**************************************************************************************************************************************************************************************************** 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 Reverse Complement Original Motif CAGTGC TGTGGTGTCACAGTGCTCC TGTSRKKKCACAGTGCTCC Direction: Backward Position #: 11 Overlap #: 6 Alignment: ---CAGTGC---------- TGTGGTGTCACAGTGCTCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Original Motif Original Motif TGTSRKKKCACAGTGCTCC CACTGTGRTRTCACAGTGSWSCACT CACTGTGRTGTCACAGTGCTCCACT Direction: Forward Position #: 4 Overlap #: 19 Alignment: ---TGTSRKKKCACAGTGCTCC--- CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Reverse Complement Original Motif AGTGGAGCACTGTGACAKCACAGTG TGGAGCACTGTGACAVCACAGTGG AGTGGAGCACTGTGACABCACAGTGG Direction: Forward Position #: 3 Overlap #: 23 Alignment: AGTGGAGCACTGTGACAKCACAGTG- --TGGAGCACTGTGACAVCACAGTGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Original Motif Reverse Complement AGTGGAGCACTGTGACABCACAGTGG AGTGCTCCACTGTGDTG AGTGSWSCACTGTGRYRBCACAGTGG Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGGAGCACTGTGACABCACAGTGG AGTGCTCCACTGTGDTG--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif AGTGSWSCACTGTGRYRBCACAGTGG CAGTGCTCCACTGTGBT CAGTGCTCCACTGTGDTRBCACAGTGG Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGSWSCACTGTGRYRBCACAGTGG CAGTGCTCCACTGTGBT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AgTGCTCCACTGTGgTGTCACAgT Combined Motif Reverse Complement Reverse Complement CCACTGTGBMAHCACAGTGGAGCACTG ACTGTGACACCACAGTGGAGCACT CCACTGTGACACCACAGTGGAGCACTG Direction: Forward Position #: 3 Overlap #: 24 Alignment: CCACTGTGBMAHCACAGTGGAGCACTG --ACTGTGACACCACAGTGGAGCACT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Reverse Complement CAGTGCTCCACTGTGGTGTCACAGTGG GGYGCTGTCCATGGTGCTGAA GSHGYKSTCCAYKGTGCTGHMACAGTGG Direction: Forward Position #: 2 Overlap #: 20 Alignment: -CAGTGCTCCACTGTGGTGTCACAGTGG GGYGCTGTCCATGGTGCTGAA------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Tcfcp2l1 Original Motif Original Motif GSHGYKSTCCAYKGTGCTGHMACAGTGG CCAGYYHVADCCRG SCAGYTBTMCMCDGTGCTGHMACAGTGG Direction: Forward Position #: 1 Overlap #: 14 Alignment: GSHGYKSTCCAYKGTGCTGHMACAGTGG CCAGYYHVADCCRG-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif SCAGYTBTMCMCDGTGCTGHMACAGTGG CWGAGCCAYCTYTC CWGAGCCABCTYTCCMCDGTGCTGHMACAGTGG Direction: Forward Position #: 6 Overlap #: 9 Alignment: -----SCAGYTBTMCMCDGTGCTGHMACAGTGG CWGAGCCAYCTYTC------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwCCAmAGTCmt Reverse Complement Reverse Complement CCACTGTRHCAGCACHGRGGAKAGBTGGCTCWG VDGACTRTGGDD VVSACTGTGGHAGCACHGRGGAKAGBTGGCTCWG Direction: Forward Position #: 2 Overlap #: 11 Alignment: -CCACTGTRHCAGCACHGRGGAKAGBTGGCTCWG 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 TTYGKWRMGCAR Direction: Backward Position #: 1 Overlap #: 8 Alignment: ----TTGCGCAA TTYGGAAAGCAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif TTYGKWRMGCAR TGAMCTTTGMMCYT TGAMCTTTGDWVMKCAR Direction: Forward Position #: 6 Overlap #: 9 Alignment: -----TTYGKWRMGCAR TGAMCTTTGMMCYT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Original Motif Reverse Complement TGAMCTTTGDWVMKCAR TGRCCTKTGHCCKAB TGACCTTTGBMCDDCAR Direction: Forward Position #: 1 Overlap #: 15 Alignment: TGAMCTTTGDWVMKCAR TGRCCTKTGHCCKAB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 YGCCACCTDSTGGY Direction: Forward Position #: 4 Overlap #: 6 Alignment: ---CACCTD----- YGCCACCTDSTGGY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif YGCCACCTDSTGGY CWGAGCCAYCTYTC CWGHGCCACCTBBYGGY Direction: Forward Position #: 4 Overlap #: 11 Alignment: ---YGCCACCTDSTGGY CWGAGCCAYCTYTC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 Reverse Complement RAGKGMWSARRRVRCASAGV MGGTCAGGGTGACCTRDBHV RAGGBCASDRKGRMCWSDGHV Direction: Forward Position #: 2 Overlap #: 19 Alignment: RAGKGMWSARRRVRCASAGV- -MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CACTGTGrYrtCACAGTGswsCAcT Combined Motif Reverse Complement Original Motif VDCDSWGRKCRMDSTGVCCTK CACTGTGRTRTCACAGTGSWSCACT CACTGTGRTVDCACWGTSCTBCACT Direction: Forward Position #: 1 Overlap #: 21 Alignment: VDCDSWGRKCRMDSTGVCCTK---- CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif AGTGBAGSACWGTGDVAMCACAGTG CHHCHBTCCTSCYTCTGC AGTGBABBHCHBTSHDVCCWCWGYG Direction: Forward Position #: 7 Overlap #: 18 Alignment: AGTGBAGSACWGTGDVAMCACAGTG ------CHHCHBTCCTSCYTCTGC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Reverse Complement AGTGBABBHCHBTSHDVCCWCWGYG BMSMGCCYMCTKSTGGMHM AGTGSMGCCCMCTBVTGSCHVWGYG Direction: Forward Position #: 3 Overlap #: 19 Alignment: AGTGBABBHCHBTSHDVCCWCWGYG --BMSMGCCYMCTKSTGGMHM---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Original Motif Original Motif AGTGSMGCCCMCTBVTGSCHVWGYG TGGAGCACTGTGACAVCACAGTGG AGTGGAGCMCTSTGAYRSCACAGTGG Direction: Forward Position #: 3 Overlap #: 23 Alignment: AGTGSMGCCCMCTBVTGSCHVWGYG- --TGGAGCACTGTGACAVCACAGTGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Reverse Complement AGTGGAGCMCTSTGAYRSCACAGTGG TGRCCTKTGHCCKAB AGTGGWGVMCTKTGVCMBMVCAGTGG Direction: Forward Position #: 6 Overlap #: 15 Alignment: AGTGGAGCMCTSTGAYRSCACAGTGG -----TGRCCTKTGHCCKAB------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Reverse Complement Reverse Complement CCACTGBRBRGBCAYAGRVCWCCACT CKGGDTBDMMCTGG CCACYKGGBDDBMACWGGVCWCCACT Direction: Forward Position #: 5 Overlap #: 14 Alignment: CCACTGBRBRGBCAYAGRVCWCCACT ----CKGGDTBDMMCTGG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM13 Reverse Complement Original Motif AGTGGWGVCCWGTRVHDVCCYKGTGG TTTTTTTKTTKTTTAATTHW TTTTTTTKTTKTTTARTKVWGVCCWGTRVHDVCCYKGTGG Direction: Forward Position #: 15 Overlap #: 6 Alignment: --------------AGTGGWGVCCWGTRVHDVCCYKGTGG