**************************************************************************************************************************************************************************************************** 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 and Local 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 CTCF Reverse Complement Original Motif HAGGTG YDRCCASYAGRKGGCRSYV YDRCCASYAGGTGGCRSYV Direction: Forward Position #: 8 Overlap #: 6 Alignment: -------HAGGTG------ YDRCCASYAGRKGGCRSYV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RORA_1 Combined Motif Original Motif Reverse Complement YDRCCASYAGGTGGCRSYV TGACCTDVWT YDRCCASYAGGTGRCSBHVWT Direction: Forward Position #: 12 Overlap #: 8 Alignment: YDRCCASYAGGTGGCRSYV-- -----------TGACCTDVWT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Original Motif AWVHVSGKCACCTKSTGGMHM TTCAGCACCATGGACAGCKCC TTCAGCAYCAHGGDCASCTBSTGGMHM Direction: Forward Position #: 7 Overlap #: 15 Alignment: ------AWVHVSGKCACCTKSTGGMHM TTCAGCACCATGGACAGCKCC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Esrrb Reverse Complement Reverse Complement YDRCCASBAGSTGDCCHTGKTGCTGAA TGACCTTGMBBB TGACCWKGAGVTGDCCHTGKTGCTGAA Direction: Forward Position #: 1 Overlap #: 12 Alignment: YDRCCASBAGSTGDCCHTGKTGCTGAA TGACCTTGMBBB--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Reverse Complement Original Motif TTCAGCAYCAHGGDCAVCTCRWGGTCA AAAGGTCAAAGGTCAAC TWMAGSWCMAAGGTCAVCTCRWGGTCA Direction: Forward Position #: 2 Overlap #: 17 Alignment: TTCAGCAYCAHGGDCAVCTCRWGGTCA -AAAGGTCAAAGGTCAAC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Reverse Complement Reverse Complement TGACCWKGAGBTGACCTTYGWSCTRWA TGRCCTKTGHCCKAB TGRCCTKKVBBYGACCTTYGWSCTRWA Direction: Forward Position #: 1 Overlap #: 15 Alignment: TGACCWKGAGBTGACCTTYGWSCTRWA TGRCCTKTGHCCKAB------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR4A2 Original Motif Reverse Complement TGRCCTKKVBBYGACCTTYGWSCTRWA GTGACCTT GTGACCTTKVBBYGACCTTYGWSCTRWA Direction: Forward Position #: 2 Overlap #: 7 Alignment: -TGRCCTKKVBBYGACCTTYGWSCTRWA GTGACCTT-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Original Motif Original Motif GTGACCTTKVBBYGACCTTYGWSCTRWA VDBHMAGGTCACCCTGACCY VVTBMMSKTYABCYKRMCYTYGWSCTRWA Direction: Forward Position #: 2 Overlap #: 19 Alignment: -GTGACCTTKVBBYGACCTTYGWSCTRWA VDBHMAGGTCACCCTGACCY--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn Combined Motif Original Motif Reverse Complement VVTBMMSKTYABCYKRMCYTYGWSCTRWA GCCACGTGSD VGYCACGTKSRBCYKRMCYTYGWSCTRWA Direction: Forward Position #: 2 Overlap #: 10 Alignment: VVTBMMSKTYABCYKRMCYTYGWSCTRWA -GCCACGTGSD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement VGYCACGTKSRBCYKRMCYTYGWSCTRWA DCCACGTGCV VGCCACGTGSVBCYKRMCYTYGWSCTRWA Direction: Forward Position #: 2 Overlap #: 10 Alignment: VGYCACGTKSRBCYKRMCYTYGWSCTRWA -DCCACGTGCV------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 gCGCGCsCgsG Original Motif Original Motif SSGCKTGCSSK GCGCGCSCGCG SCGCGYGCSSG Direction: Backward Position #: 1 Overlap #: 11 Alignment: SSGCKTGCSSK GCGCGCSCGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCCCCGCSssk Combined Motif Reverse Complement Original Motif CSSGCKCGCGS SBCCCCGCCSBB CSSSCBCGCSSBB Direction: Forward Position #: 2 Overlap #: 10 Alignment: CSSGCKCGCGS-- -SBCCCCGCCSBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sscCCCGCGcs Reverse Complement Original Motif BBSSGCGBGSSSG BSCCCCGCGBS BBSCSCGCGSSSG Direction: Forward Position #: 1 