**************************************************************************************************************************************************************************************************** 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 CGGCGBCGCG Direction: Backward Position #: 1 Overlap #: 6 Alignment: ----GTCGCG CGGCYBCGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Original Motif Reverse Complement CGGCGBCGCG SGGTCACGTGACCS CGGYSACGYGACCS Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGGCGBCGCG---- SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Reverse Complement CGGYSACGYGACCS GCVCCGCCMCCYCC CGGCVMCGCSACCBCC Direction: Forward Position #: 3 Overlap #: 12 Alignment: CGGYSACGYGACCS-- --GCVCCGCCMCCYCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF1 Combined Motif Reverse Complement Original Motif GGBGGTSGCGRVGCCG CGGVGCCGCVGC GGBGGHGSCGVVGCCG Direction: Forward Position #: 3 Overlap #: 12 Alignment: GGBGGTSGCGRVGCCG --CGGVGCCGCVGC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW2 Combined Motif Reverse Complement Reverse Complement CGGCVVCGSCHCCBCC CCGCGCGS CGGCCGCGCSBCCBCC Direction: Forward Position #: 4 Overlap #: 8 Alignment: CGGCVVCGSCHCCBCC ---CCGCGCGS----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Original Motif Original Motif CGGCCGCGCSBCCBCC HVGCCCCGCCCCBB CSGSCSCSSCCCCBCC Direction: Forward Position #: 2 Overlap #: 14 Alignment: CGGCCGCGCSBCCBCC -HVGCCCCGCCCCBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Original Motif CSGSCSCSSCCCCBCC BCCGCCCCGCCCCBB CSSGCCCCGCCCCBBC Direction: Forward Position #: 1 Overlap #: 15 Alignment: CSGSCSCSSCCCCBCC BCCGCCCCGCCCCBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif GBBGGGGCGGGGCSSG RGRGGAGRRGGHGGDG GGVGGRGSGGGGSGVG Direction: Forward Position #: 1 Overlap #: 16 Alignment: GBBGGGGCGGGGCSSG RGRGGAGRRGGHGGDG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Original Motif CVCSCCCCSCMCCBCC CYYCBBCYYYTCCHCCTYYY CYYCBBCYYYTCCHCCHCBCCCCSCMCCBCC Direction: Forward Position #: 16 Overlap #: 5 Alignment: ---------------CVCSCCCCSCMCCBCC CYYCBBCYYYTCCHCCTYYY----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Reverse Complement Reverse Complement GGVGGRGSGGGGBGHGGDGGAKKMGBBGKMG GBTGCAGGTGB GBTGCAGGTGVGGGGBGHGGDGGAKKMGBBGKMG Direction: Forward Position #: 4 Overlap #: 8 Alignment: ---GGVGGRGSGGGGBGHGGDGGAKKMGBBGKMG GBTGCAGGTGB----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Original Motif GBTGCAGGTGVGGGGBGHGGDGGAKKMGBBGKMG DHACATTCTGH DHACATKCTGHAGGTGVGGGGBGHGGDGGAKKMGBBGKMG Direction: Forward Position #: 7 Overlap #: 5 Alignment: ------GBTGCAGGTGVGGGGBGHGGDGGAKKMGBBGKMG DHACATTCTGH----------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 DHACATTCWGYWBD Direction: Forward Position #: 4 Overlap #: 8 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 BBSGSGCGGGGCVD Direction: Forward Position #: 2 Overlap #: 8 Alignment: -SCGCGCGG----- BBGGGGCGGGGCVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Original