TTTTTTTKTTKTTTAATTHW-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif TTTTTTTKTTKTTTARTKVWGVCCWGTRVHDVCCYKGTGG CTGCTGBDBBDGBD TTTTTTTKTTKTTTARTKVWGVCCWSTGCTGVVBHDGHGG Direction: Forward Position #: 26 Overlap #: 14 Alignment: TTTTTTTKTTKTTTARTKVWGVCCWGTRVHDVCCYKGTGG -------------------------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 Reverse Complement Original Motif SCTSCCKMTGC CYTSCCTCTGC SCTSCCTCTGC Direction: Backward Position #: 1 Overlap #: 11 Alignment: SCTSCCKMTGC CYTSCCTCTGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM2 Original Motif Original Motif SCTSCCTCTGC CHHCHBTCCTSCYTCTGC CHHCHBTCCTSCYYCTSCCTCTGC Direction: Forward Position #: 14 Overlap #: 5 Alignment: -------------SCTSCCTCTGC CHHCHBTCCTSCYTCTGC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Reverse Complement CHHCHBTCCTSCYYCTSCCTCTGC BMSMGCCYMCTKSTGGMHM CHHMVHKCCYSCTBSTGSCBMTGC Direction: Forward Position #: 3 Overlap #: 19 Alignment: CHHCHBTCCTSCYYCTSCCTCTGC --BMSMGCCYMCTKSTGGMHM--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif CHHMVHKCCYSCTBSTGSCBMTGC CTGCTGBDBBDGBD CHHMVCDSCTGCHBSTGBVBMTGC Direction: Forward Position #: 6 Overlap #: 14 Alignment: CHHMVHKCCYSCTBSTGSCBMTGC -----CTGCTGBDBBDGBD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Original Motif GCARVVBCASBHGCAGSDGVRHDG RAGKGMAGVRRGSRCASAGV GCARVVBCASBHGMRGSVDGVVRGSRCASAGV Direction: Forward Position #: 13 Overlap #: 12 Alignment: GCARVVBCASBHGCAGSDGVRHDG-------- ------------RAGKGMAGVRRGSRCASAGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Original Motif Reverse Complement GCARVVBCASBHGMRGSVDGVVRGSRCASAGV CKGGDTBDMMCTGG GCARVVBCASBHGMRGSCDGGDDBVVMMBRGV Direction: Forward Position #: 18 Overlap #: 14 Alignment: GCARVVBCASBHGMRGSVDGVVRGSRCASAGV -----------------CKGGDTBDMMCTGG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif GCARVVBCASBHGMRGSCDGGDDBVVMMBRGV TTCAGCACCATGGACAGCKCC TKCAGVACCABGGACAGSVBSGDDBVVMMBRGV Direction: Forward Position #: 2 Overlap #: 20 Alignment: -GCARVVBCASBHGMRGSCDGGDDBVVMMBRGV TTCAGCACCATGGACAGCKCC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Original Motif VCMBRRBVBDDCSBVSCTGTCCVTGGTVCTGYA VDBHMAGGTCACCCTGACCY VCMBRRBVBDDCSBVSCTVBVCVWGGTSMYSBWGACCY Direction: Forward Position #: 19 Overlap #: 15 Alignment: VCMBRRBVBDDCSBVSCTGTCCVTGGTVCTGYA----- ------------------VDBHMAGGTCACCCTGACCY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Reverse Complement MGGTCWBSMYSACCWVGVVVAGSVBSGDDBVVMMBRGV CTSTGTBKMCTGH MGGTCWBSMYSACCWVGVVVAGSCHSKRKBKMMHGDGV Direction: Forward Position #: 24 Overlap #: 13 Alignment: MGGTCWBSMYSACCWVGVVVAGSVBSGDDBVVMMBRGV -----------------------CTSTGTBKMCTGH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Original Motif Original Motif MGGTCWBSMYSACCWVGVVVAGSCHSKRKBKMMHGDGV VHRGGTCABDBTGMCCTB MGGTCWBSMYSACCWVGVVVAGSCHVDGGTCAVDBDGHCCTB Direction: Forward Position #: 25 Overlap #: 14 Alignment: