**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.1 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 2 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 # PScanChIP_DM05.txt 16 1 RSAT_peak-motifs_DM05.txt 17 2 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ************************************************************ Combined Motifs for Top Global Significant Motif ID 5 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ZEB1 AmTGTGACACCACAGT Reverse Complement Reverse Complement HAGGTG ACTGTGGTGTCACART TCACARTBWGGTGACT Direction: Backward Position #: 8 Overlap #: 6 Alignment: ---HAGGTG------- ACTGTGGTGTCACART ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TgTGgTGTCACAGTGCTCC Original Motif Reverse Complement TCACARTBWGGTGACT GGAGCACTGTGACACCACA GGAKCACWGTGASRYSACW Direction: Forward Position #: 4 Overlap #: 16 Alignment: ---TCACARTBWGGTGACT GGAGCACTGTGACACCACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Reverse Complement Reverse Complement WGTSMKSTCACWGTGRTCC ACTGTGACACCACAGTGGAGCACT ACTGTGABVYCACAGTGGWSCACT Direction: Forward Position #: 3 Overlap #: 19 Alignment: --WGTSMKSTCACWGTGRTCC--- ACTGTGACACCACAGTGGAGCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- srACyCCGAyr Combined Motif Reverse Complement Reverse Complement AGTGSWCCACTGTGMBBTCACAGT KKTCGGKGTKS AGTGSWCCACTGTGMKKTCRSDGTKS Direction: Forward Position #: 16 Overlap #: 9 Alignment: AGTGSWCCACTGTGMBBTCACAGT-- ---------------KKTCGGKGTKS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Reverse Complement Reverse Complement SYACDSMGAYRYCACAGTGGWSCACT CCACTGTGVTGTCACAGTGCTCCA SCACTGHGRTGTCACAGTGSTSCACT Direction: Forward Position #: 1 Overlap #: 24 Alignment: SYACDSMGAYRYCACAGTGGWSCACT CCACTGTGVTGTCACAGTGCTCCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Reverse Complement Reverse Complement AGTGSASCACTGTGACAKCHCAGTGS AGTGCTCCACTGTGDTG AGTGCWCCACTGTGVYRKCHCAGTGS Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGSASCACTGTGACAKCHCAGTGS AGTGCTCCACTGTGDTG--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- atactttggc Combined Motif Original Motif Original Motif AGTGCWCCACTGTGVYRKCHCAGTGS ATACTTTGGC AGTGCWMYACTKTGGCRKCHCAGTGS Direction: Forward Position #: 7 Overlap #: 10 Alignment: AGTGCWCCACTGTGVYRKCHCAGTGS ------ATACTTTGGC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CACTGTGrYrtCACAGTGswsCAcT Combined Motif Reverse Complement Original Motif SCACTGHGRMGCCARAGTMYWGCACT CACTGTGRTRTCACAGTGSWSCACT SCACTGTGRHGYCAVAGTVYWSCACT Direction: Forward Position #: 2 Overlap #: 25 Alignment: SCACTGHGRMGCCARAGTMYWGCACT -CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCCCCGCSssk Original Motif Original Motif SCACTGTGRHGYCAVAGTVYWSCACT SBCCCCGCCSBB SSCMCYGYSVBGYCAVAGTVYWSCACT Direction: Forward Position #: 2 Overlap #: 11 Alignment: -SCACTGTGRHGYCAVAGTVYWSCACT SBCCCCGCCSBB--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Reverse Complement Original Motif AGTGSWKVACTVTGKCBVSKCKGRGSS CAGTGCTCCACTGTGBT CAGTGCTCCACTGTGKYBVSKCKGRGSS Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGSWKVACTVTGKCBVSKCKGRGSS CAGTGCTCCACTGTGBT----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 6 