Overlap #: 11 Alignment: BBSSGCGBGSSSG BSCCCCGCGBS-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cCGCGGrCACG Reverse Complement Reverse Complement CSSSCGCGSGSBB CGTGKCCGCGG CGBGYSCGCGSBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: CSSSCGCGSGSBB CGTGKCCGCGG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CTCF Reverse Complement Reverse Complement BBSCGCGSKCVCG BMSMGCCYMCTKSTGGMHM BVSCGCSSVCDBGTGGMHM Direction: Forward Position #: 1 Overlap #: 13 Alignment: BBSCGCGSKCVCG------ BMSMGCCYMCTKSTGGMHM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Esrrb Reverse Complement Reverse Complement YDRCCACBDGVSSGCGSVV TGACCTTGMBBB TGACCWYSHGBBSGCGSVV Direction: Forward Position #: 1 Overlap #: 12 Alignment: YDRCCACBDGVSSGCGSVV TGACCTTGMBBB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR2 Reverse Complement Reverse Complement BVSCGCSBBCHSMWGGTCA BAGGYCABHBTGACCKHV BMGVBCVBBBTGAHSGTVA Direction: Forward Position #: 1 Overlap #: 18 Alignment: BVSCGCSBBCHSMWGGTCA BAGGYCABHBTGACCKHV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- REST Combined Motif Original Motif Original Motif BMGVBCVBBBTGAHSGTVA TTCAGCACCATGGACAGCKCC BMGBBCAGBAYSAHGGWCAGCKCC Direction: Forward Position #: 4 Overlap #: 16 Alignment: BMGVBCVBBBTGAHSGTVA----- ---TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Reverse Complement GGYGCTGWCCHTSKTBCTGVBCYB TGRCCTKTGHCCKAB GGYGCTGDCCTTKGBSCKRVBCYB Direction: Forward Position #: 6 Overlap #: 15 Alignment: GGYGCTGWCCHTSKTBCTGVBCYB -----TGRCCTKTGHCCKAB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Original Motif BMGBVMRGSVCRAAGGDCAGCKCC RGGBCAAAGKYCA VVGBCAARGDYVAAGGDCAGCKCC Direction: Forward Position #: 1 Overlap #: 13 Alignment: BMGBVMRGSVCRAAGGDCAGCKCC RGGBCAAAGKYCA----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 CACTGTGrYrtCACAGTGswsCAcT Original Motif Original Motif DDCCAMAGTCHB CACTGTGRTRTCACAGTGSWSCACT SCACTHDYCACAGTSBWCACTGTGR Direction: Backward Position #: 6 Overlap #: 12 Alignment: --------DDCCAMAGTCHB----- CACTGTGRTRTCACAGTGSWSCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Original Motif SCACTHDYCACAGTSBWCACTGTGR CAGTGCTCCACTGTGBT CMRYKCTCCACWGTGBTCACTGTGR Direction: Forward Position #: 1 Overlap #: 17 Alignment: SCACTHDYCACAGTSBWCACTGTGR CAGTGCTCCACTGTGBT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Reverse Complement Original Motif MCACAGTGABCACWGTGGAGRMKRG CAHCACAGTGGAGCACT CAVCACAGTGRASMMHKTGGAGRMKRG Direction: Forward Position #: 3 Overlap #: 15 Alignment: --MCACAGTGABCACWGTGGAGRMKRG CAHCACAGTGGAGCACT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif CAVCACAGTGRASMMHKTGGAGRMKRG AGTGCTCCACTGTGGTGTCACAGT AGTGCWCCACWGTGGWGWCABWGKAGRMKRG Direction: Forward Position #: 5 Overlap #: 20 Alignment: ----CAVCACAGTGRASMMHKTGGAGRMKRG AGTGCTCCACTGTGGTGTCACAGT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF4A Combined Motif Reverse Complement Reverse Complement CMRYKCTRCWBTGWCWCCACWGTGGWGCACT TGMYCTTTGBCCK CMRYKCTGCHCTKTSDCCACWGTGGWGCACT Direction: Forward Position #: 7 Overlap #: 13 Alignment: CMRYKCTRCWBTGWCWCCACWGTGGWGCACT ------TGMYCTTTGBCCK------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TGGAGCACTGTGACAcCACAGTGg Combined Motif Original Motif Original Motif CMRYKCTGCHCTKTSDCCACWGTGGWGCACT TGGAGCACTGTGACAVCACAGTGG CYRBWSYACTSTGWCACCACAGTGGWGCACT Direction: Forward Position #: 2 Overlap #: 24 Alignment: CMRYKCTGCHCTKTSDCCACWGTGGWGCACT -TGGAGCACTGTGACAVCACAGTGG------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Reverse