**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.2 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 4 Number of top significant motifs: 10 Number of best matches: 10 Similarity cutoff: >= 0.75 Matching motif database: UniProbe Mus Musculus Motif tree: Yes Combined similar motifs: Yes Output file type: All Output file format: All Input files and motif counts File name Count of motifs Dataset # DREME_DM721.txt 16 1 MEME-ChIP_DM721.txt 11 2 PScanChIP_DM721.txt 37 3 RSAT_peak-motifs_DM721.txt 40 4 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ************************************************************ Combined Motifs for Top Global Significant Motif ID 18 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 18 Motif 2 Original Motif Original Motif AMACA CACACACA CACAMACA Direction: Backward Position #: 1 Overlap #: 5 Alignment: ---AMACA CACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Original Motif CACAMACA CACACACACACA CACACACACACA Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACAMACA---- CACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Original Motif CACACACACACA CACACACACACA CACACACACACA Direction: Forward Position #: 1 Overlap #: 12 Alignment: CACACACACACA CACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Reverse Complement Reverse Complement TGTGTGTGTGTG TTGTTTTGTTT TBKKTKTGTKTG Direction: Forward Position #: 1 Overlap #: 11 Alignment: TGTGTGTGTGTG TTGTTTTGTTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Reverse Complement TBKKTKTGTKTG HTGTTTTTGHH TBGTTTTKKDTG Direction: Forward Position #: 1 Overlap #: 11 Alignment: TBKKTKTGTKTG HTGTTTTTGHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ryayAyAyrtGTRTrTry Original Motif Reverse Complement TBGTTTTKKDTG HDAMACACAKKTKTKTHD HDAMACACAKKTKTKKDTTTKKDTG Direction: Forward Position #: 14 Overlap #: 5 Alignment: -------------TBGTTTTKKDTG HDAMACACAKKTKTKTHD------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wrTGTATACAyw Original Motif Reverse Complement HDAMACACAKKTKTKKDTTTKKDTG DHTGTATACADH DHTRYAYACAKDTKTKKDTTTKKDTG Direction: Forward Position #: 2 Overlap #: 11 Alignment: -HDAMACACAKKTKTKKDTTTKKDTG DHTGTATACADH-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Original Motif CADYRAAADYRAYADRTGTMTMMAHD AAAASAAA MAAMVAAADYRAYADRTGTMTMMAHD Direction: Forward Position #: 1 Overlap #: 8 Alignment: CADYRAAADYRAYADRTGTMTMMAHD AAAASAAA------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- tyTCTkTkTCyy Combined Motif Reverse Complement Original Motif DHTRYAYACAKDTKTKKDTTTVYTTY BBTCTKTKTCHB DHTRYAHAYMTKTKTCBHTTTVYTTY Direction: Forward Position #: 7 Overlap #: 12 Alignment: DHTRYAYACAKDTKTKKDTTTVYTTY ------BBTCTKTKTCHB-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 30 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ZEB1 ccCCmCACCcc Original Motif Original Motif CACCTD HBCCMCACCHH HBCCMCACCTB Direction: Backward Position #: 1 Overlap #: 6 Alignment: -----CACCTD HBCCMCACCHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rrAGGGGGArr Reverse Complement Original Motif BAGGTGRGGBD VVAGGGGGAVV VVRGKGGGRDV Direction: Forward Position #: 1 Overlap #: 11 Alignment: BAGGTGRGGBD VVAGGGGGAVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yayAyAyACATrya Combined Motif Reverse Complement Reverse Complement VHKCCCYCKBV DHKATGTKTKTGTD VHKCCCYCKAYGTKTKTGTD Direction: Forward Position #: 7 Overlap #: 5 Alignment: VHKCCCYCKBV--------- ------DHKATGTKTKTGTD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ryayAyAyrtGTRTrTry Reverse Complement Original Motif HACAYAYACMTRGMGGGYDV DHAYAYAYRTGTGTRTDH DHAYAYAYAYVTRKRKGGYDV Direction: Forward Position #: 2 Overlap #: 17 Alignment: -HACAYAYACMTRGMGGGYDV