position #: 32 Overlap #: 5 Alignment: TGGAATCYWKKCBKGGCCACCTATKKYAWCAKYTTT--------- -------------------------------TTTATGGTGAGCAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 17 Reverse Complement Original Motif ATGCTCACCAWAAATGWTKYYATAGGTGGCCYVGYYWKGATTCCA CTTCTGACCTC MTKCTSACCWHAAATGWTKYYATAGGTGGCCYVGYYWKGATTCCA Direction: Forward Position #: 1 Overlap #: 11 Alignment: ATGCTCACCAWAAATGWTKYYATAGGTGGCCYVGYYWKGATTCCA CTTCTGACCTC---------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 3 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 TFM12 Original Motif Original Motif HCAGRRVACASAG RAGKGMAGVRRGSRCASAGV RAGKGMWSARRRVRCASAGV Direction: Forward Position #: 7 Overlap #: 13 Alignment: ------HCAGRRVACASAG- RAGKGMAGVRRGSRCASAGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Original Motif Original Motif RAGKGMWSARRRVRCASAGV VDBHMAGGTCACCCTGACCY RAGDDVHVAGGDCACHSWGVCCY Direction: Forward Position #: 4 Overlap #: 17 Alignment: RAGKGMWSARRRVRCASAGV--- ---VDBHMAGGTCACCCTGACCY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Original Motif Reverse Complement RAGDDVHVAGGDCACHSWGVCCY AGTGSWSCACTGTGAMAMCACAGTG AGTGSWSCACTGTGAVVVCACAGKGCACHSWGVCCY Direction: Forward Position #: 14 Overlap #: 12 Alignment: -------------RAGDDVHVAGGDCACHSWGVCCY AGTGSWSCACTGTGAMAMCACAGTG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement AGTGSWSCACTGTGAVVVCACAGKGCACHSWGVCCY GCAGAKGSAGGABDGHDG AGTGSWSCRCWGWGRSAGSABAGDDBACHSWGVCCY Direction: Forward Position #: 9 Overlap #: 18 Alignment: AGTGSWSCACTGTGAVVVCACAGKGCACHSWGVCCY --------GCAGAKGSAGGABDGHDG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CTCF Original Motif Reverse Complement AGTGSWSCRCWGWGRSAGSABAGDDBACHSWGVCCY BMSMGCCYMCTKSTGGMHM BAGYGCMBCMYDGTGGVHVSABAGDDBACHSWGVCCY Direction: Forward Position #: 2 Overlap #: 18 Alignment: -AGTGSWSCRCWGWGRSAGSABAGDDBACHSWGVCCY BMSMGCCYMCTKSTGGMHM------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Original Motif Original Motif BAGYGCMBCMYDGTGGVHVSABAGDDBACHSWGVCCY TGGAGCACTGTGACAVCACAGTGG BAGTGSAGCACTGTGRCAVCACAGTGGACHSWGVCCY Direction: Forward Position #: 4 Overlap #: 24 Alignment: BAGYGCMBCMYDGTGGVHVSABAGDDBACHSWGVCCY ---TGGAGCACTGTGACAVCACAGTGG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Reverse Complement BAGTGSAGCACTGTGRCAVCACAGTGGACHSWGVCCY TGRCCTKTGHCCKAB BAGTGSWGMMCTKTGVCMBVVCAGTGGACHSWGVCCY Direction: Forward Position #: 7 Overlap #: 15 Alignment: BAGTGSAGCACTGTGRCAVCACAGTGGACHSWGVCCY ------TGRCCTKTGHCCKAB---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Reverse Complement Reverse Complement MGGBCWSHGTCCACTGBVBRGBCAYAGRRCWSCACTV CKGGDTBDMMCTGG MGGBCWGGDTBBAMYKKGBRGBCAYAGRRCWSCACTV Direction: Forward Position #: 5 Overlap #: 14 Alignment: MGGBCWSHGTCCACTGBVBRGBCAYAGRRCWSCACTV ----CKGGDTBDMMCTGG------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Reverse Complement MGGBCWGGDTBBAMYKKGBRGBCAYAGRRCWSCACTV WHAATTAAARAARAAAAAAA MGGBCWGGDTBBAMYKKGBRGBCAYAGRRCWBMAYTAAARAARAAAAAAA Direction: Forward Position #: 31 Overlap #: 7 Alignment: MGGBCWGGDTBBAMYKKGBRGBCAYAGRRCWSCACTV------------- ------------------------------WHAATTAAARAARAAAAAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif MGGBCWGGDTBBAMYKKGBRGBCAYAGRRCWBMAYTAAARAARAAAAAAA CTGCTGBDBBDGBD MGGBCWGGBTGCWSBDBBHGDBCAYAGRRCWBMAYTAAARAARAAAAAAA Direction: Forward Position #: 9 Overlap #: 14 Alignment: MGGBCWGGDTBBAMYKKGBRGBCAYAGRRCWBMAYTAAARAARAAAAAAA --------CTGCTGBDBBDGBD---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 48 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 48 Motif 1 Original Motif Reverse Complement GCARRGGSAGS GCAGAGGSAKG GCAGAGGSAGS Direction: Forward Position #: 1 Overlap #: 11 Alignment: GCARRGGSAGS GCAGAGGSAKG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement GCAGAGGSAGS GCAGAKGSAGGABDGHDG GCAGAGGSAGGABDGHDG Direction: Forward Position #: 1 Overlap #: 11 Alignment: GCAGAGGSAGS------- GCAGAKGSAGGABDGHDG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CTCF Reverse Complement Reverse Complement CHHCHBTCCTSCCTCTGC BMSMGCCYMCTKSTGGMHM BHVMSCCYCCTGCYKSHBM Direction: Forward Position #: 2 Overlap #: 18 Alignment: -CHHCHBTCCTSCCTCTGC BMSMGCCYMCTKSTGGMHM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif BHVMSCCYCCTGCYKSHBM CTGCTGBDBBDGBD BHVHDSCTSCTBCHGBHBM Direction: Forward Position #: 4 Overlap #: 14 Alignment: BHVMSCCYCCTGCYKSHBM ---CTGCTGBDBBDGBD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Original Motif RBHBCHGBAGSAGSDDVDV RAGKGMAGVRRGSRCASAGV RRVDVCAGVAGSVGCAVVGV Direction: Forward Position #: 2 Overlap #: 19 Alignment: -RBHBCHGBAGSAGSDDVDV RAGKGMAGVRRGSRCASAGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Original Motif Original Motif RRVDVCAGVAGSVGCAVVGV CCAGYYHVADCCRG RRVDCCAGHHVVARCHRGGV Direction: Forward Position #: 5 Overlap #: 14 Alignment: RRVDVCAGVAGSVGCAVVGV ----CCAGYYHVADCCRG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Original Motif BCCMDGMTVVHDCTGGHVKK TTCAGCACCATGGACAGCKCC TTCAGCACCATGSMCAGCKVCHDCTGGHVKK Direction: Forward Position #: 12 Overlap #: 10 Alignment: -----------BCCMDGMTVVHDCTGGHVKK TTCAGCACCATGGACAGCKCC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Reverse Complement RRVDCCAGHHGVRGCTGYSCATGGTGCTGAA MGGTCAGGGTGACCTRDBHV RRVDCCAGGHSAVGSTGHCCHDGGTVCTGAA Direction: Forward Position #: 7 Overlap #: 20 Alignment: RRVDCCAGHHGVRGCTGYSCATGGTGCTGAA ------MGGTCAGGGTGACCTRDBHV----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Reverse Complement TTCAGVACCDHGGHCASCVTSHCCTGGHVKK CTSTGTBKMCTGH HTCWGBHBCVWGVHCASCVTSHCCTGGHVKK Direction: Forward Position #: 1 Overlap #: 13 Alignment: TTCAGVACCDHGGHCASCVTSHCCTGGHVKK CTSTGTBKMCTGH------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Reverse Complement Reverse Complement RRVDCCAGGHSAVGSTGHVCWVGBHVCWGAD BAGGYCABHBTGACCKHV RRVDCCAGGHCAVBSTGACCDDGBHVCWGAD Direction: Forward Position #: 6 Overlap #: 18 Alignment: RRVDCCAGGHSAVGSTGHVCWVGBHVCWGAD -----BAGGYCABHBTGACCKHV-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 87 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF1 HNF4A Reverse Complement Reverse Complement VVTCTTTGTCCT TGMYCTTTGBCCK TGVYCTTTGBCCT Direction: Forward Position #: 2 Overlap #: 12 Alignment: -VVTCTTTGTCCT TGMYCTTTGBCCK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Reverse Complement TGVYCTTTGBCCT TGRCCTKTGHCCKAB TKVHCYTTKBCCYKAB Direction: Forward Position #: 2 Overlap #: 12 Alignment: TGVYCTTTGBCCT--- -TGRCCTKTGHCCKAB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Reverse Complement Original Motif BTRKGGBRAAKGHVRA VHRGGTCABDBTGMCCTB BTVDGGGDMABGBBRACCTB Direction: Forward Position #: 3 Overlap #: 14 Alignment: BTRKGGBRAAKGHVRA---- --VHRGGTCABDBTGMCCTB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Reverse Complement BAGGTMVBCBTRDCCCDBAB MGGTCAGGGTGACCTRDBHV VRGKYAVBBTKRHCYVDBHV Direction: Forward