MGGTCWBSMYSACCWVGVVVAGSCHSKRKBKMMHGDGV---- ------------------------VHRGGTCABDBTGMCCTB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Original Motif Reverse Complement TGVYCTTTGBCCT TGRCCTKTGHCCKAB TGRCCTKTGHCYKVBCTTTGBCCT Direction: Forward Position #: 12 Overlap #: 4 Alignment: -----------TGVYCTTTGBCCT TGRCCTKTGHCCKAB--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Original Motif Original Motif TGRCCTKTGHCYKVBCTTTGBCCT VHRGGTCABDBTGMCCTB HDRSSTYWSBBTGMCCTBTGBCCT Direction: Forward Position #: 1 Overlap #: 18 Alignment: TGRCCTKTGHCYKVBCTTTGBCCT VHRGGTCABDBTGMCCTB------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Original Motif Original Motif HDRSSTYWSBBTGMCCTBTGBCCT VDBHMAGGTCACCCTGACCY HDRVVBCHVGGTSACCYTKRCCCT Direction: Forward Position #: 4 Overlap #: 20 Alignment: HDRSSTYWSBBTGMCCTBTGBCCT ---VDBHMAGGTCACCCTGACCY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Original Motif HDRVVBCHVGGTSACCYTKRCCCT TGAMCTTTGMMCYT HDRVKGAMCBBTGAHCYTKRCCCT Direction: Forward Position #: 5 Overlap #: 14 Alignment: HDRVVBCHVGGTSACCYTKRCCCT ----TGAMCTTTGMMCYT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Original Motif AGGGMYAKGDTCAVVGYTCRVKHH AAAGGTCAAAGGTCAAC AAAGGTCAAAGGTCAAVGYTCRVKHH Direction: Forward Position #: 3 Overlap #: 15 Alignment: --AGGGMYAKGDTCAVVGYTCRVKHH AAAGGTCAAAGGTCAAC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Original Motif Reverse Complement AAAGGTCAAAGGTCAAVGYTCRVKHH AGTGSWSCACTGTGAMAMCACAGTG ARWGGWSCAMKGTSAMMVCACAGTVH Direction: Forward Position #: 1 Overlap #: 25 Alignment: AAAGGTCAAAGGTCAAVGYTCRVKHH AGTGSWSCACTGTGAMAMCACAGTG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Reverse Complement Reverse Complement HVACTGTGVYYTSACRRTGSWCCWMT CCACTGTGVTGTCACAGTGCTCCA HCACTGTGVTKTCACAGTGSWCCAMT Direction: Forward Position #: 1 Overlap #: 24 Alignment: HVACTGTGVYYTSACRRTGSWCCWMT CCACTGTGVTGTCACAGTGCTCCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Reverse Complement HCACTGTGVTKTCACAGTGSWCCAMT GGYGCTGTCCATGGTGCTGAA GGYGCTGTCCAHKGTGCTGWVACAGTGSWCCAMT Direction: Forward Position #: 9 Overlap #: 13 Alignment: --------HCACTGTGVTKTCACAGTGSWCCAMT GGYGCTGTCCATGGTGCTGAA------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Reverse Complement Original Motif ARTGGWSCACTGTVWCAGCACYDTGGACAGCKCC AGTGCTCCACTGTGGTGTCACAGT AGTGSTSCACTGTGDYRKCACHBTGGACAGCKCC Direction: Forward Position #: 1 Overlap #: 24 Alignment: ARTGGWSCACTGTVWCAGCACYDTGGACAGCKCC 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 Reverse Complement Reverse Complement CCAAAGT GCCAAAGTAT GCCAAAGTAT Direction: Forward Position #: 2 Overlap #: 7 Alignment: -CCAAAGT-- GCCAAAGTAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwCCAmAGTCmt Original Motif Original Motif GCCAAAGTAT DDCCAMAGTCHB DGCCAAAGTMTB Direction: Forward Position #: 2 Overlap #: 10 Alignment: -GCCAAAGTAT- DDCCAMAGTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif DGCCAAAGTMTB