DHAYAYAYRTGTGTRTDH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrTGTGCACAyr Original Motif Original Motif DHAYAYAYAYVTRKRKGGYDV BVTGTGCACABV BVTRTRCACAYVTRKRKGGYDV Direction: Forward Position #: 2 Overlap #: 11 Alignment: -DHAYAYAYAYVTRKRKGGYDV BVTGTGCACABV---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCGCCsCCrCCCss Reverse Complement Original Motif VHKCCYKRMAVKTGTGKAMABV SSCGCCSCCGCCCSS SSCVCBCCCKVCMVBTGTGKAMABV Direction: Forward Position #: 4 Overlap #: 12 Alignment: ---VHKCCYKRMAVKTGTGKAMABV SSCGCCSCCGCCCSS---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Original Motif Original Motif SSCVCBCCCKVCMVBTGTGKAMABV CYBCCTCC CYBCCYCCCCKVCMVBTGTGKAMABV Direction: Forward Position #: 2 Overlap #: 7 Alignment: -SSCVCBCCCKVCMVBTGTGKAMABV CYBCCTCC------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wsAGCTACwy Original Motif Original Motif CYBCCYCCCCKVCMVBTGTGKAMABV DVAGCTACHB DVAGCTACHBCCCCKVCMVBTGTGKAMABV Direction: Forward Position #: 5 Overlap #: 6 Alignment: ----CYBCCYCCCCKVCMVBTGTGKAMABV DVAGCTACHB-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCrCYyYCGss Combined Motif Reverse Complement Reverse Complement BVTRTRCACABVRGVYGGGGVDGTAGCTVD BBCGGKGGMGBB BVTRTRCACABVCGGBGGSGVVGTAGCTVD Direction: Forward Position #: 11 Overlap #: 12 Alignment: BVTRTRCACABVRGVYGGGGVDGTAGCTVD ----------BBCGGKGGMGBB-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGsCwsCss Combined Motif Reverse Complement Reverse Complement DVAGCTACVVCSCCBCCGVBTGTGKAMABV BBGSWGSCGBB DVAGCTACVVCGCHGSCGVBTGTGKAMABV Direction: Forward Position #: 10 Overlap #: 11 Alignment: DVAGCTACVVCSCCBCCGVBTGTGKAMABV ---------BBGSWGSCGBB---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 7 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 tyTCTkTkTCyy Reverse Complement Original Motif TTCTSTST BBTCTKTKTCHB BTTCTSTBTCHB Direction: Backward Position #: 4 Overlap #: 8 Alignment: -TTCTSTST--- BBTCTKTKTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Reverse Complement BTTCTSTBTCHB TTGTTTTGTTT BTKYTTTGTYTB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BTTCTSTBTCHB TTGTTTTGTTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rmACAGCAGsr Original Motif Reverse Complement BTKYTTTGTYTB DVCTGCTGTVB BBSTKYTGTBHB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BTKYTTTGTYTB DVCTGCTGTVB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement BBSTKYTGTBHB TGTGTGTGTGTG TBTKTSTGTGTB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBSTKYTGTBHB TGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement TBTKTSTGTGTB TGTGTGTGTGTG TGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TBTKTSTGTGTB TGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Original Motif Reverse Complement TGTGTGTGTGTG TTTTTTTTTTT TKTKTKTKTKTG Direction: Forward Position #: 1 Overlap #: 11 Alignment: TGTGTGTGTGTG TTTTTTTTTTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 26 Original Motif Original Motif TKTKTKTKTKTG TKKTTTGTTTTTTT TKKTTTGTTTTTTTTKTKTKTG Direction: Forward Position #: 11 Overlap #: 4 Alignment: ----------TKTKTKTKTKTG TKKTTTGTTTTTTT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 27 Combined Motif Original Motif Reverse Complement TKKTTTGTTTTTTTTKTKTKTG TGTGTGTGTGTKTG TTKTKTGTKTKTKTKKTKTKTG Direction: Forward Position #: 2 Overlap #: 14 Alignment: TKKTTTGTTTTTTTTKTKTKTG -TGTGTGTGTGTKTG------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 25 Combined Motif Reverse Complement Original Motif CAYARARYARAYAYACAYAYAA CACACAVRCACACA CAYARARCAVACABACACACAA Direction: Forward Position #: 8 Overlap #: 14 Alignment: CAYARARYARAYAYACAYAYAA -------CACACAVRCACACA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 