Motif Reverse Complement BBSGSGCGGGGCVD BBGGGGCGGGGCGGB BBGGGGCGGGGCSSGSGCGGGGCVD Direction: Forward Position #: 12 Overlap #: 4 Alignment: -----------BBSGSGCGGGGCVD BBGGGGCGGGGCGGB---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif BBGGGGCGGGGCSSGSGCGGGGCVD GGMGGRGGCGGVGC BBGGGGCGGGGCSSGGGSGGGGCGGVGC Direction: Forward Position #: 15 Overlap #: 11 Alignment: BBGGGGCGGGGCSSGSGCGGGGCVD--- --------------GGMGGRGGCGGVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF1 Combined Motif Original Motif Original Motif BBGGGGCGGGGCSSGGGSGGGGCGGVGC CGGVGCCGCVGC BBGGGGCGGGGCSSGGGCGGGGCSGVGSC Direction: Forward Position #: 18 Overlap #: 11 Alignment: BBGGGGCGGGGCSSGGGSGGGGCGGVGC- -----------------CGGVGCCGCVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW3 Combined Motif Original Motif Reverse Complement BBGGGGCGGGGCSSGGGCGGGGCSGVGSC CGCGBMGCCG BBGGGGCGGGGCSSGGGCSGSGCVGCSGC Direction: Forward Position #: 19 Overlap #: 10 Alignment: BBGGGGCGGGGCSSGGGCGGGGCSGVGSC ------------------CGCGBMGCCG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement BBGGGGCGGGGCSSGGGCSGSGCVGCSGC CHCCBCCKMCTCCKCM BBGGGGCGGGGCSSGGGCVSCGCCGCCKCCKCM Direction: Forward Position #: 18 Overlap #: 12 Alignment: BBGGGGCGGGGCSSGGGCSGSGCVGCSGC---- -----------------CHCCBCCKMCTCCKCM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Original Motif RGRGGYGGCGGCGSVGCCCSSGCCCCGCCCCBB CYYCBBCYYYTCCHCCTYYY RGRGGYGGCGGCGSVGCCCHCBCCCCSCCCCBBCTYYY Direction: Forward Position #: 19 Overlap #: 15 Alignment: RGRGGYGGCGGCGSVGCCCSSGCCCCGCCCCBB----- ------------------CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Original Motif KKKAGBBGGGGSGGGGBGDGGGCVSCGCCGCCKCCKCM SGGTCACGTGACCS SGGTCACGTGASSBGGGGSGGGGBGDGGGCVSCGCCGCCKCCKCM Direction: Forward Position #: 8 Overlap #: 7 Alignment: -------KKKAGBBGGGGSGGGGBGDGGGCVSCGCCGCCKCCKCM SGGTCACGTGACCS------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW1 Combined Motif Original Motif Reverse Complement SGGTCACGTGASSBGGGGSGGGGBGDGGGCVSCGCCGCCKCCKCM CGCGAC SGGTCACGTGASSBGGGGSGGGGBGDGGGCCGCGVCGCCKCCKCM Direction: Forward Position #: 31 Overlap #: 6 Alignment: SGGTCACGTGASSBGGGGSGGGGBGDGGGCVSCGCCGCCKCCKCM ------------------------------CGCGAC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Original Motif Reverse Complement SGGTCACGTGASSBGGGGSGGGGBGDGGGCCGCGVCGCCKCCKCM GBTGCAGGTGB SSKKCASGTGHSSBGGGGSGGGGBGDGGGCCGCGVCGCCKCCKCM Direction: Forward Position #: 1 Overlap #: 11 Alignment: SGGTCACGTGASSBGGGGSGGGGBGDGGGCCGCGVCGCCKCCKCM 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 CGGCKCCGCGGC Direction: Backward Position #: 3 Overlap #: 10 Alignment: CGGCYBCGCG-- CGGVGCCGCVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF11 Original Motif Original Motif CGGCKCCGCGGC GGMGGRGGCGGVGC GGMGGRGGCGSGGCKCCGCGGC Direction: Forward Position #: 11 Overlap #: 4 Alignment: ----------CGGCKCCGCGGC GGMGGRGGCGGVGC-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Original Motif Reverse Complement GGMGGRGGCGSGGCKCCGCGGC BBGGGGCGGGGCVD