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn sscCCCGCGcs Reverse Complement Original Motif GCCACGTGSD BSCCCCGCGBS SCCMCGYGSVB Direction: Backward Position #: 1 Overlap #: 10 Alignment: -GCCACGTGSD BSCCCCGCGBS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCCCCGCSssk Reverse Complement Reverse Complement BVSCKCGRGGS BBSGGCGGGGBS BBSSGCGGGGSS Direction: Forward Position #: 1 Overlap #: 11 Alignment: BVSCKCGRGGS- BBSGGCGGGGBS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CACTGTGrYrtCACAGTGswsCAcT Combined Motif Reverse Complement Original Motif SSCCCCGCSSBB CACTGTGRTRTCACAGTGSWSCACT SSCMCYGYGVBVTCACAGTGSWSCACT Direction: Forward Position #: 3 Overlap #: 10 Alignment: SSCCCCGCSSBB--------------- --CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Reverse Complement Original Motif AGTGSWSCACTGTGAVVVCMCMGRGSS CAGTGCTCCACTGTGBT CAGTGCTSCACTGTGVHVVCMCMGRGSS Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AGTGSWSCACTGTGAVVVCMCMGRGSS CAGTGCTCCACTGTGBT----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Reverse Complement Original Motif SSCMCYGYGVBHBCACAGTGSAGCACTG AGTGCTCCACTGTGGTGTCACAGT AGTGCTCCACTGTGVTVTCACAGTGSAGCACTG Direction: Forward Position #: 6 Overlap #: 19 Alignment: -----SSCMCYGYGVBHBCACAGTGSAGCACTG AGTGCTCCACTGTGGTGTCACAGT--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Reverse Complement Reverse Complement CAGTGCTSCACTGTGAVAVCACAGTGGAGCACT CCACTGTGVTGTCACAGTGCTCCA CAGTGCTCCACTGTGVTRTCACAGTGSWSCACT Direction: Forward Position #: 8 Overlap #: 24 Alignment: CAGTGCTSCACTGTGAVAVCACAGTGGAGCACT -------CCACTGTGVTGTCACAGTGCTCCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Reverse Complement Reverse Complement AGTGSWSCACTGTGAMABCACAGTGGAGCACTG AGTGCTCCACTGTGDTG AGTGCTCCACTGTGVHVBCACAGTGGAGCACTG Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGSWSCACTGTGAMABCACAGTGGAGCACTG AGTGCTCCACTGTGDTG---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif gCGCGCsCgsG Reverse Complement Original Motif CAGTGCTCCACTGTGVVHBCACAGTGGAGCACT GCGCGCSCGCG CGCGVSKSGMGCAGTGCTCCACTGTGVVHBCACAGTG Direction: Backward Position #: 5 Overlap #: 7 Alignment: CAGTGCTCCACTGTGVVHBCACAGTGGAGCACT---- --------------------------GCGCGCSCGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TgTGgTGTCACAGTGCTCC Combined Motif Original Motif Reverse Complement CGCGVSKSGMGCAGTGCTCCACTGTGVVHBCACAGTG GGAGCACTGTGACACCACA CGCGVSKGGAGCASTGYKMCACYRYRVVHBCACAGTG Direction: Forward Position #: 8 Overlap #: 19 Alignment: CGCGVSKSGMGCAGTGCTCCACTGTGVVHBCACAGTG -------GGAGCACTGTGACACCACA----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssGCkTGCssk Combined Motif Original Motif Original Motif CGCGVSKGGAGCASTGYKMCACYRYRVVHBCACAGTG SSGCKTGCSSK CGCGVSGCGWGCVSTGYKMCACYRYRVVHBCACAGTG Direction: Forward Position #: 5 Overlap #: 11 Alignment: CGCGVSKGGAGCASTGYKMCACYRYRVVHBCACAGTG ----SSGCKTGCSSK---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 8 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc sscCCCGCGcs Reverse Complement Original Motif DCCACGTGCV BSCCCCGCGBS BVCCMCGYGCV Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DCCACGTGCV BSCCCCGCGBS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCCCCGCSssk Combined Motif Reverse Complement Reverse Complement VGCKCGRGGVB BBSGGCGGGGBS VBCKSGCGGGGBS Direction: Forward Position #: 2 Overlap #: 10 Alignment: VGCKCGRGGVB-- -BBSGGCGGGGBS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Original Motif SBCCCCGCSYGBV CACTGTGRTRTCACAGTGSWSCACT CACTGTGRTRTCACAGTGCHCCRCKYGBV Direction: Forward Position #: 17 Overlap #: 9 Alignment: ----------------SBCCCCGCSYGBV CACTGTGRTRTCACAGTGSWSCACT---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Reverse Complement Reverse Complement VBCKRGKGGHGCACTGTGAMAMCACAGTG ABCACAGTGGAGCACTG ABCMCAGTGGAGCACTGTGAMAMCACAGTG Direction: Forward Position #: 2 Overlap #: 16 Alignment: -VBCKRGKGGHGCACTGTGAMAMCACAGTG ABCACAGTGGAGCACTG------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Reverse Complement Original Motif CACTGTGRTRTCACAGTGCTCCACTGYGBT TGGAGCACTGTGACAVCACAGTGG CACTGTGGWGYMMYRKKRCWCCACWGTGGT Direction: Forward Position #: 6 Overlap #: 24 Alignment: CACTGTGRTRTCACAGTGCTCCACTGYGBT -----TGGAGCACTGTGACAVCACAGTGG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwCCAmAGTCmt Reverse Complement Reverse Complement ACCACWGTGGWGKYRKMYYKCWCCACAGTG VDGACTRTGGDD AVSACTGTGGWKKYRKMYYKCWCCACAGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: ACCACWGTGGWGKYRKMYYKCWCCACAGTG VDGACTRTGGDD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Original Motif Original Motif AVSACTGTGGWKKYRKMYYKCWCCACAGTG CAHCACAGTGGAGCACT CAVCACWGTGGAGBHVTMYYKCWCCACAGTG Direction: Forward Position #: 2 Overlap #: 16 Alignment: -AVSACTGTGGWKKYRKMYYKCWCCACAGTG CAHCACAGTGGAGCACT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif CAVCACWGTGGAGBHVTMYYKCWCCACAGTG AGTGCTCCACTGTGGTGTCACAGT AGTGCWCCACTGTGGWGTCAYABTKCWCCACAGTG Direction: Forward Position #: 5 Overlap #: 20 Alignment: ----CAVCACWGTGGAGBHVTMYYKCWCCACAGTG AGTGCTCCACTGTGGTGTCACAGT----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif gCGCGCsCgsG Reverse Complement Original Motif CACTGTGGWGYAVTKTGACWCCACAGTGGWGCACT GCGCGCSCGCG CGCGDSKSGMGCACTGTGGWGYAVTKTGACWCCACAGTG Direction: Backward Position #: 5 Overlap #: 7 Alignment: CACTGTGGWGYAVTKTGACWCCACAGTGGWGCACT---- ----------------------------GCGCGCSCGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TgTGgTGTCACAGTGCTCC Combined Motif Reverse Complement Original Motif CACTGTGGWGTCAYABTKCWCCACAGTGCRCSYSDCGCG TGTGGTGTCACAGTGCTCC CACTGTGGTGTCACAGTGCTCCACAGTGCRCSYSDCGCG Direction: Forward Position #: 4 Overlap #: 19 Alignment: CACTGTGGWGTCAYABTKCWCCACAGTGCRCSYSDCGCG ---TGTGGTGTCACAGTGCTCC----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 11 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR4A2 CACTGTGrYrtCACAGTGswsCAcT Original Motif Original Motif AAGGTCAC CACTGTGRTRTCACAGTGSWSCACT CACTGTRAKGTCACAGTGSWSCACT Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------AAGGTCAC----------- CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Reverse Complement CACTGTRAKGTCACAGTGSWSCACT CCACTGTGVTGTCACAGTGCTCCA CCACTGTGRTGTCACAGTGCTCCACT Direction: Forward Position #: 2 Overlap #: 23 Alignment: -CACTGTRAKGTCACAGTGSWSCACT CCACTGTGVTGTCACAGTGCTCCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AmTGTGACACCACAGT Reverse Complement