21 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 21 Motif 15 Original Motif Reverse Complement ATKTM CATTTKC CATTTBC Direction: Backward Position #: 2 Overlap #: 5 Alignment: -ATKTM- CATTTKC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Original Motif Reverse Complement CATTTBC TATRTA YATDTAC Direction: Forward Position #: 1 Overlap #: 6 Alignment: CATTTBC TATRTA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTTAww Original Motif Original Motif YATDTAC DHATTTTTADD DHATTTWYADD Direction: Forward Position #: 2 Overlap #: 7 Alignment: -YATDTAC--- DHATTTTTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wyATTTTAww Original Motif Original Motif DHATTTWYADD DHATTTTADD DHATTTTHADD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHATTTWYADD DHATTTTADD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif tyTCTkTkTCyy Reverse Complement Reverse Complement DDTHAAAATHD VHGARAYAGAVV HHKAAAHAKAHV Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDTHAAAATHD- VHGARAYAGAVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif twTACATAvw Reverse Complement Reverse Complement BHTRTHTTTYHH DBTATGTAHH HBTATGTWHHHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: BHTRTHTTTYHH DBTATGTAHH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAAwAww Original Motif Reverse Complement HBTATGTWHHHH HHTWTTTADD HHTATTTAHHHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: HBTATGTWHHHH HHTWTTTADD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwWAAAAAwa Original Motif Reverse Complement HHTATTTAHHHH HWTTTTTTWW HHTWTTTWWHHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHTATTTAHHHH HWTTTTTTWW-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Reverse Complement Original Motif HHHWWAAAWAHH HVCATGCATGCABD HVCATGCATGCAHDWAAAWAHH Direction: Forward Position #: 11 Overlap #: 4 Alignment: ----------HHHWWAAAWAHH HVCATGCATGCABD-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wrTGTATACAyw Reverse Complement Original Motif HHTWTTTWDHTGCATGCATGBH HDTGTATACAHD HDTKTWTAHATDCATGCATGBH Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHTWTTTWDHTGCATGCATGBH HDTGTATACAHD---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 4 EWSR1-FLI1 Reverse Complement Original Motif GGAGGVMG GGAAGGAAGGAAGGAAGG GGAAGGRAGGAAGGAAGG Direction: Backward Position #: 6 Overlap #: 8 Alignment: -----GGAGGVMG----- GGAAGGAAGGAAGGAAGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Reverse Complement Original Motif CCTTCCTTCCTMCCTTCC CCCCKCCCCC CCTTCCYYCCYCCCTTCC Direction: Forward Position #: 5 Overlap #: 10 Alignment: CCTTCCTTCCTMCCTTCC ----CCCCKCCCCC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rrAGGGGGArr Original Motif Reverse Complement CCTTCCYYCCYCCCTTCC VVTCCCCCTVV CCTYCCCCTCYCCCTTCC Direction: Forward Position #: 1 Overlap #: 11 Alignment: CCTTCCYYCCYCCCTTCC VVTCCCCCTVV------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGCCsCCrCCCss Combined Motif Reverse Complement Reverse Complement GGAAGGGKGAGGGGKAGG SSGGGCGGSGGCGSS GGARGGVGGVGGSGKAGG Direction: Forward Position #: 2 Overlap #: 15 Alignment: GGAAGGGKGAGGGGKAGG -SSGGGCGGSGGCGSS-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Combined Motif Original Motif Original Motif GGARGGVGGVGGSGKAGG DGGGYGKGGC GGADGGGBGBGGSGKAGG Direction: Forward Position #: 4 Overlap #: 10 Alignment: GGARGGVGGVGGSGKAGG ---DGGGYGKGGC----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCrCYyYCGss Combined Motif Original Motif Reverse Complement GGADGGGBGBGGSGKAGG BBCGGKGGMGBB GGAVGSGKGGGSGGBAGG Direction: Forward Position #: 4 Overlap #: 12 Alignment: GGADGGGBGBGGSGKAGG ---BBCGGKGGMGBB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGsCTCss Combined