Complement AGTGCWCCACTGTGGTGWCASAGTKSWBMMG GGYGCTGTCCATGGTGCTGAA GGHGYKSTCCAYKGTGCTGWHASAGTKSWBMMG Direction: Forward Position #: 3 Overlap #: 19 Alignment: --AGTGCWCCACTGTGGTGWCASAGTKSWBMMG GGYGCTGTCCATGGTGCTGAA------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TgTGgTGTCACAGTGCTCC Combined Motif Original Motif Reverse Complement GGHGYKSTCCAYKGTGCTGWHASAGTKSWBMMG GGAGCACTGTGACACCACA GGHGYGSWSCACTGTGMYRHCACAGTKSWBMMG Direction: Forward Position #: 6 Overlap #: 19 Alignment: GGHGYKSTCCAYKGTGCTGWHASAGTKSWBMMG -----GGAGCACTGTGACACCACA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Original Motif Original Motif GGHGYGSWSCACTGTGMYRHCACAGTKSWBMMG VDBHMAGGTCACCCTGACCY GVHVYRGRBCACBSTGACVYCACAGTKSWBMMG Direction: Forward Position #: 1 Overlap #: 20 Alignment: GGHGYGSWSCACTGTGMYRHCACAGTKSWBMMG VDBHMAGGTCACCCTGACCY------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Reverse Complement Reverse Complement CYRBWSYACTGTGMVGTCASVGTGVMCMKVDVC GTTGACCTTTGACCTTT WSYACTGTGMVGTCASVGTGVMCMKVDVCCTKBCYRBWSYACTGTGMVGTCASVGTGVMCMK Direction: Backward Position #: 30 Overlap #: 4 Alignment: -------------CYRBWSYACTGTGMVGTCASVGTGVMCMKVDVC -----------------------------GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 19 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- atactttggc wwCCAmAGTCmt Reverse Complement Original Motif GCCAAAGTAT DDCCAMAGTCHB DGCCAAAGTMTB Direction: Forward Position #: 2 Overlap #: 10 Alignment: -GCCAAAGTAT- DDCCAMAGTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- taaacgatgcc Combined Motif Reverse Complement Reverse Complement VAYACTTTGGCD GGCATCGTTTA VAYACTTTGGCATCGTTTA Direction: Forward Position #: 9 Overlap #: 4 Alignment: VAYACTTTGGCD------- --------GGCATCGTTTA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Reverse Complement Reverse Complement TAAACGATGCCAAAGTMTB GTTGACCTTTGACCTTT GCCAAAGTMTBTRAMCKWTTAAACGATGCC Direction: Backward Position #: 12 Overlap #: 8 Alignment: ---------TAAACGATGCCAAAGTMTB -----------GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TgTGgTGTCACAGTGCTCC Combined Motif Reverse Complement Reverse Complement GGCATCGTTTAAWYGYTKAVAYACTTTGGC GGAGCACTGTGACACCACA GGCATCGTTTAAWYGYTGRARCACTKTGRCACCACA Direction: Forward Position #: 18 Overlap #: 13 Alignment: GGCATCGTTTAAWYGYTKAVAYACTTTGGC------ -----------------GGAGCACTGTGACACCACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Original Motif TGTGGTGMCAYAGTGMTKCAMCKWTTAAACGATGCC CACTGTGRTRTCACAGTGSWSCACT CACTGTGGTGHCACAGTGCTBCAMYKWTTAAACGATGCC Direction: Forward Position #: 4 Overlap #: 22 Alignment: ---TGTGGTGMCAYAGTGMTKCAMCKWTTAAACGATGCC CACTGTGRTRTCACAGTGSWSCACT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Original Motif Reverse Complement CACTGTGGTGHCACAGTGCTBCAMYKWTTAAACGATGCC TGMYCTTTGBCCK TGMHCTKTGBYSBCACAGTGCTBCAMYKWTTAAACGATGCC Direction: Forward Position #: 3 Overlap #: 11 Alignment: --CACTGTGGTGHCACAGTGCTBCAMYKWTTAAACGATGCC TGMYCTTTGBCCK---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif TGMHCTKTGBYSBCACAGTGCTBCAMYKWTTAAACGATGCC TGAMCTTTGMMCYT TGAMCTTTGVHCHCACAGTGCTBCAMYKWTTAAACGATGCC Direction: Forward Position #: 1 Overlap #: 14 Alignment: TGMHCTKTGBYSBCACAGTGCTBCAMYKWTTAAACGATGCC TGAMCTTTGMMCYT--------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Original Motif TGAMCTTTGVHCHCACAGTGCTBCAMYKWTTAAACGATGCC TGGAGCACTGTGACAVCACAGTGG TGGWGMACTKTGACMHCACAGTGSTBCAMYKWTTAAACGATGCC Direction: Forward Position #: 4 Overlap #: 21 Alignment: ---TGAMCTTTGVHCHCACAGTGCTBCAMYKWTTAAACGATGCC TGGAGCACTGTGACAVCACAGTGG-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Original Motif Original Motif TGGWGMACTKTGACMHCACAGTGSTBCAMYKWTTAAACGATGCC AGTGCTCCACTGTGGTGTCACAGT AGTGSTSCACTGTGVYRTCACAGTGSTBCAMYKWTTAAACGATGCC Direction: Forward Position #: 3 Overlap #: 22 Alignment: --TGGWGMACTKTGACMHCACAGTGSTBCAMYKWTTAAACGATGCC AGTGCTCCACTGTGGTGTCACAGT---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CAcCACAGTGGAGCAct Original Motif Reverse Complement AGTGSTSCACTGTGVYRTCACAGTGSTBCAMYKWTTAAACGATGCC AGTGCTCCACTGTGDTG AGTGCTCCACTGTGVTGTCACAGTGSTBCAMYKWTTAAACGATGCC Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGTGSTSCACTGTGVYRTCACAGTGSTBCAMYKWTTAAACGATGCC AGTGCTCCACTGTGDTG----------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 NR1H2RXRA Original Motif Original Motif AAGGTCAC AAAGGTCAAAGGTCAAC AGGTCAACAAGGTCAMA Direction: Backward Position #: 9 Overlap #: 8 Alignment: -AAGGTCAC-------- AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Original Motif Reverse Complement AGGTCAACAAGGTCAMA MGGTCAGGGTGACCTRDBHV AGGTCARSRWGRYCWVVBHV Direction: Forward Position #: 1 Overlap #: 17 Alignment: AGGTCAACAAGGTCAMA--- MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR2 Original Motif Reverse Complement AGGTCARSRWGRYCWVVBHV BAGGYCABHBTGACCKHV BAGGTCAVBVTGRCCDDVBHV Direction: Forward Position #: 2 Overlap #: 17 Alignment: -AGGTCARSRWGRYCWVVBHV BAGGYCABHBTGACCKHV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Reverse Complement Reverse Complement VDBVDDGGKCAVBBTGACCTB TGRCCTKTGHCCKAB TVVCCTDKGBCMBVBTGACCTB Direction: Forward Position #: 2 Overlap #: 14 Alignment: -VDBVDDGGKCAVBBTGACCTB TGRCCTKTGHCCKAB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CACTGTGrYrtCACAGTGswsCAcT Combined Motif Original Motif Reverse Complement TVVCCTDKGBCMBVBTGACCTB AGTGSWSCACTGTGAMAMCACAGTG TVVMVTGKDBCACTGTGACMHCACAGTG Direction: Forward Position #: 4 Overlap #: 19 Alignment: TVVCCTDKGBCMBVBTGACCTB------ ---AGTGSWSCACTGTGAMAMCACAGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif TVVMVTGKDBCACTGTGACMHCACAGTG TGAMCTTTGMMCYT TGAMCTKTGVCMHTGTGACMHCACAGTG Direction: Forward Position #: 1 Overlap #: 14 Alignment: TVVMVTGKDBCACTGTGACMHCACAGTG TGAMCTTTGMMCYT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- REST Combined Motif Reverse Complement Reverse Complement CACTGTGHRGTCACADRGVCARAGYTCA GGYGCTGTCCATGGTGCTGAA CACKGTGCKGTCMHHGGKVCWRARYTCA Direction: Forward Position #: 4 Overlap #: 21 Alignment: CACTGTGHRGTCACADRGVCARAGYTCA ---GGYGCTGTCCATGGTGCTGAA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Reverse Complement CACKGTGCKGTCMHHGGKVCWRARYTCA CCACTGTGVTGTCACAGTGCTCCA CCACTGTGVTGTCACAGKKSYHVARYTCA Direction: Forward Position #: 2 Overlap #: 23 Alignment: -CACKGTGCKGTCMHHGGKVCWRARYTCA CCACTGTGVTGTCACAGTGCTCCA----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AmTGTGACACCACAGT Reverse Complement Reverse Complement TGAMMTVDMSYRCTGTGACAVCACAGTGG ACTGTGGTGTCACART ACTGWVVTGTCACAVTGTGACAVCACAGTGG Direction: Forward Position #: 3 Overlap #: 14 Alignment: --TGAMMTVDMSYRCTGTGACAVCACAGTGG ACTGTGGTGTCACART--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TgTGgTGTCACAGTGCTCC Combined Motif Original Motif Reverse Complement ACTGWVVTGTCACAVTGTGACAVCACAGTGG GGAGCACTGTGACACCACA ACTGWVGKRKCACWGTGWSACMACACAGTGG Direction: Forward Position #: 7 Overlap #: 19 Alignment: ACTGWVVTGTCACAVTGTGACAVCACAGTGG ------GGAGCACTGTGACACCACA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 