**************************************************************************************************************************************************************************************************** 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 # W-ChIPMotifs_DM230.txt 11 1 RSAT_peak-motifs_DM230.txt 10 2 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW1 TFW3 Original Motif Original Motif GTCGCG CGGCYBCGCG GBCGCGCGGC Direction: Backward Position #: 1 Overlap #: 6 Alignment: ----GTCGCG CGGCYBCGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Original Motif Reverse Complement GBCGCGCGGC SGGTCACGTGACCS SGGTCRCGYGRCCS Direction: Forward Position #: 3 Overlap #: 10 Alignment: --GBCGCGCGGC-- SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF11 Original Motif Original Motif SGGTCRCGYGRCCS GGMGGRGGCGGVGC GGVBSRSGCGGCSS Direction: Forward Position #: 1 Overlap #: 14 Alignment: SGGTCRCGYGRCCS GGMGGRGGCGGVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF1 Original Motif Original Motif GGVBSRSGCGGCSS CGGVGCCGCVGC SGGVGVCGCGGCSS Direction: Forward Position #: 1 Overlap #: 12 Alignment: GGVBSRSGCGGCSS CGGVGCCGCVGC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFW2 Original Motif Original Motif SGGVGVCGCGGCSS SCGCGCGG SSGCGCSGCGGCSS Direction: Forward Position #: 1 Overlap #: 8 Alignment: SGGVGVCGCGGCSS SCGCGCGG------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Reverse Complement SSGCGCSGCGGCSS BBGGGGCGGGGCVD BSGSGSCGSGGCSB Direction: Forward Position #: 1 Overlap #: 14 Alignment: SSGCGCSGCGGCSS BBGGGGCGGGGCVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Original Motif BSGCCSCGSCSCSB BCCGCCCCGCCCCBB BSGCCGCSCCGCCCCBB Direction: Forward Position #: 3 Overlap #: 12 Alignment: BSGCCSCGSCSCSB--- --BCCGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement BSGCCGCSCCGCCCCBB CHCCBCCKMCTCCKCM BSGCCSCBCCKCCYCCBCM Direction: Forward Position #: 4 Overlap #: 14 Alignment: BSGCCGCSCCGCCCCBB-- ---CHCCBCCKMCTCCKCM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Original Motif BSGCCSCBCCKCCYCCBCM CYYCBBCYYYTCCHCCTYYY BSGCYSCBSCBCCYCCBCCTYYY Direction: Forward Position #: 4 Overlap #: 16 Alignment: BSGCCSCBCCKCCYCCBCM---- ---CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Reverse Complement Reverse Complement KKKAGGVGGMGGVGSBGSKGCSB GBTGCAGGTGB KGBTGSAGGTGBVGSBGSKGCSB Direction: Forward Position #: 2 Overlap #: 11 Alignment: KKKAGGVGGMGGVGSBGSKGCSB -GBTGCAGGTGB----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dhACATTCTkh Combined Motif Original Motif Reverse Complement KGBTGSAGGTGBVGSBGSKGCSB HCAGAATGTHD KDYAGMAKGTBDVGSBGSKGCSB Direction: Forward Position #: 2 Overlap #: 11 Alignment: KGBTGSAGGTGBVGSBGSKGCSB -HCAGAATGTHD----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 16 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc wsTACwGTAsw Original Motif Reverse Complement BCACCTGCABC DBTACWGTAVH DBWMCTGYAVH Direction: Backward Position #: 1 Overlap #: 11 Alignment: BCACCTGCABC DBTACWGTAVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Reverse Complement Original Motif DVTKCAGYWBD DHACATTCTGH DHACATTCTKCAGYWBD Direction: Forward Position #: 7 Overlap #: 5 Alignment: ------DVTKCAGYWBD DHACATTCTGH------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 2 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW2 