Motif Reverse Complement Original Motif CCTBCCSCCCYCSCVTCC VVCGSCTCBB CCTBCSCSCCTCSSVTCC Direction: Forward Position #: 5 Overlap #: 10 Alignment: CCTBCCSCCCYCSCVTCC ----VVCGSCTCBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MZF1_5-13 Combined Motif Original Motif Reverse Complement CCTBCSCSCCTCSSVTCC BTHCCCCTYB CCTBBBCCCCYYBBVTCC Direction: Forward Position #: 5 Overlap #: 10 Alignment: CCTBCSCSCCTCSSVTCC ----BTHCCCCTYB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Original Motif Original Motif CCTBBBCCCCYYBBVTCC CCCCMAAMCAMCCMCMMMCV CCCCMAAMCAMCCMCCCHCVBCCCCYYBBVTCC Direction: Forward Position #: 16 Overlap #: 5 Alignment: ---------------CCTBBBCCCCYYBBVTCC CCCCMAAMCAMCCMCMMMCV------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCACCcc Combined Motif Original Motif Original Motif CCCCMAAMCAMCCMCCCHCVBCCCCYYBBVTCC HBCCMCACCHH CCCCMAAMCAMCCMCCCHCVBCCCCACCBHTCC Direction: Forward Position #: 20 Overlap #: 11 Alignment: CCCCMAAMCAMCCMCCCHCVBCCCCYYBBVTCC -------------------HBCCMCACCHH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 2 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 CACACACACACA Original Motif Original Motif CACACACA CACACACACACA CACACACACACA Direction: Forward Position #: 3 Overlap #: 8 Alignment: --CACACACA-- CACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Reverse Complement Reverse Complement TGTGTGTGTGTG TGTGTGTGTGTG TGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGTGTG TGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Original Motif Reverse Complement TGTGTGTGTGTG TGTGTGTGTGTKTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGTGTG-- TGTGTGTGTGTKTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 25 Reverse Complement Original Motif CACACACACACACA CACACAVRCACACA CACACACACACACA Direction: Forward Position #: 1 Overlap #: 14 Alignment: CACACACACACACA CACACAVRCACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ryayAyAyrtGTRTrTry Reverse Complement Original Motif TGTGTGTGTGTGTG DHAYAYAYRTGTGTRTDH DTRTRYRTRTGTGTGTDH Direction: Forward Position #: 2 Overlap #: 14 Alignment: -TGTGTGTGTGTGTG--- DHAYAYAYRTGTGTRTDH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yayAyAyACATrya Reverse Complement Original Motif HDACACACAMAKMMAMAD HACAYAYACATRHD HVBACACACAYRBAMAMAD Direction: Forward Position #: 2 Overlap #: 13 Alignment: -HDACACACAMAKMMAMAD HACAYAYACATRHD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Original Motif HVBACACACAYRBAMAMAD HHCAAAAACAH HHCAMAMACAHRBAMAMAD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HVBACACACAYRBAMAMAD HHCAAAAACAH-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif twTACATAvw Original Motif Original Motif HHCAMAMACAHRBAMAMAD HHTACATAVD HHYACATACAHRBAMAMAD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHCAMAMACAHRBAMAMAD HHTACATAVD--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Original Motif Original Motif HHYACATACAHRBAMAMAD CCCCMAAMCAMCCMCMMMCV MCYMMAWACAMMHMCMMMBV Direction: Forward Position #: 1 Overlap #: 19 Alignment: HHYACATACAHRBAMAMAD- CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Reverse Complement Reverse Complement BBYRYGYDRRTGTWTRRKGR DVTGCATGCATGBH BVTGCRTGSATGTHTRRKGR Direction: Forward Position #: 1 Overlap #: 14 Alignment: BBYRYGYDRRTGTWTRRKGR DVTGCATGCATGBH------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 20 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 20 ssGCTswGCCms Original Motif Original Motif CTCTGY VBGCTSAGCCHB VBGCTCWGCCHB Direction: Forward Position #: 4 Overlap #: 6 Alignment: ---CTCTGY--- VBGCTSAGCCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Original Motif Reverse Complement VBGCTCWGCCHB TTCTSTST VTKCTCTGYCHB