**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.1 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 5 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 # DREME_DM230.txt 1 1 MEME_DM230.txt 20 2 PScanChIP_DM230.txt 14 3 RSAT_peak-motifs_DM230.txt 10 4 W-ChIPMotifs_DM230.txt 11 5 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 45 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Original Motif Reverse Complement DHTWWWATWTDH TWVHWWWYTTTYTTTTTHTTTVWBH DHTWDWATWTWTTYTTTTTHTTTVWBH Direction: Forward Position #: 3 Overlap #: 10 Alignment: DHTWWWATWTDH--------------- --TWVHWWWYTTTYTTTTTHTTTVWBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 Combined Motif Original Motif Reverse Complement DHTWDWATWTWTTYTTTTTHTTTVWBH TTTDAWATATHATT THTDAWATWTWDTTTTTTTHTTTVWBH Direction: Forward Position #: 1 Overlap #: 14 Alignment: DHTWDWATWTWTTYTTTTTHTTTVWBH TTTDAWATATHATT------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Reverse Complement Original Motif HDWVAAAHAAAAAAADWAWATWTDAHA AATTYDGAARTAWW HDWVAAWTHARAAAWAWWWATWTDAHA Direction: Forward Position #: 5 Overlap #: 14 Alignment: HDWVAAAHAAAAAAADWAWATWTDAHA ----AATTYDGAARTAWW--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Original Motif Reverse Complement HDWVAAWTHARAAAWAWWWATWTDAHA ABAAAAAAWHAAAAARAW HDWVAADWAARAAAHAAAWADWWDAHA Direction: Forward Position #: 6 Overlap #: 18 Alignment: HDWVAAWTHARAAAWAWWWATWTDAHA -----ABAAAAAAWHAAAAARAW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Reverse Complement Original Motif THTDWWDTWTTTHTTTKTTWDTTVWBH WWHTTTTTCABAAWTTWA THTDWWDTWTTTHWTWAWTTWWTVWBH Direction: Forward Position #: 5 Overlap #: 18 Alignment: THTDWWDTWTTTHTTTKTTWDTTVWBH ----WWHTTTTTCABAAWTTWA----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Reverse Complement THTDWWDTWTTTHWTWAWTTWWTVWBH WAHHTVTTYKAAAAWTTRAT THTDWWWTTTDTYWKWAAWWWWWVTBH Direction: Forward Position #: 6 Overlap #: 20 Alignment: THTDWWDTWTTTHWTWAWTTWWTVWBH -----WAHHTVTTYKAAAAWTTRAT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 4 Combined Motif Reverse Complement Reverse Complement HDABWWWWWTTWRWMADAAAWWWDAHA AWGKAAWTTTT HDAHDWAAWTTTWWMADAAAWWWDAHA Direction: Forward Position #: 3 Overlap #: 11 Alignment: HDABWWWWWTTWRWMADAAAWWWDAHA --AWGKAAWTTTT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Original Motif Original Motif HDAHDWAAWTTTWWMADAAAWWWDAHA AWAAAWTWAAASWA HDAHDAWAWWWTWAAAVAAAWWWDAHA Direction: Forward Position #: 6 Overlap #: 14 Alignment: HDAHDWAAWTTTWWMADAAAWWWDAHA -----AWAAAWTWAAASWA-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 44 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dhACATTCTkh TFM3 Original Motif Reverse Complement DHACATTCTGH TWAAWTTVTGAAAAAHWW AAAAHWWTWAMATTCTGW Direction: Backward Position #: 8 Overlap #: 11 Alignment: DHACATTCTGH------- TWAAWTTVTGAAAAAHWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Original Motif Original Motif AAAAHWWTWAMATTCTGW BCACCTGCABC BHACMTKCWGHAAAAHWW Direction: Backward Position #: 1 Overlap #: 11 Alignment: AAAAHWWTWAMATTCTGW -------BCACCTGCABC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 16 Combined Motif Original Motif Reverse Complement BHACMTKCWGHAAAAHWW TCAAAATKAWTTGT BHACMTKCWKCAAAATDAWTTGT Direction: Forward Position #: 10 Overlap #: 9 Alignment: BHACMTKCWGHAAAAHWW----- ---------TCAAAATKAWTTGT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwAAATAATAtw Reverse Complement Original Motif ACAAWTDATTTTGRWGYARGTDV HDAAATAATADD ACAAATAATWTTGRWGYARGTDV Direction: Forward Position #: 1 Overlap #: 12 Alignment: ACAAWTDATTTTGRWGYARGTDV HDAAATAATADD----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Reverse Complement Reverse Complement