AGTGCTCCACTGTGGTGTCACAGT AGTGHTCCAMWGTVBTGTCACAGT Direction: Forward Position #: 5 Overlap #: 12 Alignment: ----DGCCAAAGTMTB-------- AGTGCTCCACTGTGGTGTCACAGT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AmTGTGACACCACAGT Reverse Complement Original Motif ACTGTGACAVVACWRTGGADCACT AMTGTGACACCACAGT ACTGTGACAVCACAGTGGADCACT Direction: Forward Position #: 1 Overlap #: 16 Alignment: ACTGTGACAVVACWRTGGADCACT AMTGTGACACCACAGT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Reverse Complement Reverse Complement AGTGHTCCACTGTGVTGTCACAGT AGTGCTCCACTGTGDTG AGTGCTCCACTGTGVTGTCACAGT Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGHTCCACTGTGVTGTCACAGT AGTGCTCCACTGTGDTG------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif AGTGCTCCACTGTGVTGTCACAGT CAGTGCTCCACTGTGBT CAGTGCTCCACTGTGBTGTCACAGT Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGCTCCACTGTGVTGTCACAGT CAGTGCTCCACTGTGBT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Reverse Complement Original Motif ACTGTGACABCACAGTGGAGCACTG TGAMCTTTGMMCYT TGAMCTKTGACMHCACAGTGGAGCACTG Direction: Forward Position #: 4 Overlap #: 11 Alignment: ---ACTGTGACABCACAGTGGAGCACTG TGAMCTTTGMMCYT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Original Motif Reverse Complement TGAMCTKTGACMHCACAGTGGAGCACTG AGTGSWSCACTGTGAMAMCACAGTG AGTGSTGMACTGTGAMMHCACAGTGGAGCACTG Direction: Forward Position #: 6 Overlap #: 20 Alignment: -----TGAMCTKTGACMHCACAGTGGAGCACTG AGTGSWSCACTGTGAMAMCACAGTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Reverse Complement Original Motif CAGTGCTCCACTGTGDYRTCACAGTYCASCACT TGGAGCACTGTGACAVCACAGTGG CAGTGSWSCACTGTGAYRYCACAGTBSASCACT Direction: Forward Position #: 4 Overlap #: 24 Alignment: CAGTGCTCCACTGTGDYRTCACAGTYCASCACT ---TGGAGCACTGTGACAVCACAGTGG------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Original Motif AGTGSTSBACTGTGMKKTCACAGTGSWSCACTG AAAGGTCAAAGGTCAAC AAAGGTCARWGGTCAACTGTGMKKTCACAGTGSWSCACTG Direction: Forward Position #: 8 Overlap #: 10 Alignment: -------AGTGSTSBACTGTGMKKTCACAGTGSWSCACTG 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 21 Reverse Complement Original Motif YTTCC CTGCTTTCCMAA CTGCTTYCCMAA Direction: Forward Position #: 4 Overlap #: 5 Alignment: ---YTTCC---- CTGCTTTCCMAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 41 Reverse Complement Original Motif TTYGGKAAGCAG TGGAGGAAA TKBRGGAARCAG Direction: Forward Position #: 1 Overlap #: 9 Alignment: TTYGGKAAGCAG TGGAGGAAA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 43 Reverse Complement Reverse Complement CTGKTTCCKBYA TGCCTTTCYTT TGCCTYTSBTTCCKBYA Direction: Forward Position #: 6 Overlap #: 6 Alignment: -----CTGKTTCCKBYA TGCCTTTCYTT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 44 Original Motif Reverse Complement TGCCTYTSBTTCCKBYA TTCTTYCATT TKCYTYYVTTTCCKBYA Direction: Forward Position #: 1 Overlap #: 10 Alignment: TGCCTYTSBTTCCKBYA TTCTTYCATT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 