GGMGGVGGSGCGGSGCCGCGGC Direction: Forward Position #: 5 Overlap #: 14 Alignment: GGMGGRGGCGSGGCKCCGCGGC ----BBGGGGCGGGGCVD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Original Motif GCCGCGGCSCCGCSCCVCCYCC BCCGCCCCGCCCCBB GCCSCSGCCCCGCCCCBBCYCC Direction: Forward Position #: 4 Overlap #: 15 Alignment: GCCGCGGCSCCGCSCCVCCYCC ---BCCGCCCCGCCCCBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Original Motif GCCSCSGCCCCGCCCCBBCYCC CYYCBBCYYYTCCHCCTYYY GCCSCSGCCCCSCCCCBCCYCYCCHCCTYYY Direction: Forward Position #: 12 Overlap #: 11 Alignment: GCCSCSGCCCCGCCCCBBCYCC--------- -----------CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement GCCSCSGCCCCSCCCCBCCYCYCCHCCTYYY CHCCBCCKMCTCCKCM GCCSCSGCCCCSCCCCBCCYCCCCCBCHTCCKCM Direction: Forward Position #: 19 Overlap #: 13 Alignment: GCCSCSGCCCCSCCCCBCCYCYCCHCCTYYY--- ------------------CHCCBCCKMCTCCKCM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Original Motif Reverse Complement GCCSCSGCCCCSCCCCBCCYCCCCCBCHTCCKCM SGGTCACGTGACCS SGGTCACGYSRCSGCCCCSCCCCBCCYCCCCCBCHTCCKCM Direction: Forward Position #: 8 Overlap #: 7 Alignment: -------GCCSCSGCCCCSCCCCBCCYCCCCCBCHTCCKCM SGGTCACGTGACCS--------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW2 Combined Motif Original Motif Reverse Complement SGGTCACGYSRCSGCCCCSCCCCBCCYCCCCCBCHTCCKCM CCGCGCGS SGGTCACGYSRCSGCCCCGCSCSBCCYCCCCCBCHTCCKCM Direction: Forward Position #: 17 Overlap #: 8 Alignment: SGGTCACGYSRCSGCCCCSCCCCBCCYCCCCCBCHTCCKCM ----------------CCGCGCGS----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Original Motif Reverse Complement SGGTCACGYSRCSGCCCCGCSCSBCCYCCCCCBCHTCCKCM GBTGCAGGTGB SSKKCASGTGVCSGCCCCGCSCSBCCYCCCCCBCHTCCKCM Direction: Forward Position #: 1 Overlap #: 11 Alignment: SGGTCACGYSRCSGCCCCGCSCSBCCYCCCCCBCHTCCKCM GBTGCAGGTGB------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kCAGCCAATmr Combined Motif Original Motif Original Motif SSKKCASGTGVCSGCCCCGCSCSBCCYCCCCCBCHTCCKCM DCAGCCAATVR SSKKCASGTGVCSGCCCCGCSCSBCCYCCCCCBCHBCMGCCAATVR Direction: Forward Position #: 36 Overlap #: 6 Alignment: SSKKCASGTGVCSGCCCCGCSCSBCCYCCCCCBCHTCCKCM----- -----------------------------------DCAGCCAATVR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- tkAAATAATAtw Combined Motif 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 Reverse Complement Reverse Complement HDDMWWAATAHD TWAAWTTVTGAAAAAHWW TWAAWTTVTGAADWAHWWAATAHD Direction: Forward Position #: 13 Overlap #: 6 Alignment: ------------HDDMWWAATAHD TWAAWTTVTGAAAAAHWW------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif DHTATTWWHTWDTTCABAAWTTWA ATKAAWTTTTRMAABAHHTW DHTATTWWHTWDWTBAHAWTTTDAAABAHHTW Direction: Forward Position #: 13 Overlap #: 12 Alignment: DHTATTWWHTWDTTCABAAWTTWA-------- ------------ATKAAWTTTTRMAABAHHTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Reverse Complement Original Motif WAHHTVTTTDAAAWTHTBAWDWAHWWAATAHD HDWVAAAHAAAAAMAAAMWWWHBWA WAHHTVTTTDAAAWTHWDAHAAAHWAAAWAAAAMWWWHBWA Direction: Forward Position #: 17 Overlap #: 