Original Motif AGTGGAGCACTGTGACAKCACAGTGG AMTGTGACACCACAGT AMTRKKRSASCACWGTGACAKCACAGTGG Direction: Forward Position #: 4 Overlap #: 13 Alignment: ---AGTGGAGCACTGTGACAKCACAGTGG AMTGTGACACCACAGT------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TgTGgTGTCACAGTGCTCC Combined Motif Original Motif Reverse Complement AMTRKKRSASCACWGTGACAKCACAGTGG GGAGCACTGTGACACCACA AMTRKKGSAGCACWGTGACABCACAGTGG Direction: Forward Position #: 7 Overlap #: 19 Alignment: AMTRKKRSASCACWGTGACAKCACAGTGG ------GGAGCACTGTGACACCACA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Reverse Complement AMTRKKGSAGCACWGTGACABCACAGTGG ACTGTGACACCACAGTGGAGCACT ACTGTGACASCACWGTGRMRCMMYAGTGG Direction: Forward Position #: 1 Overlap #: 24 Alignment: AMTRKKGSAGCACWGTGACABCACAGTGG ACTGTGACACCACAGTGGAGCACT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cCGCGGrCACG Combined Motif Reverse Complement Original Motif CCACTKYYGMYKCACWGTGSTGTCACAGT CCGCGGRCACG GTSYGCKGDCACRCCACTKYYGMYKCACW Direction: Backward Position #: 3 Overlap #: 11 Alignment: CCACTKYYGMYKCACWGTGSTGTCACAGT ----------------CCGCGGRCACG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwCCAmAGTCmt Combined Motif Reverse Complement Original Motif WGTGRMRCMMYAGTGGKGTGHCYGCMSAC DDCCAMAGTCHB WGTGRADCCAMAGTSVKGTGHCYGCMSAC Direction: Forward Position #: 6 Overlap #: 12 Alignment: WGTGRMRCMMYAGTGGKGTGHCYGCMSAC -----DDCCAMAGTCHB------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif WGTGRADCCAMAGTSVKGTGHCYGCMSAC CAGTGCTCCACTGTGBT MRKKGCTCCACWGTGBTGTGHCYGCMSAC Direction: Forward Position #: 1 Overlap #: 17 Alignment: WGTGRADCCAMAGTSVKGTGHCYGCMSAC CAGTGCTCCACTGTGBT------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssGCkTGCssk Combined Motif Reverse Complement Reverse Complement GTSYGCKGDCACABCACWGTGGAGCYRMY YSSGCAYGCSS GTSBGCABGCVCABCACWGTGGAGCYRMY Direction: Forward Position #: 2 Overlap #: 11 Alignment: GTSYGCKGDCACABCACWGTGGAGCYRMY -YSSGCAYGCSS----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CAcCACAGTGGAGCAct Combined Motif Reverse Complement Reverse Complement MRKKGCTCCACWGTGBTGBGCBTGCBSAC AGTGCTCCACTGTGDTG MRKTGCTCCACWGTGVTGBGCBTGCBSAC Direction: Forward Position #: 2 Overlap #: 17 Alignment: MRKKGCTCCACWGTGBTGBGCBTGCBSAC -AGTGCTCCACTGTGDTG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 25 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwCCAmAGTCmt HNF4A Original Motif Original Motif DDCCAMAGTCHB RGGBCAAAGKYCA RGDCCAMAGTCCD Direction: Forward Position #: 2 Overlap #: 12 Alignment: -DDCCAMAGTCHB RGGBCAAAGKYCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Reverse Complement DGGACTYTGGHCK GGYGCTGTCCATGGTGCTGAA DGBRCTKTSSHHGGTGCTGAA Direction: Forward Position #: 1 Overlap #: 13 Alignment: DGGACTYTGGHCK-------- GGYGCTGTCCATGGTGCTGAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Original Motif Reverse Complement DGBRCTKTSSHHGGTGCTGAA MGGTCAGGGTGACCTRDBHV MGGTBRBRCTGWCCHDGGTVCTGAA Direction: Forward Position #: 5 Overlap #: 16 Alignment: ----DGBRCTKTSSHHGGTGCTGAA MGGTCAGGGTGACCTRDBHV----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Original Motif Reverse Complement MGGTBRBRCTGWCCHDGGTVCTGAA GTTGACCTTTGACCTTT AGBTGACCTTTGWCCTKWMGGTBRB