NR2F1 Reverse Complement Original Motif TGACCTTGMBBB TGAMCTTTGMMCYT WSMYYTKRMCHBTG Direction: Backward Position #: 1 Overlap #: 12 Alignment: --TGACCTTGMBBB TGAMCTTTGMMCYT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Original Motif CAVDGYMYAKKRSW BTRGGDCARAGGKCA CVHRGBVCADRGGTCA Direction: Forward Position #: 2 Overlap #: 13 Alignment: CAVDGYMYAKKRSW-- -BTRGGDCARAGGKCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Reverse Complement TGACCKHTGVBCMHBG TGMYCTTTGBCCK TGVCCTTTGBHCBHBG Direction: Forward Position #: 1 Overlap #: 13 Alignment: TGACCKHTGVBCMHBG TGMYCTTTGBCCK--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Original Motif Reverse Complement TGVCCTTTGBHCBHBG GTTGACCTTTGACCTTT GTTGACCTTTGACCTDTG Direction: Forward Position #: 3 Overlap #: 15 Alignment: --TGVCCTTTGBHCBHBG GTTGACCTTTGACCTTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Original Motif Reverse Complement GTTGACCTTTGACCTDTG MGGTCAGGGTGACCTRDBHV VKKKMMSKBTGACCTDBGHV Direction: Forward Position #: 1 Overlap #: 18 Alignment: GTTGACCTTTGACCTDTG-- MGGTCAGGGTGACCTRDBHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Reverse Complement Reverse Complement VDCVHAGGTCAVRSYRYYRV BAGGYCABHBTGACCKHV VDCVHAGGTCAVVBTGHCVBHV Direction: Forward Position #: 5 Overlap #: 16 Alignment: VDCVHAGGTCAVRSYRYYRV-- ----BAGGYCABHBTGACCKHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- REST Combined Motif Reverse Complement Original Motif VHBVGHCABBVTGACCTDBGHV TTCAGCACCATGGACAGCKCC VDYCRGCACCDTGRMCWGBGVC Direction: Forward Position #: 2 Overlap #: 21 Alignment: VHBVGHCABBVTGACCTDBGHV -TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TgTGgTGTCACAGTGCTCC Original Motif Original Motif VDYCRGCACCDTGRMCWGBGVC TGTGGTGTCACAGTGCTCC TGYKBYGTCACMGTGVHCMGBGVC Direction: Forward Position #: 3 Overlap #: 17 Alignment: --VDYCRGCACCDTGRMCWGBGVC TGTGGTGTCACAGTGCTCC----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Reverse Complement TGYKBYGTCACMGTGVHCMGBGVC CCACTGTGVTGTCACAGTGCTCCA CCACTGTGBTGTCACAGTGCTCCRBGVC Direction: Forward Position #: 5 Overlap #: 20 Alignment: ----TGYKBYGTCACMGTGVHCMGBGVC CCACTGTGVTGTCACAGTGCTCCA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Original Motif GVCBKGGAGCACTGTGACABCACAGTGG CACTGTGRTRTCACAGTGSWSCACT CACTGTBDTGKMRCASTGYKVCACYACAGTGG Direction: Forward Position #: 5 Overlap #: 21 Alignment: ----GVCBKGGAGCACTGTGACABCACAGTGG CACTGTGRTRTCACAGTGSWSCACT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 1 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF4A PPARGRXRA Reverse Complement Reverse Complement TGMYCTTTGBCCK TGRCCTKTGHCCKAB ABTGACCTTTGBCCK Direction: Backward Position #: 3 Overlap #: 13 Alignment: TGMYCTTTGBCCK-- TGRCCTKTGHCCKAB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Reverse Complement Reverse Complement RGGBCAAAGGTCABT AKGYYCAAAGRTCA ARGBBCAAAGGTCABT Direction: Forward Position #: 2 Overlap #: 13 Alignment: -RGGBCAAAGGTCABT AKGYYCAAAGRTCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Reverse Complement ABTGACCTTTGVBCMT GTTGACCTTTGACCTTT VBTGACCTTTGACCHTT Direction: Forward Position #: 1 Overlap #: 16 Alignment: ABTGACCTTTGVBCMT- GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Reverse Complement Reverse Complement AAHGGTCAAAGGTCAVV AGTGSWSCACTGTGAMAMCACAGTG ARTGGWSMAMKGTSAMMMCACAGTG Direction: Forward Position #: 1 Overlap #: 17 Alignment: AAHGGTCAAAGGTCAVV-------- AGTGSWSCACTGTGAMAMCACAGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Reverse Complement