BHACMTKCWKCAAWATTATTTGT TWVHWWWYTTTYTTTTTHTTTVWBH BHACHTDCWTHHWTWTTWTTTDTTTVWBH Direction: Forward Position #: 5 Overlap #: 19 Alignment: BHACMTKCWKCAAWATTATTTGT------ ----TWVHWWWYTTTYTTTTTHTTTVWBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif HDWVAAAHAAAWAAWAWHDAWGHAHGTDV ATKAAWTTTTRMAABAHHTW WHWDAAWTWWAWAAWAWHTWWGHAHGTDV Direction: Forward Position #: 1 Overlap #: 20 Alignment: HDWVAAAHAAAWAAWAWHDAWGHAHGTDV ATKAAWTTTTRMAABAHHTW--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif tkAAATAATAtw Original Motif Original Motif WHWDAAWTWWAWAAWAWHTWWGHAHGTDV HDAAATAATAHW HDAAAWAATWWWAWAAWAWHTWWGHAHGTDV Direction: Forward Position #: 3 Overlap #: 10 Alignment: --WHWDAAWTWWAWAAWAWHTWWGHAHGTDV HDAAATAATAHW------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Reverse Complement Reverse Complement BHACHTDCWWAHWTWTTWTWWWATTWTTTDH WWTAKTTCDKAATT WWWMBTTCWKAATTWTTWTWWWATTWTTTDH Direction: Forward Position #: 1 Overlap #: 14 Alignment: BHACHTDCWWAHWTWTTWTWWWATTWTTTDH WWTAKTTCDKAATT----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kCAGCCAATmr Reverse Complement Original Motif HDAAAWAATWWWAWAAWAATTRWGAAVRWWW DCAGCCAATVR DBARMCAATHDWAWAAWAATTRWGAAVRWWW Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDAAAWAATWWWAWAAWAATTRWGAAVRWWW DCAGCCAATVR-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif GABPA Reverse Complement Reverse Complement WWWMBTTCWKAATTWTTWTWDHATTGRMTBD VVCACTTCCGG TCCGGDHMWYTWWWMBTTCWKAATTWTTWTWDHATT Direction: Backward Position #: 6 Overlap #: 6 Alignment: WWWMBTTCWKAATTWTTWTWDHATTGRMTBD----- -------------------------VVCACTTCCGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 24 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Motif 7 Original Motif Original Motif CCCCKCCCCC CSKCCCCGCCCCSY CSKCCCCGCCCCCY Direction: Forward Position #: 4 Overlap #: 10 Alignment: ---CCCCKCCCCC- CSKCCCCGCCCCSY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Reverse Complement Reverse Complement MGGGGGCGGGGYSG BBGGGGCGGGGCVD MGGGGGSGSGGSGSVD Direction: Forward Position #: 3 Overlap #: 12 Alignment: MGGGGGCGGGGYSG-- --BBGGGGCGGGGCVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Original Motif Reverse Complement MGGGGGSGSGGSGSVD BBGGGGCGGGGCGGB VSGGGGCGGGGCGSVD Direction: Forward Position #: 1 Overlap #: 15 Alignment: MGGGGGSGSGGSGSVD BBGGGGCGGGGCGGB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF11 Original Motif Original Motif VSGGGGCGGGGCGSVD GGMGGRGGCGGVGC GGVGGGSGSGGVGSVD Direction: Forward Position #: 1 Overlap #: 14 Alignment: VSGGGGCGGGGCGSVD GGMGGRGGCGGVGC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Original Motif HVSCVCCSCSCCCVCC CYYCBBCYYYTCCHCCTYYY HVSCBCCSCCCCCBCCHCCTYYY Direction: Forward Position #: 4 Overlap #: 13 Alignment: HVSCVCCSCSCCCVCC------- ---CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif KKKAGGDGGBGGGGGSGGBGSVD RGRGGAGRRGGHGGDG KKKAGGDGGDGGRGGVGGDGSVD Direction: Forward Position #: 5 Overlap #: 16 Alignment: KKKAGGDGGBGGGGGSGGBGSVD ----RGRGGAGRRGGHGGDG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Reverse Complement Original Motif HVSCHCCVCCMCCDCCDCCTYYY BBVGCCBVGGCCTV HVSCBCCVCCHMSGCCTSCTYYY Direction: Forward Position #: 5 Overlap #: 14 Alignment: HVSCHCCVCCMCCDCCDCCTYYY ----BBVGCCBVGGCCTV----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFF1 Original Motif Original Motif HVSCBCCVCCHMSGCCTSCTYYY CGGVGCCGCVGC CGGCGCCGCVVCSGCCTSCTYYY Direction: Forward Position #: 1 Overlap #: 12 Alignment: HVSCBCCVCCHMSGCCTSCTYYY CGGVGCCGCVGC----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PLAG1 Reverse Complement Original Motif KKKAGSAGGCSGVVGCGGCGCCG GGGGCCCAAGGGGG GGGGSMVDAGGSGGVVGCGGCGCCG Direction: Forward Position #: 3 Overlap #: 12 Alignment: --KKKAGSAGGCSGVVGCGGCGCCG GGGGCCCAAGGGGG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Combined Motif Original Motif Original Motif GGGGSMVDAGGSGGVVGCGGCGCCG DGGGYGKGGC GGGGSHGGRBGKGGCVGCGGCGCCG Direction: Forward Position #: 6 Overlap #: 10 Alignment: GGGGSMVDAGGSGGVVGCGGCGCCG -----DGGGYGKGGC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 32 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ArntAhr Egr1 Reverse Complement Reverse Complement CACGCM YCGCCCACGCH CACGCMYCGCC Direction: Backward Position #: 1 Overlap #: 6 Alignment: -----CACGCM YCGCCCACGCH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Reverse Complement CACGCMYCGCC VCACGTBV VCACGYHHCGCC Direction: Forward Position #: 2 Overlap #: 7 Alignment: -CACGCMYCGCC VCACGTBV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Original Motif VCACGYHHCGCC HSCACGTGGC HSCACGYGBCGCC Direction: Forward Position #: 2 Overlap #: 9 Alignment: -VCACGYHHCGCC HSCACGTGGC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Original Motif HSCACGYGBCGCC HVGCCCCGCCCCBB HVGCCMCGCSCCGCC Direction: Forward Position #: 3 Overlap #: 12 Alignment: --HSCACGYGBCGCC HVGCCCCGCCCCBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Original Motif HVGCCMCGCSCCGCC VGCACGTGGH VVCMCVYGSCCCGCC Direction: Forward Position #: 1 Overlap #: 10 Alignment: HVGCCMCGCSCCGCC VGCACGTGGH----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 1 Reverse Complement Original Motif GGCGGGSCKVGYGVV GGCGGGGC GGCGGGGCKVGYGVV Direction: Forward Position #: 1 Overlap #: 8 Alignment: GGCGGGSCKVGYGVV GGCGGGGC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Reverse Complement VVCMCVYGCCCCGCC SGGTCACGTGACCS VSSHCACGYSMCSCC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VVCMCVYGCCCCGCC SGGTCACGTGACCS- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Original Motif VSSHCACGYSMCSCC BCCGCCCCGCCCCBB VSSHCRCSCCGCCCCBB Direction: Forward Position #: 3 Overlap #: 13 Alignment: VSSHCACGYSMCSCC-- --BCCGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Reverse Complement Reverse Complement BBGGGGCGGSGMGDSSV MSGGGGCGGGGYSG VSGGGGCGGGGCGDSSV Direction: Forward Position #: 1 Overlap #: 14 Alignment: BBGGGGCGGSGMGDSSV MSGGGGCGGGGYSG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFW2 Original Motif Original Motif VSGGGGCGGGGCGDSSV SCGCGCGG BCGSGSSGGGGCGDSSV Direction: Forward Position #: 1 Overlap #: 8 Alignment: VSGGGGCGGGGCGDSSV SCGCGCGG--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 40 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: Forward 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 43 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: Forward 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 Motif 6 Original Motif Reverse Complement DHTATTATTTDH WWTAKTTCDKAATT WWTATTWYTKAATT Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHTATTATTTDH-- WWTAKTTCDKAATT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Reverse Complement Original Motif AATTRAMWAATAWW DBGTAAATAHD AATBRWAAAWWAHW Direction: Forward Position #: 3 Overlap #: 11 Alignment: AATTRAMWAATAWW --DBGTAAATAHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 Combined Motif Original Motif Reverse Complement AATBRWAAAWWAHW TTTDAWATATHATT AATTTDAAATAWHATT Direction: Forward Position #: 3 Overlap #: 12 Alignment: AATBRWAAAWWAHW-- --TTTDAWATATHATT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM3 Reverse Complement Original Motif AATHWTATTTDAAATT WWHTTTTTCABAAWTTWA AWDTWTWTYWDAAATTWA Direction: Forward Position #: 1 Overlap #: 16 Alignment: AATHWTATTTDAAATT-- WWHTTTTTCABAAWTTWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif TWAATTTDWKAWAWADWT DGVBCABTGDWGCGKRRCSR TWAADHKHABWDAWRHDTRRCSR Direction: Forward Position #: 4 Overlap #: 15 Alignment: TWAATTTDWKAWAWADWT----- ---DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM13 Original Motif Original Motif TWAADHKHABWDAWRHDTRRCSR ATKAAWTTTTRMAABAHHTW ATKAWWWWDTDMAVHRAWDHDTRRCSR Direction: Forward Position #: 5 Overlap #: 16 Alignment: ----TWAADHKHABWDAWRHDTRRCSR ATKAAWTTTTRMAABAHHTW------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Reverse Complement Reverse Complement MSGKKAHHDWTKHBTYHADWWWWTRAT TWTAATCTAWGAA CTAWGAATWTAATMSGKKAHHDWTKHBTYHADWW Direction: Backward Position #: 8 Overlap #: 6 Alignment: MSGKKAHHDWTKHBTYHADWWWWTRAT------- ---------------------TWTAATCTAWGAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 21 Motif 15 Reverse Complement Reverse Complement TTTTAT TTTTATTGTYAT TGTYATTTTTAT Direction: Backward Position #: 7 Overlap #: 6 Alignment: TTTTAT------ TTTTATTGTYAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Original Motif Reverse Complement TGTYATTTTTAT TGATTTTAWKATTT TGWTWTTWTTATTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTYATTTTTAT-- TGATTTTAWKATTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif TGWTWTTWTTATTT AWTAAATAYAATTT WDTWAWTATWATTT Direction: Forward Position #: 1 Overlap #: 14 Alignment: TGWTWTTWTTATTT AWTAAATAYAATTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 11 Combined Motif Reverse Complement Original Motif AAATWATAWTWAHW ATTTWATGAAA AAATTWWATKAAAW Direction: Forward Position #: 3 Overlap #: 11 Alignment: AAATWATAWTWAHW --ATTTWATGAAA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Reverse Complement Reverse Complement WTTTYATWWAATTT AWTTATGAAA AWTTAWKAAAATTT Direction: Forward Position #: 1 Overlap #: 10 Alignment: WTTTYATWWAATTT AWTTATGAAA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 14 Reverse Complement Reverse Complement AAATTTTYWTAAWT TTATTTWT WWATTTWTWTAAWT Direction: Forward Position #: 1 Overlap #: 8 Alignment: AAATTTTYWTAAWT TTATTTWT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 20 Combined Motif Reverse Complement Original Motif AWTTAWAWAAATWW TTMAAAGATTT AWTTMAAARAWTTW Direction: Forward Position #: 3 Overlap #: 11 Alignment: AWTTAWAWAAATWW --TTMAAAGATTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Reverse Complement Reverse Complement WAAWTMTTTYAAWT TWTAATCTAWGAA TWWAATCTWWKAAWT Direction: Forward Position #: 2 Overlap #: 12 Alignment: -WAAWTMTTTYAAWT TWTAATCTAWGAA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif Original Motif Original Motif TWWAATCTWWKAAWT HDAAATAATADD TWWAAWMTAWTAAWT Direction: Forward Position #: 3 Overlap #: 12 Alignment: TWWAATCTWWKAAWT --HDAAATAATADD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 3 Reverse Complement Reverse Complement AWTTAWTAYWTTWWA TWSTTTWAWTTTWT WWHTWTTATTTTWTA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AWTTAWTAYWTTWWA TWSTTTWAWTTTWT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 29 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIF1AARNT Mycn Original Motif Reverse Complement VBACGTGV GCCACGTGSD DSCACGTGSG Direction: Backward Position #: 2 Overlap #: 8 Alignment: -VBACGTGV- GCCACGTGSD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Reverse Complement Original Motif CSCACGTGSH VGCACGTGGH CSCACGTGGH Direction: Forward Position #: 1 Overlap #: 10 Alignment: CSCACGTGSH VGCACGTGGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Reverse Complement Original Motif DCCACGTGSG BCACCTGCABC DBCACSTGCABC Direction: Forward Position #: 2 Overlap #: 9 Alignment: DCCACGTGSG-- -BCACCTGCABC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Reverse Complement GBTGCASGTGBH