csGCCCCGCCCCsc Original Motif Reverse Complement SCGCGCGG BBGGGGCGGGGCVD GGCVDBSGSGCGGB Direction: Backward Position #: 6 Overlap #: 8 Alignment: -SCGCGCGG----- BBGGGGCGGGGCVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Reverse Complement Original Motif BCCGCSCSBHVGCC BCCGCCCCGCCCCBB BCCGCCCCGCCSCCB Direction: Forward Position #: 1 Overlap #: 14 Alignment: BCCGCSCSBHVGCC- BCCGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Reverse Complement Original Motif BGGSGGCGGGGCGGB GGMGGRGGCGGVGC BGGGVGSGGGSSGGGC Direction: Forward Position #: 3 Overlap #: 13 Alignment: BGGSGGCGGGGCGGB- --GGMGGRGGCGGVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF1 Reverse Complement Reverse Complement GCCCSSCCCSCVCCCB GCVGCGGCBCCG GCVSCGSCBCCVCCCB Direction: Forward Position #: 1 Overlap #: 12 Alignment: GCCCSSCCCSCVCCCB GCVGCGGCBCCG---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW3 Combined Motif Original Motif Original Motif GCVSCGSCBCCVCCCB CGGCYBCGCG GCVCSGCCBCSCSCCB Direction: Forward Position #: 4 Overlap #: 10 Alignment: GCVSCGSCBCCVCCCB ---CGGCYBCGCG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM2 Reverse Complement Original Motif BGGSGSGBGGCSGVGC RGRGGAGRRGGHGGDG RGRGGRSGRGSBGSVGVGC Direction: Forward Position #: 4 Overlap #: 13 Alignment: ---BGGSGSGBGGCSGVGC RGRGGAGRRGGHGGDG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Original Motif GCVCVSCBSCMCSMCCKCM CYYCBBCYYYTCCHCCTYYY SCCCVSCHYCBCCMCCTCCY Direction: Forward Position #: 1 Overlap #: 19 Alignment: GCVCVSCBSCMCSMCCKCM- CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- sSGTCACGTGACSs Combined Motif Original Motif Original Motif SCCCVSCHYCBCCMCCTCCY SGGTCACGTGACCS SCCCVSCHYCBCCBSSTCACGTGACCS Direction: Forward Position #: 14 Overlap #: 7 Alignment: SCCCVSCHYCBCCMCCTCCY------- -------------SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW1 Combined Motif Original Motif Reverse Complement SCCCVSCHYCBCCBSSTCACGTGACCS CGCGAC SCGCGVCHYCBCCBSSTCACGTGACCS Direction: Forward Position #: 2 Overlap #: 6 Alignment: SCCCVSCHYCBCCBSSTCACGTGACCS -CGCGAC-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Reverse Complement Reverse Complement SGGTCACGTGASSBGGBGKDGVCGCGS GBTGCAGGTGB SSKKCASGTGDSSBGGBGKDGVCGCGS Direction: Forward Position #: 1 Overlap #: 11 Alignment: SGGTCACGTGASSBGGBGKDGVCGCGS GBTGCAGGTGB---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 3 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW3 TFF1 Original Motif Original Motif CGGCYBCGCG CGGVGCCGCVGC GCCGGCKCCGCG Direction: Backward Position #: 3 Overlap #: 10 Alignment: CGGCYBCGCG-- CGGVGCCGCVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif GCCGGCKCCGCG GGMGGRGGCGGVGC GCSGGSGVSGCGGVGC Direction: Forward Position #: 3 Overlap #: 10 Alignment: GCCGGCKCCGCG---- --GGMGGRGGCGGVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Reverse Complement Original Motif GCVCCGCSVCSCCSGC HVGCCCCGCCCCBB GCVCCGCCCCGCCCSCB Direction: Forward Position #: 4 Overlap #: 13 Alignment: GCVCCGCSVCSCCSGC- ---HVGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Reverse Complement Reverse Complement BGSGGGCGGGGCGGVGC BBGGGGCGGGGCGGB BBGGGGCGGGGCGGVGC Direction: Forward Position #: 1 Overlap #: 15 Alignment: BGSGGGCGGGGCGGVGC BBGGGGCGGGGCGGB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Original