Reverse Complement CACTGTGRYRTSACYYTYSWCCAMT CCACTGTGVTGTCACAGTGCTCCA CCACTGTGVTGTCACHBTBSWCCAMT Direction: Forward Position #: 2 Overlap #: 23 Alignment: -CACTGTGRYRTSACYYTYSWCCAMT CCACTGTGVTGTCACAGTGCTCCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Reverse Complement Original Motif ARTGGWSBABHGTGACAVCACAGTGG VHRGGTCABDBTGMCCTB AVWGGRKCABHGTGACMHCACAGTGG Direction: Forward Position #: 2 Overlap #: 18 Alignment: ARTGGWSBABHGTGACAVCACAGTGG -VHRGGTCABDBTGMCCTB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TgTGgTGTCACAGTGCTCC Original Motif Original Motif AVWGGRKCABHGTGACMHCACAGTGG TGTGGTGTCACAGTGCTCC TRBKGKGTCACAGTGMYCCCACAGTGG Direction: Forward Position #: 2 Overlap #: 18 Alignment: -AVWGGRKCABHGTGACMHCACAGTGG TGTGGTGTCACAGTGCTCC-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Reverse Complement CCACTGTGGGMRCACTGTGACRCYVKA MGGTCAGGGTGACCTRDBHV CMRSTSWGGGWGMMCTGTGVCRCYVKA Direction: Forward Position #: 2 Overlap #: 20 Alignment: CCACTGTGGGMRCACTGTGACRCYVKA -MGGTCAGGGTGACCTRDBHV------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- REST Combined Motif Original Motif Original Motif CMRSTSWGGGWGMMCTGTGVCRCYVKA TTCAGCACCATGGACAGCKCC CMRSTSWGGGWGMMCTBYRGCACCABRGACAGCKCC Direction: Forward Position #: 16 Overlap #: 12 Alignment: CMRSTSWGGGWGMMCTGTGVCRCYVKA--------- ---------------TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AgTGCTCCACTGTGgTGTCACAgT Combined Motif Reverse Complement Reverse Complement GGYGCTGTCMVTGGTGCKKVAGYRCWCCCWSASKRG ACTGTGACACCACAGTGGAGCACT GGYGCTGTCMVTGGTGCKDVWGTGMCMCCACAGTGGAGCACT Direction: Forward Position #: 19 Overlap #: 18 Alignment: GGYGCTGTCMVTGGTGCKKVAGYRCWCCCWSASKRG------ ------------------ACTGTGACACCACAGTGGAGCACT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CTCF Original Motif Original Motif GGYGCTGTCMVTGGTGCKDVWGTGMCMCCACAGTGGAGCACT YDRCCASYAGRKGGCRSYV BGVSCWSTMGRKGGYRCBVVWGTGMCMCCACAGTGGAGCACT Direction: Forward Position #: 1 Overlap #: 19 Alignment: GGYGCTGTCMVTGGTGCKDVWGTGMCMCCACAGTGGAGCACT YDRCCASYAGRKGGCRSYV----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 12 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RORA_1 Esrrb Original Motif Original Motif AWVDAGGTCA VBBYCAAGGTCA DTCAAGGTCAVB Direction: Backward Position #: 1 Overlap #: 10 Alignment: --AWVDAGGTCA VBBYCAAGGTCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Original Motif Original Motif DTCAAGGTCAVB VDBHMAGGTCACCCTGACCY VDBCHAGGTCAVBCTGACCY Direction: Forward Position #: 2 Overlap #: 12 Alignment: -DTCAAGGTCAVB------- VDBHMAGGTCACCCTGACCY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Original Motif Reverse Complement VDBCHAGGTCAVBCTGACCY GTTGACCTTTGACCTTT VDBCHAGGTCAVBYTGACCTTTGACCTTT Direction: Forward Position #: 13 Overlap #: 8 Alignment: VDBCHAGGTCAVBCTGACCY--------- ------------GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Reverse Complement Reverse Complement AAAGGTCAAAGGTCAMBVTGACCTHGVDV AKGYYCAAAGRTCA AARGGTCAAAGGTCAMBVTGACCTHGVDV Direction: Forward Position #: 2 Overlap #: 14 Alignment: AAAGGTCAAAGGTCAMBVTGACCTHGVDV -AKGYYCAAAGRTCA-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Original Motif Original Motif AARGGTCAAAGGTCAMBVTGACCTHGVDV BTRGGDCARAGGKCA VDRGGKCAAAGGTCAMBVTGACCTHGVDV Direction: Forward Position #: 1 Overlap #: 15 Alignment: AARGGTCAAAGGTCAMBVTGACCTHGVDV BTRGGDCARAGGKCA-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif VDRGGKCAAAGGTCAMBVTGACCTHGVDV TTCAGCACCATGGACAGCKCC THCAGSACMAHGGWCAGCDYSACCTHGVDV Direction: Forward Position #: 2 Overlap #: 20 Alignment: -VDRGGKCAAAGGTCAMBVTGACCTHGVDV TTCAGCACCATGGACAGCKCC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF4A Combined Motif Reverse Complement Original Motif VDBCHAGGTSMHGCTGWCCHTYGTSCTGHA RGGBCAAAGKYCA VDBCHAGGKBMARMKGHCMHTYGTSCTGHA Direction: Forward Position #: 7 Overlap #: 13 Alignment: VDBCHAGGTSMHGCTGWCCHTYGTSCTGHA ------RGGBCAAAGKYCA----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TgTGgTGTCACAGTGCTCC Original Motif Original Motif VDBCHAGGKBMARMKGHCMHTYGTSCTGHA TGTGGTGTCACAGTGCTCC ACAGTGCTCCWRHGGTSYCVDBCHAGGKBMARMKGHCMHT Direction: Backward Position #: 11 Overlap #: 9 Alignment: VDBCHAGGKBMARMKGHCMHTYGTSCTGHA---------- ---------------------TGTGGTGTCACAGTGCTCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwCCAmAGTCmt Combined Motif Reverse Complement Reverse Complement AHRGHCRYKTRBRCCTHGVDVGMSACCHMWGGAGCACTGT VDGACTRTGGDD AHDGACDDTKGBDCCTHGVDVGMSACCHMWGGAGCACTGT Direction: Forward Position #: 2 Overlap #: 12 Alignment: AHRGHCRYKTRBRCCTHGVDVGMSACCHMWGGAGCACTGT -VDGACTRTGGDD--------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Original Motif Original Motif AHDGACDDTKGBDCCTHGVDVGMSACCHMWGGAGCACTGT VHRGGTCABDBTGMCCTB AHDGACDVTRGGTCMBBBHGHBMBVCCHMWGGAGCACTGT Direction: Forward Position #: 8 Overlap #: 18 Alignment: AHDGACDDTKGBDCCTHGVDVGMSACCHMWGGAGCACTGT -------VHRGGTCABDBTGMCCTB--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 Myc Reverse Complement Reverse Complement GCCACGTGSD DCCACGTGCV GCCACGTGSV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GCCACGTGSD DCCACGTGCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sscCCCGCGcs Reverse Complement Reverse Complement VSCACGTGGC SBCGCGGGGSB VSCRCGKGGVB Direction: Forward Position #: 1 Overlap #: 10 Alignment: VSCACGTGGC- SBCGCGGGGSB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CTCF Reverse Complement Original Motif BVCCYCGMGSV YDRCCASYAGRKGGCRSYV YBVCCHCGAGVKGGCRSYV Direction: Forward Position #: 2 Overlap #: 11 Alignment: -BVCCYCGMGSV------- YDRCCASYAGRKGGCRSYV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCCCCGCSssk Combined Motif Reverse Complement Original Motif BMSMGCCYVCTCGHGGVBM SBCCCCGCCSBB BMSVSCCCGCYSSBGGVBM Direction: Forward Position #: 3 Overlap #: 12 Alignment: BMSMGCCYVCTCGHGGVBM --SBCCCCGCCSBB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACTGTGrYrtCACAGTGswsCAcT Original Motif Original Motif BMSVSCCCGCYSSBGGVBM CACTGTGRTRTCACAGTGSWSCACT CACTGTGRTRTCACAGTVSHSCMCKCYSSBGGVBM Direction: Forward Position #: 17 Overlap #: 9 Alignment: ----------------BMSVSCCCGCYSSBGGVBM CACTGTGRTRTCACAGTGSWSCACT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Original Motif Reverse Complement CACTGTGRTRTCACAGTVSHSCMCKCYSSBGGVBM MGGTCAGGGTGACCTRDBHV CACTGTGVKGTCACRGTGVCCYVBBCBSSBGGVBM Direction: Forward Position #: 8 Overlap #: 20 Alignment: CACTGTGRTRTCACAGTVSHSCMCKCYSSBGGVBM -------MGGTCAGGGTGACCTRDBHV-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Original Motif Reverse Complement CACTGTGVKGTCACRGTGVCCYVBBCBSSBGGVBM ABCACAGTGGAGCACTG ABCACWGTGRAGYMMBRGTGVCCYVBBCBSSBGGVBM Direction: Forward Position #: 3 Overlap #: 15 Alignment: --CACTGTGVKGTCACRGTGVCCYVBBCBSSBGGVBM ABCACAGTGGAGCACTG-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Original Motif YBVCCVSSBGBBBKGGBCACMVYRKCTMCACWGTGBT RGGBCAAAGKYCA RKBBCMAVGKBCVBKGGBCACMVYRKCTMCACWGTGBT Direction: Forward Position #: 2 Overlap #: 12 Alignment: -YBVCCVSSBGBBBKGGBCACMVYRKCTMCACWGTGBT