Position #: 1 Overlap #: 20 Alignment: BAGGTMVBCBTRDCCCDBAB MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Original Motif VRGKYAVBBTKRHCYVDBHV TGAMCTTTGMMCYT VRGTSAMCYTTRVMCHBBHV Direction: Forward Position #: 4 Overlap #: 14 Alignment: VRGKYAVBBTKRHCYVDBHV ---TGAMCTTTGMMCYT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Original Motif Reverse Complement VRGTSAMCYTTRVMCHBBHV GTTGACCTTTGACCTTT VVKTGACCTTTGACCBTBHV Direction: Forward Position #: 2 Overlap #: 17 Alignment: VRGTSAMCYTTRVMCHBBHV -GTTGACCTTTGACCTTT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Original Motif Reverse Complement VVKTGACCTTTGACCBTBHV AGTGSWSCACTGTGAMAMCACAGTG AGTGBWGMMCTKTGACMHYACAGTG Direction: Forward Position #: 3 Overlap #: 20 Alignment: --VVKTGACCTTTGACCBTBHV--- AGTGSWSCACTGTGAMAMCACAGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Original Motif Original Motif AGTGBWGMMCTKTGACMHYACAGTG TGGAGCACTGTGACAVCACAGTGG AGTGGWGCACTGTGACAHCACAGTGG Direction: Forward Position #: 3 Overlap #: 23 Alignment: AGTGBWGMMCTKTGACMHYACAGTG- --TGGAGCACTGTGACAVCACAGTGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- REST Combined Motif Original Motif Original Motif AGTGGWGCACTGTGACAHCACAGTGG TTCAGCACCATGGACAGCKCC AKTSRRSMMCWKKGACAGCDCMGTGG Direction: Forward Position #: 2 Overlap #: 21 Alignment: AGTGGWGCACTGTGACAHCACAGTGG -TTCAGCACCATGGACAGCKCC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif AKTSRRSMMCWKKGACAGCDCMGTGG AGTGCTCCACTGTGGTGTCACAGT AGTGMTCMACTGTGRYRKCACAGTGG Direction: Forward Position #: 1 Overlap #: 24 Alignment: AKTSRRSMMCWKKGACAGCDCMGTGG AGTGCTCCACTGTGGTGTCACAGT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 37 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 37 atactttggc Original Motif Original Motif ACTTTGG ATACTTTGGC CACTTTGGAT Direction: Backward Position #: 2 Overlap #: 7 Alignment: --ACTTTGG- ATACTTTGGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwCCAmAGTCmt Reverse Complement Original Motif ATCCAAAGTG DDCCAMAGTCHB ATCCAAAGTSHB Direction: Forward Position #: 1 Overlap #: 10 Alignment: ATCCAAAGTG-- DDCCAMAGTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif ATCCAAAGTSHB AGTGCTCCACTGTGGTGTCACAGT AGTGMTCCAMWGTGBTGTCACAGT Direction: Forward Position #: 5 Overlap #: 12 Alignment: ----ATCCAAAGTSHB-------- AGTGCTCCACTGTGGTGTCACAGT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AmTGTGACACCACAGT Reverse Complement Original Motif ACTGTGACABCACWRTGGARCACT AMTGTGACACCACAGT ACTGTGACACCACAGTGGARCACT Direction: Forward Position #: 1 Overlap #: 16 Alignment: ACTGTGACABCACWRTGGARCACT AMTGTGACACCACAGT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Reverse Complement Reverse Complement AGTGMTCCACTGTGGTGTCACAGT AGTGCTCCACTGTGDTG AGTGCTCCACTGTGGTGTCACAGT Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGMTCCACTGTGGTGTCACAGT AGTGCTCCACTGTGDTG------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif AGTGCTCCACTGTGGTGTCACAGT CAGTGCTCCACTGTGBT CAGTGCTCCACTGTGGTGTCACAGT Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGCTCCACTGTGGTGTCACAGT CAGTGCTCCACTGTGBT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Reverse Complement CAGTGCTCCACTGTGGTGTCACAGT AKGYYCAAAGRTCA CAGTGCTCCACTGTGDKBTCAMAGDTCA Direction: Forward Position #: 15 Overlap #: 11 Alignment: CAGTGCTCCACTGTGGTGTCACAGT--- --------------AKGYYCAAAGRTCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Reverse Complement TGADCTRTGABRHCACAGTGGAGCACTG