Direction: Forward Position #: 2 Overlap #: 8 Alignment: VBGCTCWGCCHB -TTCTSTST--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Original Motif Reverse Complement VTKCTCTGYCHB GTTGACCTTTGACCTTT GTTGACCTTTGACCTKYTCTGYCHB Direction: Forward Position #: 14 Overlap #: 4 Alignment: -------------VTKCTCTGYCHB GTTGACCTTTGACCTTT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Reverse Complement GTTGACCTTTGACCTKYTCTGYCHB TGRCCTKTGHCCKAB GTTGACCTTTGACCKDBTCTGYCHB Direction: Forward Position #: 3 Overlap #: 15 Alignment: GTTGACCTTTGACCTKYTCTGYCHB --TGRCCTKTGHCCKAB-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Reverse Complement Original Motif BDGMCAGABDRGGTCAAAGGTCAAC CCGCCGCC CCGCBGCCAGABDRGGTCAAAGGTCAAC Direction: Forward Position #: 4 Overlap #: 5 Alignment: ---BDGMCAGABDRGGTCAAAGGTCAAC CCGCCGCC-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCKCwsCGss Original Motif Reverse Complement CCGCBGCCAGABDRGGTCAAAGGTCAAC VBCGSWGCGVB VCCGSHGCSVSABDRGGTCAAAGGTCAAC Direction: Forward Position #: 2 Overlap #: 10 Alignment: -CCGCBGCCAGABDRGGTCAAAGGTCAAC VBCGSWGCGVB------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Reverse Complement Original Motif GTTGACCTTTGACCKDBTSBSGCHSCGGV TGAMCTTTGMMCYT TGAMCKTTGACCTTTGACCKDBTSBSGCHSCGGV Direction: Forward Position #: 6 Overlap #: 9 Alignment: -----GTTGACCTTTGACCKDBTSBSGCHSCGGV TGAMCTTTGMMCYT-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif tyTCTkTkTCyy Original Motif Reverse Complement TGAMCKTTGACCTTTGACCKDBTSBSGCHSCGGV VHGARAYAGAVV VHGARAYWGAMCKTTGACCTTTGACCKDBTSBSGCHSCGGV Direction: Forward Position #: 8 Overlap #: 5 Alignment: -------TGAMCKTTGACCTTTGACCKDBTSBSGCHSCGGV VHGARAYAGAVV----------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Reverse Complement VCCGSHGCSVSABDRGGTCAAAGGTCAARGRTCWKTKTCHB TGMYCTTTGBCCK TGVCCKBTGCSCBABDRGGTCAAAGGTCAARGRTCWKTKTCHB Direction: Forward Position #: 3 Overlap #: 11 Alignment: --VCCGSHGCSVSABDRGGTCAAAGGTCAARGRTCWKTKTCHB TGMYCTTTGBCCK------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Original Motif Reverse Complement TGVCCKBTGCSCBABDRGGTCAAAGGTCAARGRTCWKTKTCHB GCGGACGTTV GYGGMCGTTGCSCBABDRGGTCAAAGGTCAARGRTCWKTKTCHB Direction: Forward Position #: 2 Overlap #: 9 Alignment: -TGVCCKBTGCSCBABDRGGTCAAAGGTCAARGRTCWKTKTCHB GCGGACGTTV---------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 42 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ArntAhr Motif 27 Original Motif Reverse Complement YGCGTG TGTGTGTGTGTKTG TGTGTGTGYGTGTG Direction: Forward Position #: 7 Overlap #: 6 Alignment: ------YGCGTG-- TGTGTGTGTGTKTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement TGTGTGTGYGTGTG TGTGTGTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGYGTGTG TGTGTGTGTGTG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 25 Original Motif Reverse Complement TGTGTGTGTGTGTG TGTGTGKVTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 14 Alignment: TGTGTGTGTGTGTG TGTGTGKVTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Reverse Complement Original Motif CACACACACACACA HVCATGCATGCABD CACAYRCAYRCACA Direction: Forward Position #: 1 Overlap #: 14 Alignment: CACACACACACACA HVCATGCATGCABD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Original Motif CACAYRCAYRCACA CACACACACACA CACACACACACACA Direction: Forward Position #: 1 Overlap #: 12 Alignment: CACAYRCAYRCACA CACACACACACA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrTGTGCACAyr Original Motif Original Motif CACACACACACACA BVTGTGCACABV YAYRYRCACACACA Direction: Forward Position #: 1 Overlap #: 12 Alignment: CACACACACACACA BVTGTGCACABV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCACCcc Reverse Complement Reverse Complement TGTGTGTGMMMMTK