Motif GCVCCGCCCCGCCCCBB CYYCBBCYYYTCCHCCTYYY GCVCCSCCCCBCCYCCHCCTYYY Direction: Forward Position #: 4 Overlap #: 14 Alignment: GCVCCGCCCCGCCCCBB------ ---CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif KKKAGGDGGKGGBGGGGSGGVGC RGRGGAGRRGGHGGDG KKKAGGDGGRGGVGGVGSDGVGC Direction: Forward Position #: 5 Overlap #: 16 Alignment: KKKAGGDGGKGGBGGGGSGGVGC ----RGRGGAGRRGGHGGDG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- sSGTCACGTGACSs Combined Motif Original Motif Original Motif KKKAGGDGGRGGVGGVGSDGVGC SGGTCACGTGACCS KKKAGGDGGRGGVGGVGSBGGKCACGTGACCS Direction: Forward Position #: 19 Overlap #: 5 Alignment: KKKAGGDGGRGGVGGVGSDGVGC--------- ------------------SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW2 Combined Motif Original Motif Original Motif KKKAGGDGGRGGVGGVGSBGGKCACGTGACCS SCGCGCGG KKSGSGCGGRGGVGGVGSBGGKCACGTGACCS Direction: Forward Position #: 2 Overlap #: 8 Alignment: KKKAGGDGGRGGVGGVGSBGGKCACGTGACCS -SCGCGCGG----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Reverse Complement Reverse Complement SGGTCACGTGYCCBSCVCCVCCMCCGCSCSYY GBTGCAGGTGB SSKKCASGTGYCCBSCVCCVCCMCCGCSCSYY Direction: Forward Position #: 1 Overlap #: 11 Alignment: SGGTCACGTGYCCBSCVCCVCCMCCGCSCSYY GBTGCAGGTGB--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wsTACwGTAsw kcACCTGCAgc Original Motif Reverse Complement HVTACWGTABD GBTGCAGGTGB DVTRCAGKWBH Direction: Backward Position #: 1 Overlap #: 11 Alignment: HVTACWGTABD GBTGCAGGTGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwAAATAATAtw Original Motif Reverse Complement DVTRCAGKWBH DDTATTATTTDH DVTAYWRTWDDH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DVTRCAGKWBH- DDTATTATTTDH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif tkAAATAATAtw Original Motif Reverse Complement DVTAYWRTWDDH WHTATTATTTDH DHTATTATTTDH Direction: Forward Position #: 1 Overlap #: 12 Alignment: DVTAYWRTWDDH WHTATTATTTDH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wbgTAAATAww Original Motif Reverse Complement DHTATTATTTDH DHTATTTACBD DHTATTWWYDDH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTATTATTTDH DHTATTTACBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM3 Original Motif Reverse Complement DHTATTWWYDDH TWAAWTTVTGAAAAAHWW TWWATTTHTKWWAAAHWW Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHTATTWWYDDH------ TWAAWTTVTGAAAAAHWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM13 Reverse Complement Reverse Complement WWHTTTWWYAHAAATWWA WAHHTVTTYKAAAAWTTRAT WWHTTDTTYDWAAATWWAAT Direction: Forward Position #: 1 Overlap #: 18 Alignment: WWHTTTWWYAHAAATWWA-- WAHHTVTTYKAAAAWTTRAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Reverse Complement Original Motif ATTWWATTTWDMAADAAHWW HDWVAAAHAAAAAMAAAMWWWHBWA ATTWWAWTWAAHAAAAAHWAAMWWWHBWA Direction: Forward Position #: 5 Overlap #: 16 Alignment: ATTWWATTTWDMAADAAHWW--------- ----HDWVAAAHAAAAAMAAAMWWWHBWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dhACATTCTkh Combined Motif Reverse Complement Original Motif TWVHWWWYTTWHTTTTTHTTWAWTWWAAT DHACATTCTGH TWVHDWACWTTCTKHTTHTTWAWTWWAAT Direction: Forward Position #: 5 Overlap #: 11 Alignment: TWVHWWWYTTWHTTTTTHTTWAWTWWAAT ----DHACATTCTGH-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Original Motif Original Motif TWVHDWACWTTCTKHTTHTTWAWTWWAAT WTKTTTTTHWTTTTTTBT