AGTGSWSCACTGTGAMAMCACAGTG AGTGSTGMACTGTGACAHCACAGTGGAGCACTG Direction: Forward Position #: 6 Overlap #: 20 Alignment: -----TGADCTRTGABRHCACAGTGGAGCACTG AGTGSWSCACTGTGAMAMCACAGTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Original Motif Original Motif AGTGSTGMACTGTGACAHCACAGTGGAGCACTG TGGAGCACTGTGACAVCACAGTGG AGTGGWGCACTGTGACAHCACAGTGGAGCACTG Direction: Forward Position #: 3 Overlap #: 24 Alignment: AGTGSTGMACTGTGACAHCACAGTGGAGCACTG --TGGAGCACTGTGACAVCACAGTGG------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Reverse Complement Original Motif CAGTGCTCCACTGTGDTGTCACAGTGCWCCACT AAAGGTCAAAGGTCAAC ACTWRRKGTCAMAGKKCAMCCAGTGCTCCACTG Direction: Backward Position #: 4 Overlap #: 17 Alignment: CAGTGCTCCACTGTGDTGTCACAGTGCWCCACT -------------AAAGGTCAAAGGTCAAC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 50 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 50 Motif 41 Reverse Complement Reverse Complement YTTCC TTTCCTCCA TCCATTTCC Direction: Backward Position #: 5 Overlap #: 5 Alignment: YTTCC---- TTTCCTCCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Original Motif TCCATTTCC CTGCTTTCCMAA YYSMTTTCCMAA Direction: Forward Position #: 1 Overlap #: 9 Alignment: TCCATTTCC--- CTGCTTTCCMAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 43 Original Motif Reverse Complement YYSMTTTCCMAA TGCCTTTCYTT TBCCTTTCCHWA Direction: Forward Position #: 1 Overlap #: 11 Alignment: YYSMTTTCCMAA TGCCTTTCYTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 44 Combined Motif Original Motif Reverse Complement TBCCTTTCCHWA TTCTTYCATT TTYCTTTCMTTA Direction: Forward Position #: 2 Overlap #: 10 Alignment: TBCCTTTCCHWA -TTCTTYCATT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 9 Original Motif Reverse Complement TTYCTTTCMTTA TGAAAATATGTT TGAAAATWTSTTTCMTTA Direction: Forward Position #: 7 Overlap #: 6 Alignment: ------TTYCTTTCMTTA TGAAAATATGTT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Original Motif Original Motif TGAAAATWTSTTTCMTTA TGAAAATSCTT TGAAAATVYBTTTCMTTA Direction: Forward Position #: 1 Overlap #: 11 Alignment: TGAAAATWTSTTTCMTTA TGAAAATSCTT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 28 Reverse Complement Reverse Complement TAAYGAAAVKVATTTTCA TTTACTAAAT TTWACKAAATKVATTTTCA Direction: Forward Position #: 2 Overlap #: 9 Alignment: -TAAYGAAAVKVATTTTCA TTTACTAAAT--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Reverse Complement Original Motif TGAAAATVYATTTYGTWAA AGAGAAAG WGARAAWGYATTTYGTWAA Direction: Forward Position #: 1 Overlap #: 8 Alignment: TGAAAATVYATTTYGTWAA AGAGAAAG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif WGARAAWGYATTTYGTWAA TTCAGCACCATGGACAGCKCC TTCAGCACCATDGAVARHGCHTTTYGTWAA Direction: Forward Position #: 12 Overlap #: 10 Alignment: -----------WGARAAWGYATTTYGTWAA TTCAGCACCATGGACAGCKCC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 23 Reverse Complement Reverse Complement TTWACKAAADGCDKTVTCHATGGTGCTGAA ATYAATGAAWACAT ATTAAYGAAAASATKTVTCHATGGTGCTGAA Direction: Forward Position #: 2 Overlap #: 13 Alignment: -TTWACKAAADGCDKTVTCHATGGTGCTGAA ATYAATGAAWACAT----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 61 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR4A2 Motif 17 Reverse Complement Original Motif GTGACCTT CTTCTGACCTC STKMYSWYCTC Direction: Forward Position #: 1 Overlap #: 8 Alignment: GTGACCTT--- CTTCTGACCTC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 