16 Alignment: WAHHTVTTTDAAAWTHTBAWDWAHWWAATAHD--------- ----------------HDWVAAAHAAAAAMAAAMWWWHBWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Original Motif WAHHTVTTTDAAAWTHWDAHAAAHWAAAWAAAAMWWWHBWA DHACATTCTGH DWACATTCTKHAAAWTHWDAHAAAHWAAAWAAAAMWWWHBWA Direction: Forward Position #: 2 Overlap #: 10 Alignment: -WAHHTVTTTDAAAWTHWDAHAAAHWAAAWAAAAMWWWHBWA DHACATTCTGH------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Original Motif Reverse Complement DWACATTCTKHAAAWTHWDAHAAAHWAAAWAAAAMWWWHBWA ABAAAAAAWHAAAAARAW DWACATTCTKHAAAWTHWDAHAAAHWADAWAAAAAHAAAHWRAW Direction: Forward Position #: 27 Overlap #: 16 Alignment: DWACATTCTKHAAAWTHWDAHAAAHWAAAWAAAAMWWWHBWA-- --------------------------ABAAAAAAWHAAAAARAW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Original Motif WTKWHTTTHTTTTTWTDTWHTTTHTHWHAWTTTHRAGAATGTWD CYYCBBCYYYTCCHCCTYYY CYYCBBCYYYTCCHCYTBYYTTTHTTTTTWTDTWHTTTHTHWHAWTTTHRAGAATGTWD Direction: Forward Position #: 16 Overlap #: 5 Alignment: ---------------WTKWHTTTHTTTTTWTDTWHTTTHTHWHAWTTTHRAGAATGTWD 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 WHAKWWTKYWDAAWTTWA Direction: Backward Position #: 8 Overlap #: 11 Alignment: HCAGAATGTHD------- WWHTTTTTCABAAWTTWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 HDHRWWAATAHD Direction: Backward Position #: 1 Overlap #: 11 Alignment: -DBGTAAATAHD HDAAATAATAHW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif Original Motif Original Motif HDHRWWAATAHD HDAAATAATADD HDAAATAATAHD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HDHRWWAATAHD HDAAATAATADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM11 Reverse Complement Reverse Complement DHTATTATTTDH TWVHWWWYTTTYTTTTTHTTTVWBH TWVHWWWYTTTYTTTTWTWTTHWTHDH Direction: Forward Position #: 16 Overlap #: 10 Alignment: ---------------DHTATTATTTDH TWVHWWWYTTTYTTTTTHTTTVWBH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Reverse Complement Reverse Complement HDHAWHAAWAWAAAAMAAAMWWWHBWA ABAAAAAAWHAAAAARAW HDHAWHAAWAWAAAAVAAAAAAWHVAAAARAW Direction: Forward Position #: 15 Overlap #: 13 Alignment: HDHAWHAAWAWAAAAMAAAMWWWHBWA----- --------------ABAAAAAAWHAAAAARAW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Reverse Complement Original Motif WTKTTTTBHWTTTTTTVTTTTWTWTTHWTHDH WWHTTTTTCABAAWTTWA WTKTTTTBHWTTTTTTVTWWWTTWTTHWBAAHTTWA Direction: Forward Position #: 19 Overlap #: 14 Alignment: WTKTTTTBHWTTTTTTVTTTTWTWTTHWTHDH---- ------------------WWHTTTTTCABAAWTTWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Reverse Complement TWAAHTTVWDAAWAAWWWAVAAAAAAWHVAAAARAW WAHHTVTTYKAAAAWTTRAT TWAAHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTRAT Direction: Forward Position #: 22 Overlap #: 15 Alignment: TWAAHTTVWDAAWAAWWWAVAAAAAAWHVAAAARAW----- ---------------------WAHHTVTTYKAAAAWTTRAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wsTACwGTAsw Original Motif Reverse Complement TWAAHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTRAT DBTACWGTAVH DBTACWKTAVHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTRAT Direction: Forward Position #: 7 Overlap #: 5 Alignment: ------TWAAHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTRAT DBTACWGTAVH------------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kCAGCCAATmr Reverse Complement Original Motif ATKAAWTTTTDHHMHWWHTWTVTWWWTTWTTHWBAAHBTAYWGTABD DCAGCCAATVR DCAGCCAATDAAWTTTTDHHMHWWHTWTVTWWWTTWTTHWBAAHBTAYWGTABD Direction: Forward Position #: 8 Overlap #: 4 Alignment: -------ATKAAWTTTTDHHMHWWHTWTVTWWWTTWTTHWBAAHBTAYWGTABD DCAGCCAATVR------------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Original Motif Reverse Complement DCAGCCAATDAAWTTTTDHHMHWWHTWTVTWWWTTWTTHWBAAHBTAYWGTABD KKKAGGDGGAKKMGBBGKMG KKKAGGDGGAKKMGBBDSAGCCAATDAAWTTTTDHHMHWWHTWTVTWWWTTWTTHWBAAHBTAYWGTABD Direction: Forward Position #: 17 Overlap #: 4 Alignment: ----------------DCAGCCAATDAAWTTTTDHHMHWWHTWTVTWWWTTWTTHWBAAHBTAYWGTABD KKKAGGDGGAKKMGBBGKMG-------------------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Reverse Complement DBTACWKTAVHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTHATTGGCTSHBBCYYYTCCHCCTYYY CHCCBCCKMCTCCKCM DBTACWKTAVHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTHATTGGCTSHBBCYCHBCYCCBHCTCCKCM Direction: Forward Position #: 59 Overlap #: 12 Alignment: DBTACWKTAVHTTVWDAAWAAWWWAVAWAHWWHYHHDAAAAWTTHATTGGCTSHBBCYYYTCCHCCTYYY---- ----------------------------------------------------------CHCCBCCKMCTCCKCM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM1 Original Motif Reverse Complement HDAAATAATAHW ABAAAAAAWHAAAAARAW ABAAAAAAWHAAAAAAATAATAHW Direction: Forward Position #: 13 Overlap #: 6 Alignment: ------------HDAAATAATAHW ABAAAAAAWHAAAAARAW------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Reverse Complement Reverse Complement WHTATTATTTTTTTHWTTTTTTBT TWVHWWWYTTTYTTTTTHTTTVWBH WHTATTATTTTWDHDWTTTTTTYTTTTHTTTVWBH Direction: Forward Position #: 11 Overlap #: 14 Alignment: WHTATTATTTTTTTHWTTTTTTBT----------- ----------TWVHWWWYTTTYTTTTTHTTTVWBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Reverse Complement WHTATTATTTTWDHDWTTTTTTYTTTTHTTTVWBH WAHHTVTTYKAAAAWTTRAT WHTATTATTTTWDHDWTTTTTWHTTDTTTTWVAWWTTRAT Direction: Forward Position #: 21 Overlap #: 15 Alignment: WHTATTATTTTWDHDWTTTTTTYTTTTHTTTVWBH----- --------------------WAHHTVTTYKAAAAWTTRAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Original Motif Original Motif WHTATTATTTTWDHDWTTTTTWHTTDTTTTWVAWWTTRAT WWHTTTTTCABAAWTTWA WHTATTATTTTWDHDWTTTTTWHTTWTTTTWHMWHWWDWTWA Direction: Forward Position #: 25 Overlap #: 16 Alignment: WHTATTATTTTWDHDWTTTTTWHTTDTTTTWVAWWTTRAT-- ------------------------WWHTTTTTCABAAWTTWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Original Motif Original Motif WHTATTATTTTWDHDWTTTTTWHTTWTTTTWHMWHWWDWTWA DBGTAAATAHD WHTATTATTTTWDHDWTTTTTWHTTWTTHKTAAATAWDWTWA Direction: Forward Position #: 28 Overlap #: 11 Alignment: WHTATTATTTTWDHDWTTTTTWHTTWTTTTWHMWHWWDWTWA ---------------------------DBGTAAATAHD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Original Motif