TWVHDWWYWTTYTDWTTHTTTHWTWWAAT Direction: Forward Position #: 6 Overlap #: 18 Alignment: TWVHDWACWTTCTKHTTHTTWAWTWWAAT -----WTKTTTTTHWTTTTTTBT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Original Motif TWVHDWWYWTTYTDWTTHTTTHWTWWAAT CYYCBBCYYYTCCHCCTYYY TWVHDWCYHYTBYHYYTYYTBBWBHYAAT Direction: Forward Position #: 7 Overlap #: 20 Alignment: TWVHDWWYWTTYTDWTTHTTTHWTWWAAT ------CYYCBBCYYYTCCHCCTYYY--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 20 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dhACATTCTkh TFM3 Reverse Complement Original Motif HCAGAATGTHD WWHTTTTTCABAAWTTWA AAWTTWAWHAKWWTKYWD Direction: Backward Position #: 8 Overlap #: 11 Alignment: HCAGAATGTHD------- WWHTTTTTCABAAWTTWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Original Motif Original Motif AAWTTWAWHAKWWTKYWD BCACCTGCABC AAWTTWAWHAKWWTDYACCTGCABC Direction: Forward Position #: 15 Overlap #: 4 Alignment: AAWTTWAWHAKWWTKYWD------- --------------BCACCTGCABC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif Original Motif Original Motif AAWTTWAWHAKWWTDYACCTGCABC HDAAATAATADD AAWTTWAWWATAATAHACCTGCABC Direction: Forward Position #: 6 Overlap #: 12 Alignment: AAWTTWAWHAKWWTDYACCTGCABC -----HDAAATAATADD-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Reverse Complement Reverse Complement GBTGCAGGTHTATTATWWTWAAWTT TWVHWWWYTTTYTTTTTHTTTVWBH GBTGCWGDWHWATTWTHTTWWWHTTTVWBH Direction: Forward Position #: 6 Overlap #: 20 Alignment: GBTGCAGGTHTATTATWWTWAAWTT----- -----TWVHWWWYTTTYTTTTTHTTTVWBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif HDWVAAAHWWWAAHAWAATWHWHCWGCABC ATKAAWTTTTRMAABAHHTW HDWVAAAWWWWAWTWWAAWAHAHHTRCABC Direction: Forward Position #: 7 Overlap #: 20 Alignment: HDWVAAAHWWWAAHAWAATWHWHCWGCABC ------ATKAAWTTTTRMAABAHHTW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- tkAAATAATAtw Combined Motif Reverse Complement Reverse Complement GBTGMADDTHTWTTWWAWTWWWWTTTVWBH WHTATTATTTDH GBTGMADDTATTWTTTDWTWWWWTTTVWBH Direction: Forward Position #: 7 Overlap #: 12 Alignment: GBTGMADDTHTWTTWWAWTWWWWTTTVWBH ------WHTATTATTTDH------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kCAGCCAATmr Original Motif Original Motif GBTGMADDTATTWTTTDWTWWWWTTTVWBH DCAGCCAATVR DCWGCMAATADTWTTTDWTWWWWTTTVWBH Direction: Forward Position #: 1 Overlap #: 11 Alignment: GBTGMADDTATTWTTTDWTWWWWTTTVWBH DCAGCCAATVR------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Reverse Complement Reverse Complement HDWVAAAWWWWAWDAAAWADTATTRGCWGH ABAAAAAAWHAAAAARAW HDWVAADWWAWAAWHAAAAADAWTRGCWGH Direction: Forward Position #: 6 Overlap #: 18 Alignment: HDWVAAAWWWWAWDAAAWADTATTRGCWGH -----ABAAAAAAWHAAAAARAW------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wsTACwGTAsw Combined Motif Original Motif Reverse Complement HDWVAADWWAWAAWHAAAAADAWTRGCWGH DBTACWGTAVH HDWVAADWWAWAAWHAAAAADADBTRCWGTAVH Direction: Forward Position #: 23 Overlap #: 8 Alignment: HDWVAADWWAWAAWHAAAAADAWTRGCWGH--- ----------------------DBTACWGTAVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Original Motif HVTACWGKAVDTDTTTTTHWTTWTWWDTTVWBH CYYCBBCYYYTCCHCCTYYY CYBCTVCWSBDCHTBYTYYYHWTTWTWWDTTVWBH Direction: Forward Position #: 3 Overlap #: 18 Alignment: --HVTACWGKAVDTDTTTTTHWTTWTWWDTTVWBH CYYCBBCYYYTCCHCCTYYY--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 21 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww tkAAATAATAtw Original Motif Original Motif DBGTAAATAHD HDAAATAATAHW DHRWWAATAHDH Direction: Backward Position #: 1 Overlap #: 11 Alignment: -DBGTAAATAHD HDAAATAATAHW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwAAATAATAtw Original Motif Reverse Complement DHRWWAATAHDH DDTATTATTTDH DHTWWWATWTDH Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHRWWAATAHDH DDTATTATTTDH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM11 Original Motif Reverse Complement DHTWWWATWTDH TWVHWWWYTTTYTTTTTHTTTVWBH BWDWWWATWTTHTTTTTHTTTVWBH Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHTWWWATWTDH------------- TWVHWWWYTTTYTTTTTHTTTVWBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Original Motif Original Motif BWDWWWATWTTHTTTTTHTTTVWBH WTKTTTTTHWTTTTTTBT BWDWWWWTTTTTTDTTTDTTTBWBH Direction: Forward Position #: 6 Overlap #: 18 Alignment: BWDWWWATWTTHTTTTTHTTTVWBH -----WTKTTTTTHWTTTTTTBT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Reverse Complement Reverse Complement HDWBAAADAAADAAAAAAWWWWDWV TWAAWTTVTGAAAAAHWW THAHAWWVWRADAAAAWAWWWWDWV Direction: Forward Position #: 1 Overlap #: 18 Alignment: HDWBAAADAAADAAAAAAWWWWDWV TWAAWTTVTGAAAAAHWW------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif BWDWWWWTWTTTTDTMWBWWTHTHA ATKAAWTTTTRMAABAHHTW BWDWWWTTWWWTTTTVWHADWHWTA Direction: Forward Position #: 6 Overlap #: 20 Alignment: BWDWWWWTWTTTTDTMWBWWTHTHA -----ATKAAWTTTTRMAABAHHTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wsTACwGTAsw Combined Motif Reverse Complement Original Motif TAWHWDTHWBAAAAWWWAAWWWDWV HVTACWGTABD TAHHTACWKTAVAAWWWAAWWWDWV Direction: Forward Position #: 3 Overlap #: 11 Alignment: TAWHWDTHWBAAAAWWWAAWWWDWV --HVTACWGTABD------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 17 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw tkAAATAATAtw Original Motif Original Motif HDAAATAATADD HDAAATAATAHW HDAAATAATAHW Direction: Forward Position #: 1 Overlap #: 12 Alignment: HDAAATAATADD HDAAATAATAHW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Reverse Complement Original Motif WHTATTATTTDH WTKTTTTTHWTTTTTTBT WHTWTTWTTTDHTTTTTTBT Direction: Forward Position #: 3 Overlap #: 10 Alignment: WHTATTATTTDH-------- --WTKTTTTTHWTTTTTTBT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Reverse Complement Original Motif ABAAAAAAHDAAAWAAWAHW HDWVAAAHAAAAAMAAAMWWWHBWA WDAAAAAAADAAAHAAWAHWWHBWA Direction: Forward Position #: 1 Overlap #: 20 Alignment: ABAAAAAAHDAAAWAAWAHW----- HDWVAAAHAAAAAMAAAMWWWHBWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM13 Reverse Complement Reverse Complement TWVHWWHTWTTHTTTDTTTTTTTHW WAHHTVTTYKAAAAWTTRAT WAHHTDHTTDWHAWTWTDWTTTTTTTTHW Direction: Forward Position #: 5 Overlap #: 16 Alignment: ----TWVHWWHTWTTHTTTDTTTTTTTHW WAHHTVTTYKAAAAWTTRAT--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Original Motif Original Motif WAHHTDHTTDWHAWTWTDWTTTTTTTTHW WWHTTTTTCABAAWTTWA WAHHTWWHTTWWWYWHWAWTTTWTTTTHW Direction: Forward Position #: 6 Overlap #: 18 Alignment: WAHHTDHTTDWHAWTWTDWTTTTTTTTHW -----WWHTTTTTCABAAWTTWA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Reverse Complement Reverse Complement WDAAAAWAAAWTWHWKWWWAAHWWAHHTW DHTATTTACBD WDAAAAWHWATTTAHDWWWAAHWWAHHTW Direction: Forward Position #: 7 Overlap #: 11 Alignment: WDAAAAWAAAWTWHWKWWWAAHWWAHHTW ------DHTATTTACBD------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Reverse Complement WDAAAAWHWATTTAHDWWWAAHWWAHHTW HCAGAATGTHD HBAGAATGTADTTAHDWWWAAHWWAHHTW Direction: Forward Position #: 1 Overlap #: 11 Alignment: WDAAAAWHWATTTAHDWWWAAHWWAHHTW HCAGAATGTHD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wsTACwGTAsw Combined Motif Original Motif Original Motif HBAGAATGTADTTAHDWWWAAHWWAHHTW HVTACWGTABD HHVKAMWGTADDTAHDWWWAAHWWAHHTW Direction: Forward Position #: 2 Overlap #: 11 Alignment: HBAGAATGTADTTAHDWWWAAHWWAHHTW -HVTACWGTABD----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kCAGCCAATmr Combined Motif Original Motif Reverse Complement HHVKAMWGTADDTAHDWWWAAHWWAHHTW MBATTGGCTGH HHVKAMWGTADDTAHDWWWAAHWWAHATTGGCTGH Direction: Forward Position #: 25 Overlap #: 5 Alignment: HHVKAMWGTADDTAHDWWWAAHWWAHHTW------ ------------------------MBATTGGCTGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Original Motif DCAGCCAATDTWWHTTWWWHDTADHTACWRTRBDH CYYCBBCYYYTCCHCCTYYY CHCMGCCWHYBYHHBYTHYHHDTADHTACWRTRBDH Direction: Forward Position #: 2 Overlap #: 19 Alignment: -DCAGCCAATDTWWHTTWWWHDTADHTACWRTRBDH CYYCBBCYYYTCCHCCTYYY---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 13 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- tkAAATAATAtw wwAAATAATAtw Original Motif Original Motif HDAAATAATAHW HDAAATAATADD HDAAATAATAHW Direction: Forward Position #: 1 Overlap #: 12 Alignment: HDAAATAATAHW HDAAATAATADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Original Motif Original Motif HDAAATAATAHW HDWVAAAHAAAAAMAAAMWWWHBWA HDWAATAAWAWAAAAMAAAMWWWHBWA Direction: Forward Position #: 3 Overlap #: 10 Alignment: HDAAATAATAHW--------------- --HDWVAAAHAAAAAMAAAMWWWHBWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM1 Reverse Complement Original Motif TWVHWWWYTTTYTTTTWTWTTATTWDH WTKTTTTTHWTTTTTTBT WTDDTTTTHTTTBTTTBWTWTTATTWDH Direction: Forward Position #: 2 Overlap #: 17 Alignment: -TWVHWWWYTTTYTTTTWTWTTATTWDH WTKTTTTTHWTTTTTTBT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Reverse Complement WTDDTTTTHTTTBTTTBWTWTTATTWDH WAHHTVTTYKAAAAWTTRAT WTDDTTWWHTTWTTTKWWWWTTWWWTDH Direction: Forward Position #: 7 Overlap #: 20 Alignment: WTDDTTTTHTTTBTTTBWTWTTATTWDH ------WAHHTVTTYKAAAAWTTRAT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Original Motif Original Motif WTDDTTWWHTTWTTTKWWWWTTWWWTDH WWHTTTTTCABAAWTTWA WTDDTTWWHTTTTTYWHAAWTTWAWTDH Direction: Forward Position #: 7 Overlap #: 18 Alignment: WTDDTTWWHTTWTTTKWWWWTTWWWTDH ------WWHTTTTTCABAAWTTWA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Original Motif Reverse Complement WTDDTTWWHTTTTTYWHAAWTTWAWTDH DHTATTTACBD WTDDTTWWTWTTTWCDHAAWTTWAWTDH Direction: Forward Position #: 7 Overlap #: 11 Alignment: WTDDTTWWHTTTTTYWHAAWTTWAWTDH ------DHTATTTACBD----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wsTACwGTAsw Combined Motif Reverse Complement Original Motif HDAWTWAAWTTHDGWAAAWAWWAADDAW HVTACWGTABD HDAHBTAMWKTADDWAAAWAWWAADDAW Direction: Forward Position #: 4 Overlap #: 11 Alignment: HDAWTWAAWTTHDGWAAAWAWWAADDAW ---HVTACWGTABD-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Original Motif HDAHBTAMWKTADDWAAAWAWWAADDAW DHACATTCTGH DHACATWCTKTADDWAAAWAWWAADDAW Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDAHBTAMWKTADDWAAAWAWWAADDAW