RGGBCAAAGKYCA------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AgTGCTCCACTGTGgTGTCACAgT Reverse Complement Original Motif ABCACWGTGRAGYMMBRGTGVCCYVBGBYCBTRGBBYK AGTGCTCCACTGTGGTGTCACAGT AGTGCWCCACTGTGGTGTCACAGTGVCCYVBGBYCBTRGBBYK Direction: Forward Position #: 6 Overlap #: 19 Alignment: -----ABCACWGTGRAGYMMBRGTGVCCYVBGBYCBTRGBBYK AGTGCTCCACTGTGGTGTCACAGT------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Reverse Complement RKBBCMAVGKBCVBKGGBCACTGTGACACCACAGTGGWGCACT TGRCCTKTGHCCKAB DGVCCHDTGBBCDHBGGBCACTGTGACACCACAGTGGWGCACT Direction: Forward Position #: 1 Overlap #: 15 Alignment: RKBBCMAVGKBCVBKGGBCACTGTGACACCACAGTGGWGCACT TGRCCTKTGHCCKAB---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 Mycn Original Motif Original Motif VGCACGTGGH HSCACGTGGC VSCACGTGGC Direction: Backward Position #: 1 Overlap #: 10 Alignment: VGCACGTGGH HSCACGTGGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sscCCCGCGcs Original Motif Reverse Complement VSCACGTGGC SBCGCGGGGSB VSCRCGKGGVB Direction: Forward Position #: 1 Overlap #: 10 Alignment: VSCACGTGGC- SBCGCGGGGSB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCCCCGCSssk Reverse Complement Original Motif BVCCYCGMGSV SBCCCCGCCSBB SBCCCCGCSSBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BVCCYCGMGSV- SBCCCCGCCSBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CTCF Combined Motif Original Motif Reverse Complement SBCCCCGCSSBB BMSMGCCYMCTKSTGGMHM SBYCSCGCCCVCTKSTGGMHM Direction: Forward Position #: 3 Overlap #: 10 Alignment: SBCCCCGCSSBB--------- --BMSMGCCYMCTKSTGGMHM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CACTGTGrYrtCACAGTGswsCAcT Combined Motif Original Motif Reverse Complement SBYCSCGCCCVCTKSTGGMHM AGTGSWSCACTGTGAMAMCACAGTG SBYMSYGCHSCMYTGTGRMMMCACAGTG Direction: Forward Position #: 4 Overlap #: 18 Alignment: SBYCSCGCCCVCTKSTGGMHM------- ---AGTGSWSCACTGTGAMAMCACAGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Original Motif Reverse Complement SBYMSYGCHSCMYTGTGRMMMCACAGTG TGMYCTTTGBCCK BGVHSTKYVBCCBTGTGRMMMCACAGTG Direction: Forward Position #: 1 Overlap #: 13 Alignment: SBYMSYGCHSCMYTGTGRMMMCACAGTG TGMYCTTTGBCCK--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Original Motif Original Motif BGVHSTKYVBCCBTGTGRMMMCACAGTG VDBHMAGGTCACCCTGACCY BBVHCDGGBCMCBBKKRCCHMCACAGTG Direction: Forward Position #: 1 Overlap #: 20 Alignment: BGVHSTKYVBCCBTGTGRMMMCACAGTG VDBHMAGGTCACCCTGACCY-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CagTGCTCCACTGTGgT Reverse Complement Reverse Complement CACTGTGYDGGMYRVBGYGVCCDGDVBB ABCACAGTGGAGCACTG ABCACWGTGBAGCACDVBGYGVCCDGDVBB Direction: Forward Position #: 3 Overlap #: 15 Alignment: --CACTGTGYDGGMYRVBGYGVCCDGDVBB ABCACAGTGGAGCACTG------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR2 Reverse Complement Reverse Complement BBVHCDGGBCMCBVDGTGCTBCACWGTGBT BAGGYCABHBTGACCKHV BVGBHHRBBBWGHCHKTVCTBCACWGTGBT Direction: Forward Position #: 1 Overlap #: 18 Alignment: BBVHCDGGBCMCBVDGTGCTBCACWGTGBT BAGGYCABHBTGACCKHV------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TGGAGCACTGTGACAcCACAGTGg Original Motif Reverse Complement BVGBHHRBBBWGHCHKTVCTBCACWGTGBT CCACTGTGVTGTCACAGTGCTCCA CCASTBTGBTGTCACAGTGCTCCACWGTGBT Direction: Forward Position #: 2 Overlap #: 23 Alignment: -BVGBHHRBBBWGHCHKTVCTBCACWGTGBT CCACTGTGVTGTCACAGTGCTCCA------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 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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