WHTATTATTTTWDHDWTTTTTWHTTWTTHKTAAATAWDWTWA DHACATTCTGH DHAYATTMTKWTWDHDWTTTTTWHTTWTTHKTAAATAWDWTWA Direction: Forward Position #: 2 Overlap #: 10 Alignment: -WHTATTATTTTWDHDWTTTTTWHTTWTTHKTAAATAWDWTWA DHACATTCTGH-------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wsTACwGTAsw Reverse Complement Reverse Complement TWAWDWTATTTAYHAAWAAHWAAAAAWDHDWAWRARAATKTHD DBTACWGTAVH DBTACWGTAVHDWTATTTAYHAAWAAHWAAAAAWDHDWAWRARAATKTHD Direction: Forward Position #: 8 Overlap #: 4 Alignment: -------TWAWDWTATTTAYHAAWAAHWAAAAAWDHDWAWRARAATKTHD DBTACWGTAVH--------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kCAGCCAATmr Combined Motif Reverse Complement Reverse Complement DHAYATTMTKWTWDHDWTTTTTWHTTWTTHKTAAATAWDHBTACWGTABD MBATTGGCTGH DHAYATTSKCTBHDHDWTTTTTWHTTWTTHKTAAATAWDHBTACWGTABD Direction: Forward Position #: 3 Overlap #: 11 Alignment: DHAYATTMTKWTWDHDWTTTTTWHTTWTTHKTAAATAWDHBTACWGTABD --MBATTGGCTGH------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Original Motif DHAYATTSKCTBHDHDWTTTTTWHTTWTTHKTAAATAWDHBTACWGTABD CYYCBBCYYYTCCHCCTYYY DHAYATYBBCBBYHYBHYYHYYWYYYWTTHKTAAATAWDHBTACWGTABD Direction: Forward Position #: 7 Overlap #: 20 Alignment: DHAYATTSKCTBHDHDWTTTTTWHTTWTTHKTAAATAWDHBTACWGTABD ------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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM11 Reverse Complement Reverse Complement WHTATTATTTDH TWVHWWWYTTTYTTTTTHTTTVWBH TWVHWWWYTTTYTTTTWTWTTATTWDH Direction: Forward Position #: 16 Overlap #: 10 Alignment: ---------------WHTATTATTTDH TWVHWWWYTTTYTTTTTHTTTVWBH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Reverse Complement Reverse Complement HDWAATAAWAWAAAAMAAAMWWWHBWA ABAAAAAAWHAAAAARAW HDWAATAAWAWAAAAVAAAAAAWHVAAAARAW Direction: Forward Position #: 15 Overlap #: 13 Alignment: HDWAATAAWAWAAAAMAAAMWWWHBWA----- --------------ABAAAAAAWHAAAAARAW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif WTKTTTTBHWTTTTTTVTTTTWTWTTATTWDH ATKAAWTTTTRMAABAHHTW WTKTTTTBHWTTTTTTVTWTTWWWTTHTDHAABAHHTW Direction: Forward Position #: 19 Overlap #: 14 Alignment: WTKTTTTBHWTTTTTTVTTTTWTWTTATTWDH------ ------------------ATKAAWTTTTRMAABAHHTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Reverse Complement Reverse Complement WAHHTVTTHDAHAAWWWAAWAVAAAAAAWHVAAAARAW TWAAWTTVTGAAAAAHWW WAHHTVTTHDAHAAWWWAAWAVAWAAAWTTVWRAARAAHWW Direction: Forward Position #: 24 Overlap #: 15 Alignment: WAHHTVTTHDAHAAWWWAAWAVAAAAAAWHVAAAARAW--- -----------------------TWAAWTTVTGAAAAAHWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Original Motif Original Motif WAHHTVTTHDAHAAWWWAAWAVAWAAAWTTVWRAARAAHWW DBGTAAATAHD WAHHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW Direction: Forward Position #: 28 Overlap #: 11 Alignment: WAHHTVTTHDAHAAWWWAAWAVAWAAAWTTVWRAARAAHWW ---------------------------DBGTAAATAHD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wsTACwGTAsw Original Motif Reverse Complement WAHHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW DBTACWGTAVH DBTACWGTABHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW Direction: Forward Position #: 8 Overlap #: 4 Alignment: -------WAHHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW DBTACWGTAVH------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Reverse Complement DBTACWGTABHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW HCAGAATGTHD HHAKAMTGTADHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DBTACWGTABHTVTTHDAHAAWWWAAWAVAWAAAWHDTAAAWAWAHWW HCAGAATGTHD-------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kCAGCCAATmr Reverse Complement Original Motif WWHTWTWTTTAHHWTTTWTVTWTTWWWTTHTDHAABAHDTACAYTYTDH DCAGCCAATVR DCAGCCAATHDWTWTTTAHHWTTTWTVTWTTWWWTTHTDHAABAHDTACAYTYTDH Direction: Forward Position #: 8 Overlap #: 4 Alignment: -------WWHTWTWTTTAHHWTTTWTVTWTTWWWTTHTDHAABAHDTACAYTYTDH DCAGCCAATVR--------------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Original Motif DCAGCCAATHDWTWTTTAHHWTTTWTVTWTTWWWTTHTDHAABAHDTACAYTYTDH CYYCBBCYYYTCCHCCTYYY DCAGCCAATHDWTWTTTAHHWTTTWTVTWTTWWWTTCTBHVVYHYBTMCWYYYYBY Direction: Forward Position #: 37 Overlap #: 20 Alignment: DCAGCCAATHDWTWTTTAHHWTTTWTVTWTTWWWTTHTDHAABAHDTACAYTYTDH ------------------------------------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- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF11 Reverse Complement Reverse Complement BCACCTGCADDWAATADW GCVCCGCCMCCYCC GCVCCGCCACCTSCADDWAATADW Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------BCACCTGCADDWAATADW GCVCCGCCMCCYCC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Original Motif Original Motif GCVCCGCCACCTSCADDWAATADW HDWVAAAHAAAAAMAAAMWWWHBWA GCVCCGHCAMMHVMADAHAAWAHWWHBWA Direction: Forward Position #: 5 Overlap #: 20 Alignment: GCVCCGCCACCTSCADDWAATADW----- ----HDWVAAAHAAAAAMAAAMWWWHBWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Reverse Complement Reverse Complement TWVHWWHTWTTHTDTYBHRYTGHCGGVGC DHTATTTACBD TWVHWWHTWTTTWTTTAHDHTGHCGGVGC Direction: Forward Position #: 10 Overlap #: 11 Alignment: TWVHWWHTWTTHTDTYBHRYTGHCGGVGC ---------DHTATTTACBD--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFW3 Reverse Complement Original Motif GCVCCGHCAHHDTAAAWAAAWAHWWHBWA CGGCYBCGCG CGGCBCCGCSAHHDTAAAWAAAWAHWWHBWA Direction: Forward Position #: 3 Overlap #: 8 Alignment: --GCVCCGHCAHHDTAAAWAAAWAHWWHBWA CGGCYBCGCG--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Reverse Complement CGGCBCCGCSAHHDTAAAWAAAWAHWWHBWA CHCCBCCKMCTCCKCM CGGCCHCVHSMDMVTMMDHMAAWAHWWHBWA Direction: Forward Position #: 5 Overlap #: 16 Alignment: CGGCBCCGCSAHHDTAAAWAAAWAHWWHBWA ----CHCCBCCKMCTCCKCM----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF1 Combined Motif Original Motif Original Motif CGGCCHCVHSMDMVTMMDHMAAWAHWWHBWA CGGVGCCGCVGC CGGCCHCVGGMGCCKCVGCMAAWAHWWHBWA Direction: Forward Position #: 8 Overlap #: 12 Alignment: CGGCCHCVHSMDMVTMMDHMAAWAHWWHBWA -------CGGVGCCGCVGC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-20-2016 20:47:38 Runtime: 651.925 seconds MOTIFSIM is written by Ngoc Tam L. Tran