DHACATTCTGH----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kCAGCCAATmr Combined Motif Original Motif Reverse Complement DHACATWCTKTADDWAAAWAWWAADDAW MBATTGGCTGH DHACATWCTKTADDWAAAWAWWAAHDATTGGCTGH Direction: Forward Position #: 25 Overlap #: 4 Alignment: DHACATWCTKTADDWAAAWAWWAADDAW------- ------------------------MBATTGGCTGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Original Motif DCAGCCAATDHTTWWTWTTTWHHTAYAGWATGTHD CYYCBBCYYYTCCHCCTYYY DCAGCCMHTBYYTHHYHTYYWBHYAYAGWATGTHD Direction: Forward Position #: 5 Overlap #: 20 Alignment: DCAGCCAATDHTTWWTWTTTWHHTAYAGWATGTHD ----CYYCBBCYYYTCCHCCTYYY----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 15 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kCAGCCAATmr tkAAATAATAtw Reverse Complement Reverse Complement MBATTGGCTGH WHTATTATTTDH WVTATTRKYTVH Direction: Forward Position #: 2 Overlap #: 11 Alignment: -MBATTGGCTGH WHTATTATTTDH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Reverse Complement Reverse Complement HVAKYMAATABW HCAGAATGTHD HCAGAAWRTMDW Direction: Forward Position #: 1 Overlap #: 11 Alignment: HVAKYMAATABW HCAGAATGTHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwAAATAATAtw Original Motif Original Motif HCAGAAWRTMDW HDAAATAATADD HHARAWAATADW Direction: Forward Position #: 1 Overlap #: 12 Alignment: HCAGAAWRTMDW HDAAATAATADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Reverse Complement Reverse Complement WDTATTWTMTDH GBTGCAGGTGB WDTATTWDHTGCAGGTGB Direction: Forward Position #: 8 Overlap #: 5 Alignment: WDTATTWTMTDH------ -------GBTGCAGGTGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif WDTATTWDHTGCAGGTGB GGMGGRGGCGGVGC WDTATTWDHTGCAGGTGGRGGCGGVGC Direction: Forward Position #: 14 Overlap #: 5 Alignment: WDTATTWDHTGCAGGTGB--------- -------------GGMGGRGGCGGVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM11 Original Motif Reverse Complement WDTATTWDHTGCAGGTGGRGGCGGVGC TWVHWWWYTTTYTTTTTHTTTVWBH TWVHWWHTWTTHTHTKYAKKTVDDGGCGGVGC Direction: Forward Position #: 6 Overlap #: 20 Alignment: -----WDTATTWDHTGCAGGTGGRGGCGGVGC TWVHWWWYTTTYTTTTTHTTTVWBH------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Reverse Complement Original Motif GCVCCGCCHDVARYTMRAHAHAAWAHWWHBWA DBGTAAATAHD GCVCCGCHHDTAAHTADAHAHAAWAHWWHBWA Direction: Forward Position #: 8 Overlap #: 11 Alignment: GCVCCGCCHDVARYTMRAHAHAAWAHWWHBWA -------DBGTAAATAHD-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFW3 Original Motif Reverse Complement GCVCCGCHHDTAAHTADAHAHAAWAHWWHBWA CGCGBMGCCG CGCGCCGCCGDTAAHTADAHAHAAWAHWWHBWA Direction: Forward Position #: 2 Overlap #: 9 Alignment: -GCVCCGCHHDTAAHTADAHAHAAWAHWWHBWA CGCGBMGCCG----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement CGCGCCGCCGDTAAHTADAHAHAAWAHWWHBWA CHCCBCCKMCTCCKCM CGCGCCVCCBSCDMMTMVDMMHAAWAHWWHBWA Direction: Forward Position #: 6 Overlap #: 16 Alignment: CGCGCCGCCGDTAAHTADAHAHAAWAHWWHBWA -----CHCCBCCKMCTCCKCM------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF1 Combined Motif Original Motif Reverse Complement CGCGCCVCCBSCDMMTMVDMMHAAWAHWWHBWA GCVGCGGCBCCG CGCGCCVSCVGCRRCTCCDMMHAAWAHWWHBWA Direction: Forward Position #: 8 Overlap #: 12 Alignment: CGCGCCVCCBSCDMMTMVDMMHAAWAHWWHBWA -------GCVGCGGCBCCG-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-20-2016 13:21:41 Runtime: 601.6 seconds MOTIFSIM is written by Ngoc Tam L. Tran