Direction: Backward Position #: 2 Overlap #: 17 Alignment: MGGTBRBRCTGWCCHDGGTVCTGAA -------GTTGACCTTTGACCTTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Reverse Complement AGBTGACCTTTGWCCTKWMGGTBRB TGRCCTKTGHCCKAB AGBTKDMCYTTKDCCYKHVGGTBRB Direction: Forward Position #: 5 Overlap #: 15 Alignment: AGBTGACCTTTGWCCTKWMGGTBRB ----TGRCCTKTGHCCKAB------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Original Motif AGBTKDMCYTTKDCCYKHVGGTBRB TGAMCTTTGMMCYT AGBTTGACCTTTGVCCBHVGGTBRB Direction: Forward Position #: 5 Overlap #: 14 Alignment: AGBTKDMCYTTKDCCYKHVGGTBRB ----TGAMCTTTGMMCYT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Reverse Complement Original Motif BKBACCVHVGGVCAAAGGTCAAVCT YDRCCASYAGRKGGCRSYV BKBACYVDCSRSCARRGGKCRMHVT Direction: Forward Position #: 6 Overlap #: 19 Alignment: BKBACCVHVGGVCAAAGGTCAAVCT -----YDRCCASYAGRKGGCRSYV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Reverse Complement Original Motif AVDYKGYCCKMTGSKSGDVKGTBRB VHRGGTCABDBTGMCCTB VDRKGKCMBKVTGVBCBBVKGTBRB Direction: Forward Position #: 1 Overlap #: 18 Alignment: AVDYKGYCCKMTGSKSGDVKGTBRB VHRGGTCABDBTGMCCTB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Esrrb Reverse Complement Reverse Complement BKBACYVBVGBVCAVRBYGRCYKDB TGACCTTGMBBB TGRMCTTBVBBVCAVRBYGRCYKDB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BKBACYVBVGBVCAVRBYGRCYKDB TGACCTTGMBBB------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Original Motif TGRMCTTBVBBVCAVRBYGRCYKDB VGCACGTGGH HGCACKTGGBBVCAVRBYGRCYKDB Direction: Forward Position #: 1 Overlap #: 10 Alignment: TGRMCTTBVBBVCAVRBYGRCYKDB VGCACGTGGH--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 28 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssGCkTGCssk CTCF Original Motif Original Motif SSGCKTGCSSK YDRCCASYAGRKGGCRSYV YDRCCASSVGSKKGCGSKV Direction: Forward Position #: 8 Overlap #: 11 Alignment: -------SSGCKTGCSSK- YDRCCASYAGRKGGCRSYV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Esrrb Original Motif Reverse Complement YDRCCASSVGSKKGCGSKV TGACCTTGMBBB TGACCWYSMGVKKGCGSKV Direction: Forward Position #: 1 Overlap #: 12 Alignment: YDRCCASSVGSKKGCGSKV TGACCTTGMBBB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR2 Reverse Complement Reverse Complement BRSCGCRYVCYSMWGGTCA BAGGYCABHBTGACCKHV BAGSBCABVBTGAHSGTVA Direction: Forward Position #: 1 Overlap #: 18 Alignment: BRSCGCRYVCYSMWGGTCA BAGGYCABHBTGACCKHV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- REST Combined Motif Original Motif Original Motif BAGSBCABVBTGAHSGTVA TTCAGCACCATGGACAGCKCC BAGBKCAGBAYSAHGGWCAGCKCC Direction: Forward Position #: 4 Overlap #: 16 Alignment: BAGSBCABVBTGAHSGTVA----- ---TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Reverse Complement GGYGCTGWCCHTSKTBCTGRBCTV TGRCCTKTGHCCKAB GGYGCTGDCCTTKGBCCTRVBCTV Direction: Forward Position #: 6 Overlap #: 15 Alignment: GGYGCTGWCCHTSKTBCTGRBCTV -----TGRCCTKTGHCCKAB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Original Motif BAGBVMAGGVCRAAGGDCAGCKCC RGGBCAAAGKYCA VRGBCAARGDYVAAGGDCAGCKCC Direction: Forward Position #: 1 Overlap #: 13 Alignment: BAGBVMAGGVCRAAGGDCAGCKCC RGGBCAAAGKYCA----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn Combined Motif Original Motif Reverse Complement VRGBCAARGDYVAAGGDCAGCKCC GCCACGTGSD VRGCCAMGKGBVAAGGDCAGCKCC Direction: Forward Position #: 3 Overlap #: 10 Alignment: VRGBCAARGDYVAAGGDCAGCKCC --GCCACGTGSD------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement VRGCCAMGKGBVAAGGDCAGCKCC DCCACGTGCV VRGCCACGTGCVAAGGDCAGCKCC Direction: Forward Position #: 3 Overlap #: 10 Alignment: VRGCCAMGKGBVAAGGDCAGCKCC --DCCACGTGCV------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Original Motif Original Motif VRGCCACGTGCVAAGGDCAGCKCC AAAGGTCAAAGGTCAAC VRGCMAMGKKCAAAGGTCARCKCC Direction: Forward Position #: 5 Overlap #: 17 Alignment: VRGCCACGTGCVAAGGDCAGCKCC ----AAAGGTCAAAGGTCAAC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Tcfcp2l1 Reverse Complement Reverse Complement GGYGMTGACCTTTGRYCYTRGCMV CKGGDTBDMMCTGG CKGBDHTGACCTKKGRYCYTRGCMV Direction: Forward Position #: 2 Overlap #: 13 Alignment: -GGYGMTGACCTTTGRYCYTRGCMV CKGGDTBDMMCTGG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 24 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCCCCGCSssk ESR1 Reverse Complement Reverse Complement BBSGGCGGGGBS MGGTCAGGGTGACCTRDBHV VBBKGRCSKGGBBMGGTCAG Direction: Backward Position #: 2 Overlap #: 12 Alignment: -------BBSGGCGGGGBS- MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Original Motif VBBKGRCSKGGBBMGGTCAG YDRCCASYAGRKGGCRSYV VBBBGRCCDSBAGRGGKCASYV Direction: Forward Position #: 4 Overlap #: 17 Alignment: VBBKGRCSKGGBBMGGTCAG-- ---YDRCCASYAGRKGGCRSYV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Original Motif VBBBGRCCDSBAGRGGKCASYV BTRGGDCARAGGKCA VBBDGGCCARVRGDBRKCASYV Direction: Forward Position #: 2 Overlap #: 15 Alignment: VBBBGRCCDSBAGRGGKCASYV -BTRGGDCARAGGKCA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR2 Original Motif Original Motif VBBDGGCCARVRGDBRKCASYV VHRGGTCABDBTGMCCTB VDDGGKCMVVDDGHCVTCASYV Direction: Forward Position #: 1 Overlap #: 18 Alignment: VBBDGGCCARVRGDBRKCASYV VHRGGTCABDBTGMCCTB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif VDDGGKCMVVDDGHCVTCASYV TTCAGCACCATGGACAGCKCC BBVRGBMCCDDGGACAGCRSYV Direction: Forward Position #: 1 Overlap #: 21 Alignment: VDDGGKCMVVDDGHCVTCASYV TTCAGCACCATGGACAGCKCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Esrrb Combined Motif Reverse Complement Reverse Complement BKSKGCTGTCCDDGGYBCKVVV TGACCTTGMBBB BTGASCTKBCBVDGGYBCKVVV Direction: Forward Position #: 2 Overlap #: 12 Alignment: BKSKGCTGTCCDDGGYBCKVVV -TGACCTTGMBBB--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF4A Combined Motif Reverse Complement Reverse Complement BBVRGBMCCDVBGBRAGSTCAV TGMYCTTTGBCCK BBVRKGMCCTTTGBVMGSTCAV Direction: Forward Position #: 5 Overlap #: 13 Alignment: BBVRGBMCCDVBGBRAGSTCAV ----TGMYCTTTGBCCK----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Original Motif Reverse Complement BBVRKGMCCTTTGBVMGSTCAV CKGGDTBDMMCTGG CTGGKKHBMHCTGGVMGSTCAV Direction: Forward Position #: 1 Overlap #: 14 Alignment: BBVRKGMCCTTTGBVMGSTCAV CKGGDTBDMMCTGG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn Combined Motif Reverse Complement Original Motif BTGASCRBCCAGHRBHRYCCAG HSCACGTGGC BTGHSCACSYGGHRBHRYCCAG