9 Original Motif Original Motif TKCYTYYVTTTCCKBYA AACATATTTTCA AACATDYTTTCATTTCCKBYA Direction: Forward Position #: 5 Overlap #: 8 Alignment: ----TKCYTYYVTTTCCKBYA AACATATTTTCA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Original Motif Original Motif AACATDYTTTCATTTCCKBYA AGAGAAAG AGAGAAMRTDYTTTCATTTCCKBYA Direction: Forward Position #: 5 Overlap #: 4 Alignment: ----AACATDYTTTCATTTCCKBYA AGAGAAAG----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 28 Reverse Complement Reverse Complement TKBYGGAAATGAAAKDAKYTTCTCT TTTACTAAAT TTTHSKAAATGAAAKDAKYTTCTCT Direction: Forward Position #: 1 Overlap #: 10 Alignment: TKBYGGAAATGAAAKDAKYTTCTCT TTTACTAAAT--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Reverse Complement Original Motif AGAGAAKYTDYTTTCATTTRSHAAA TGAAAATSCTT WGARAATBYTTTTTCATTTRSHAAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: AGAGAAKYTDYTTTCATTTRSHAAA TGAAAATSCTT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Reverse Complement WGARAATBYTTTTTCATTTRSHAAA GGYGCTGTCCATGGTGCTGAA GGYGCTGTCCATGGTGCTGARAATBYTTTTTCATTTRSHAAA Direction: Forward Position #: 18 Overlap #: 4 Alignment: -----------------WGARAATBYTTTTTCATTTRSHAAA GGYGCTGTCCATGGTGCTGAA--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 23 Reverse Complement Original Motif TTTHSKAAATGAAAAAKBATTKTCAGCACCATGGACAGCKCC ATGTWTTCATTMAT ATGTTTTCVTWAATGAAAAAKBATTKTCAGCACCATGGACAGCKCC Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----TTTHSKAAATGAAAAAKBATTKTCAGCACCATGGACAGCKCC ATGTWTTCATTMAT-------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 24 Original Motif Reverse Complement TAGTTTYAKCTTYYSWYCTC TTWATGWCTTT TTWATRDYTTTAKCTTYYSWYCTC Direction: Forward Position #: 5 Overlap #: 7 Alignment: ----TAGTTTYAKCTTYYSWYCTC TTWATGWCTTT------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Original Motif GAGKWSMMAAGYTAAAKHKATWAA CACTGTGRTRTCACAGTGSWSCACT CACTGTGRTRTCACAGWGSWSCAMWGYTAAAKHKATWAA Direction: Forward Position #: 16 Overlap #: 10 Alignment: ---------------GAGKWSMMAAGYTAAAKHKATWAA CACTGTGRTRTCACAGTGSWSCACT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 TTCRGYMMVGVKGACMBVGVHV Direction: Forward Position #: 3 Overlap #: 19 Alignment: TTCAGCACCKMGGACASVGVB- --MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Original Motif TTCRGYMMVGVKGACMBVGVHV YDRCCASYAGRKGGCRSYV TTVRSCAVBRGRGRSCDVBVHV Direction: Forward Position #: 2 Overlap #: 19 Alignment: TTCRGYMMVGVKGACMBVGVHV -YDRCCASYAGRKGGCRSYV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Original Motif Original Motif TTVRSCAVBRGRGRSCDVBVHV HCAGRRVACASAG TTVRBCAVVRVRVRSMGVBVHV Direction: Forward Position #: 5 Overlap #: 13 Alignment: TTVRSCAVBRGRGRSCDVBVHV ----HCAGRRVACASAG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-19-2018 09:09:18 Runtime: 1079.09 seconds MOTIFSIM is written by Ngoc Tam L. 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