DDGGTGRGGBD DGGGTGKGSVVMTK Direction: Forward Position #: 1 Overlap #: 11 Alignment: TGTGTGTGMMMMTK DDGGTGRGGBD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCGrGCGss Original Motif Original Motif DGGGTGKGSVVMTK VSCGRGCGBV BGSGKGCGSVVMTK Direction: Forward Position #: 1 Overlap #: 10 Alignment: DGGGTGKGSVVMTK VSCGRGCGBV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Original Motif Reverse Complement BGSGKGCGSVVMTK TGTGTGTG TGTGTGTGCGSVVMTK Direction: Forward Position #: 3 Overlap #: 6 Alignment: --BGSGKGCGSVVMTK TGTGTGTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssGMsGRGCGss Combined Motif Reverse Complement Reverse Complement YAYVVSCGCACACACA BBCGCCCSGCVV YAYVCGCVCVSCVVCA Direction: Forward Position #: 3 Overlap #: 12 Alignment: YAYVVSCGCACACACA --BBCGCCCSGCVV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 13 tyTCTkTkTCyy Original Motif Reverse Complement GAGRCAGR VHGARAYAGAVV VHGAGACAGAVV Direction: Forward Position #: 3 Overlap #: 8 Alignment: --GAGRCAGR-- VHGARAYAGAVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCGsCTCss Original Motif Reverse Complement VHGAGACAGAVV BBGAGSCGVV VVGAGRCRGRVV Direction: Forward Position #: 1 Overlap #: 10 Alignment: VHGAGACAGAVV BBGAGSCGVV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 14 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 14 Motif 27 Original Motif Original Motif GCRCACRC CAYACACACACACA CAYRCACACACACA Direction: Forward Position #: 4 Overlap #: 8 Alignment: ---GCRCACRC--- CAYACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Reverse Complement Reverse Complement TGTGTGTGTGMKTG TGTGTGTGTGTG TGTGTGTGTGHGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGTGMKTG TGTGTGTGTGTG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement TGTGTGTGTGHGTG TGTGTGTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGTGHGTG TGTGTGTGTGTG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Original Motif Original Motif TGTGTGTGTGTGTG DGGGYGKGGC TGKGTGTGKSTGTG Direction: Forward Position #: 1 Overlap #: 10 Alignment: TGTGTGTGTGTGTG DGGGYGKGGC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 25 Original Motif Reverse Complement TGKGTGTGKSTGTG TGTGTGKVTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 14 Alignment: TGKGTGTGKSTGTG TGTGTGKVTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Egr1 Combined Motif Reverse Complement Reverse Complement CACACACACACACA YCGCCCACGCH CACRCMCACRCACA Direction: Forward Position #: 2 Overlap #: 11 Alignment: CACACACACACACA -YCGCCCACGCH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCACCcc Reverse Complement Reverse Complement TGTGMGTGRGKGTG DDGGTGRGGBD DGKGTGKGGGDGTG Direction: Forward Position #: 1 Overlap #: 11 Alignment: TGTGMGTGRGKGTG DDGGTGRGGBD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrTGTGCACAyr Reverse Complement Reverse Complement CACHCCCYCACYCD BBTGTGCACAVV BBTGTGCACAVMCYCACYCD Direction: Forward Position #: 7 Overlap #: 6 Alignment: ------CACHCCCYCACYCD BBTGTGCACAVV-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCGrGCGss Reverse Complement Original Motif DGKGTGKGRVTGTGCACABV VSCGRGCGBV BGSGDGCGVVTGTGCACABV Direction: Forward Position #: 1 Overlap #: 10 Alignment: DGKGTGKGRVTGTGCACABV VSCGRGCGBV---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGCCsCCrCCCss Combined Motif Original Motif Reverse Complement BGSGDGCGVVTGTGCACABV SSGGGCGGSGGCGSS BGSGGGCGGSKGYGCACABV Direction: Forward Position #: 2 Overlap #: 15 Alignment: BGSGDGCGVVTGTGCACABV -SSGGGCGGSGGCGSS---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-19-2018 09:49:23 Runtime: 1032.94 seconds MOTIFSIM is written by Ngoc Tam L. 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