Direction: Forward Position #: 4 Overlap #: 10 Alignment: BTGASCRBCCAGHRBHRYCCAG ---HSCACGTGGC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Original Motif BTGHSCACSYGGHRBHRYCCAG VGCACGTGGH BTGVSCACGYGGHRBHRYCCAG Direction: Forward Position #: 4 Overlap #: 10 Alignment: BTGHSCACSYGGHRBHRYCCAG ---VGCACGTGGH--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 29 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cCGCGGrCACG REST Original Motif Original Motif CCGCGGRCACG TTCAGCACCATGGACAGCKCC KCCCCRCGGACASSTTCAGCA Direction: Backward Position #: 4 Overlap #: 11 Alignment: -------CCGCGGRCACG--- TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Original Motif TGCTGAASSTGTCCGMGGGGY VDBHMAGGTCACCCTGACCY TGCTGVVVCWGKYCRCSSKGMCCY Direction: Forward Position #: 5 Overlap #: 17 Alignment: TGCTGAASSTGTCCGMGGGGY--- ----VDBHMAGGTCACCCTGACCY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Reverse Complement TGCTGVVVCWGKYCRCSSKGMCCY BMSMGCCYMCTKSTGGMHM TGCTGDVSMKSSYCCYBSTGVCCH Direction: Forward Position #: 6 Overlap #: 19 Alignment: TGCTGVVVCWGKYCRCSSKGMCCY -----BMSMGCCYMCTKSTGGMHM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Original Motif DGGVCASBMGGKSSYRSBDCAGCA BTRGGDCARAGGKCA BBRVSRCAARGGKSMRSBDCAGCA Direction: Forward Position #: 1 Overlap #: 15 Alignment: DGGVCASBMGGKSSYRSBDCAGCA BTRGGDCARAGGKCA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR2 Original Motif Original Motif BBRVSRCAARGGKSMRSBDCAGCA VHRGGTCABDBTGMCCTB VDRGGDCAVDGKGVMVBBDCAGCA Direction: Forward Position #: 1 Overlap #: 18 Alignment: BBRVSRCAARGGKSMRSBDCAGCA VHRGGTCABDBTGMCCTB------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Original Motif VDRGGDCAVDGKGVMVBBDCAGCA VGCACGTGGH VDVGSACRHGGBGVMVBBDCAGCA Direction: Forward Position #: 3 Overlap #: 10 Alignment: VDRGGDCAVDGKGVMVBBDCAGCA --VGCACGTGGH------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn Combined Motif Original Motif Original Motif VDVGSACRHGGBGVMVBBDCAGCA HSCACGTGGC VDVSCACGTGGBGVMVBBDCAGCA Direction: Forward Position #: 3 Overlap #: 10 Alignment: VDVGSACRHGGBGVMVBBDCAGCA --HSCACGTGGC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Original Motif Reverse Complement VDVSCACGTGGBGVMVBBDCAGCA GCGGACGTTV VDCGSACGTKVBGVMVBBDCAGCA Direction: Forward Position #: 2 Overlap #: 10 Alignment: VDVSCACGTGGBGVMVBBDCAGCA -GCGGACGTTV------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Esrrb Combined Motif Reverse Complement Original Motif TGCTGDVVVRVCBVYACGTSCGHV VBBYCAAGGTCA TGCTVDVHSAASGBCACGTSCGHV Direction: Forward Position #: 5 Overlap #: 12 Alignment: TGCTGDVVVRVCBVYACGTSCGHV ----VBBYCAAGGTCA-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Original Motif VDCGSACGTGVCSTTSDVHVAGCA RGGBCAAAGKYCA VGVSSAMRKKHCVTTSDVHVAGCA Direction: Forward Position #: 1 Overlap #: 13 Alignment: VDCGSACGTGVCSTTSDVHVAGCA RGGBCAAAGKYCA----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 4 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Esrrb TgTGgTGTCACAGTGCTCC Reverse Complement Original Motif TGACCTTGMBBB TGTGGTGTCACAGTGCTCC TSACMKTGCTCCTGTGGTG Direction: Backward Position #: 1 Overlap #: 12 Alignment: -------TGACCTTGMBBB TGTGGTGTCACAGTGCTCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Reverse Complement TSACMKTGCTCCTGTGGTG CCACTGTGVTGTCACAGTGCTCCA YCACTGTGVTSTYRYRGTGCTCCA Direction: Forward Position #: 1 Overlap #: 19 Alignment: TSACMKTGCTCCTGTGGTG----- CCACTGTGVTGTCACAGTGCTCCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Reverse Complement TGGAGCACKKKKASAVCACAGTGM AGTGSWSCACTGTGAMAMCACAGTG AGTGGAGCACTGTGACAVCACAGTGM Direction: Forward Position #: 3 Overlap #: 23 Alignment: --TGGAGCACKKKKASAVCACAGTGM AGTGSWSCACTGTGAMAMCACAGTG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwCCAmAGTCmt Reverse Complement Reverse Complement YCACTGTGVTGTCACAGTGCTCCACT VDGACTRTGGDD VBSACTGTGGTDTCACAGTGCTCCACT Direction: Forward Position #: 2 Overlap #: 11 Alignment: -YCACTGTGVTGTCACAGTGCTCCACT VDGACTRTGGDD--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssGCkTGCssk Combined Motif Original Motif Original Motif VBSACTGTGGTDTCACAGTGCTCCACT SSGCKTGCSSK VBSACTGTGGTDTCACAGTGCTSCRCTTGCSSK Direction: Forward Position #: 23 Overlap #: 5 Alignment: VBSACTGTGGTDTCACAGTGCTCCACT------ ----------------------SSGCKTGCSSK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCCCCGCSssk Original Motif Reverse Complement VBSACTGTGGTDTCACAGTGCTSCRCTTGCSSK BBSGGCGGGGBS BBSRSYGKGGBBTCACAGTGCTSCRCTTGCSSK Direction: Forward Position #: 1 Overlap #: 12 Alignment: VBSACTGTGGTDTCACAGTGCTSCRCTTGCSSK BBSGGCGGGGBS--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif BBSRSYGKGGBBTCACAGTGCTSCRCTTGCSSK AGTGCTCCACTGTGGTGTCACAGT AGTGCTCCACTGTGGTGTCACAGTGCTSCRCTTGCSSK Direction: Forward Position #: 6 Overlap #: 19 Alignment: -----BBSRSYGKGGBBTCACAGTGCTSCRCTTGCSSK AGTGCTCCACTGTGGTGTCACAGT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif atactttggc Original Motif Reverse Complement AGTGCTCCACTGTGGTGTCACAGTGCTSCRCTTGCSSK GCCAAAGTAT AGTATSSCWWAGTGCTCCACTGTGGTGTCACAGTGCTSCRCTT Direction: Backward Position #: 6 Overlap #: 5 Alignment: AGTGCTCCACTGTGGTGTCACAGTGCTSCRCTTGCSSK----- ---------------------------------GCCAAAGTAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cCGCGGrCACG Original Motif Original Motif AGTATSSCWWAGTGCTCCACTGTGGTGTCACAGTGCTSCRCTT CCGCGGRCACG RCACGSYGCKSAGTATSSCWWAGTGCTCCACTGTGGTGTCACAGTGCT Direction: Backward Position #: 6 Overlap #: 6 Alignment: AGTATSSCWWAGTGCTCCACTGTGGTGTCACAGTGCTSCRCTT----- -------------------------------------CCGCGGRCACG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AmTGTGACACCACAGT Reverse Complement Reverse Complement AGCACTGTGACACCACAGTGGAGCACTWWGSSATACTSYGCMSCGTGK ACTGTGGTGTCACART ACWGYRSTGTSACAVYACAGTGGAGCACTWWGSSATACTSYGCMSCGTGK Direction: Forward Position #: 3 Overlap #: 14 Alignment: --AGCACTGTGACACCACAGTGGAGCACTWWGSSATACTSYGCMSCGTGK ACTGTGGTGTCACART---------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 13 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF gCGCGCsCgsG Original Motif Original Motif BAACGTCCGC GCGCGCSCGCG BHRCGYCCGCG Direction: Forward Position #: 1 Overlap #: 10 Alignment: BAACGTCCGC- GCGCGCSCGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-19-2016 15:10:45 Runtime: 649.633 seconds MOTIFSIM is written by Ngoc Tam L. 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