15 Original Motif Reverse Complement STKMYSWYCTC TAGTTTYAKCTTT TAGTTTYAKCTTYYSWYCTC Direction: Forward Position #: 10 Overlap #: 4 Alignment: ---------STKMYSWYCTC TAGTTTYAKCTTT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 24 Combined Motif Original Motif Reverse Complement TAGTTTYAKCTTYYSWYCTC TTWATGWCTTT TAKTTWTRDCTTTYSWYCTC Direction: Forward Position #: 3 Overlap #: 11 Alignment: TAGTTTYAKCTTYYSWYCTC --TTWATGWCTTT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Reverse Complement GAGKWSMAAAGDKAWAAYTA AGTGSWSCACTGTGAMAMCACAGTG AGWGSWSCAMWGTGAHAACWMAGTG Direction: Forward Position #: 2 Overlap #: 20 Alignment: -GAGKWSMAAAGDKAWAAYTA---- AGTGSWSCACTGTGAMAMCACAGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 79 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cCGCGGrCACG TFF11 Reverse Complement Reverse Complement CGTGKCCGCGG HVCDBBDBCAGCAG HVCMGTGKCMGCRG Direction: Forward Position #: 4 Overlap #: 11 Alignment: ---CGTGKCCGCGG HVCDBBDBCAGCAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Reverse Complement HVCMGTGKCMGCRG GGYGCTGTCCATGGTGCTGAA BVCVSTGTCCRYGGTGCTGAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: HVCMGTGKCMGCRG------- GGYGCTGTCCATGGTGCTGAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Reverse Complement TTCAGCACCKMGGACASVGVB MGGTCAGGGTGACCTRDBHV TTCAGSWCMGVGKRVMSBGVBHV Direction: Forward Position #: 4 Overlap #: 18 Alignment: TTCAGCACCKMGGACASVGVB-- ---MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Original Motif TTCAGSWCMGVGKRVMSBGVBHV YDRCCASYAGRKGGCRSYV TBVMSVVCAGRGGGCVSBVVBHV Direction: Forward Position #: 1 Overlap #: 19 Alignment: TTCAGSWCMGVGKRVMSBGVBHV YDRCCASYAGRKGGCRSYV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Reverse Complement VDBVVVSBGCCCMCTGVBSRVVA CTSTGTBKMCTGH CTSTVHBKVCYBHCTGVBSRVVA Direction: Forward Position #: 1 Overlap #: 13 Alignment: VDBVVVSBGCCCMCTGVBSRVVA CTSTGTBKMCTGH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 Combined Motif Reverse Complement Original Motif TBVMSVVCAGDBMGVRBHVASAG ACACACACACACAC TBVMSVVCAGDBMRCACACACASACAC Direction: Forward Position #: 14 Overlap #: 10 Alignment: TBVMSVVCAGDBMGVRBHVASAG---- -------------ACACACACACACAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Reverse Complement GTGTSTGTGTGTGKYBHCTGVBSRVVA VCTSTGKSCMKBCTRCYCTK GTGTSDSTSTGKSBHBHCTGVBSDBVA Direction: Forward Position #: 6 Overlap #: 20 Alignment: GTGTSTGTGTGTGKYBHCTGVBSRVVA -----VCTSTGKSCMKBCTRCYCTK-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM1 Original Motif Reverse Complement GTGTSDSTSTGKSBHBHCTGVBSDBVA TGTGTGWGTGTGTGTGTG TGTGTGDBTGTGTGTVTDCTGVBSDBVA Direction: Forward Position #: 2 Overlap #: 17 Alignment: -GTGTSDSTSTGKSBHBHCTGVBSDBVA TGTGTGWGTGTGTGTGTG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Original Motif TBBDSVVCAGHAVACACACABDCACACA BTRGGDCARAGGKCA TBBDSVVHAGVDVAVASRBMVDCACACA Direction: Forward Position #: 7 Overlap #: 15 Alignment: TBBDSVVCAGHAVACACACABDCACACA ------BTRGGDCARAGGKCA------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM11 Reverse Complement Reverse Complement TGTGTGDBYBMSTVTVDVCTDVBSDBVA TGTGTGDKTGTGTGTGTRTG TGTGTGDKTGWGTGTGTVYKDVBSDBVA Direction: Forward Position #: 1 Overlap #: 20 Alignment: TGTGTGDBYBMSTVTVDVCTDVBSDBVA TGTGTGDKTGTGTGTGTRTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-18-2018 15:05:43 Runtime: 848.838 seconds MOTIFSIM is written by Ngoc Tam L. Tran