SGGTCACGTGACCS SSKKCACGTGDCCS Direction: Forward Position #: 1 Overlap #: 12 Alignment: GBTGCASGTGBH-- SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Reverse Complement Reverse Complement SGGDCACGTGRYSS GCGGACGTTV SGSGSACGTKVYSS Direction: Forward Position #: 2 Overlap #: 10 Alignment: SGGDCACGTGRYSS -GCGGACGTTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif SGSGSACGTKVYSS DGVBCABTGDWGCGKRRCSR SGSDSMMSTGVHGCGKRRCSR Direction: Forward Position #: 2 Overlap #: 13 Alignment: SGSGSACGTKVYSS------- -DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 27 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Motif 7 Reverse Complement Original Motif GCCYCMCCCD CSKCCCCGCCCCSY CSGCCCCVCCCHSY Direction: Forward Position #: 3 Overlap #: 10 Alignment: --GCCYCMCCCD-- CSKCCCCGCCCCSY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Original Motif CSGCCCCVCCCHSY HVGCCCCGCCCCBB CSGCCCCGCCCCSB Direction: Forward Position #: 1 Overlap #: 14 Alignment: CSGCCCCVCCCHSY HVGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Reverse Complement VSGGGGCGGGGCSG BBGGGGCGGGGCGGB VSDGGGSGSGGSGSGGB Direction: Forward Position #: 3 Overlap #: 12 Alignment: VSGGGGCGGGGCSG--- --BBGGGGCGGGGCGGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Reverse Complement Reverse Complement BCCSCSCCSCSCCCHSB GCVCCGCCMCCYCC BCSCCCCSCCCCCYCCB Direction: Forward Position #: 3 Overlap #: 14 Alignment: BCCSCSCCSCSCCCHSB --GCVCCGCCMCCYCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Original Motif Original Motif BCSCCCCSCCCCCYCCB CYYCBBCYYYTCCHCCTYYY CHCCBBCCCCCCCCCCBYYY Direction: Forward Position #: 2 Overlap #: 17 Alignment: -BCSCCCCSCCCCCYCCB-- CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif KKKBGGGGGGGGGGBBGGDG RGRGGAGRRGGHGGDG KKKBGGRGGRGGRGGVGGDG Direction: Forward Position #: 5 Overlap #: 16 Alignment: KKKBGGGGGGGGGGBBGGDG ----RGRGGAGRRGGHGGDG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Original Motif KKKBGGRGGRGGRGGVGGDG BBVGCCBVGGCCTV BBBGBBBVGGCCTGGGVGGDG Direction: Forward Position #: 2 Overlap #: 13 Alignment: -KKKBGGRGGRGGRGGVGGDG BBVGCCBVGGCCTV------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SP1 Original Motif Reverse Complement BBBGBBBVGGCCTGGGVGGDG GGGGGYGGGG GGGGGBGGGGCCTGGGVGGDG Direction: Forward Position #: 1 Overlap #: 10 Alignment: BBBGBBBVGGCCTGGGVGGDG GGGGGYGGGG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Reverse Complement Reverse Complement CHCCVCCCAGGCCCCBCCCCC DCCACGTGCV DCCMCGYSCRGGCCCCBCCCCC Direction: Forward Position #: 2 Overlap #: 9 Alignment: -CHCCVCCCAGGCCCCBCCCCC DCCACGTGCV------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Reverse Complement DCCMCGYSCRGGCCCCBCCCCC MSGKKRCGCWDCABTGBBCD DCCMCSKBBRSGCHHCVBYBYBCD Direction: Forward Position #: 5 Overlap #: 18 Alignment: DCCMCGYSCRGGCCCCBCCCCC-- ----MSGKKRCGCWDCABTGBBCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 35 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GABPA TFM12 Reverse Complement Original Motif VVCACTTCCGG CYYCBBCYYYTCCHCCTYYY CYYCVBCHCTTCCGSCTYYY Direction: Forward Position #: 5 Overlap #: 11 Alignment: ----VVCACTTCCGG----- CYYCBBCYYYTCCHCCTYYY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM2 Original Motif Reverse Complement CYYCVBCHCTTCCGSCTYYY CHCCBCCKMCTCCKCM CHCCBSCDCYTCCKSCTYYY Direction: Forward Position #: 1 Overlap #: 16 Alignment: CYYCVBCHCTTCCGSCTYYY CHCCBCCKMCTCCKCM---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif KKKAGSYGGAKGDGSVGGDG DGVBCABTGDWGCGKRRCSR KKKDGVBVRVKGDRGVGKRGCSR Direction: Forward Position #: 4 Overlap #: 17 Alignment: KKKAGSYGGAKGDGSVGGDG--- ---DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Reverse Complement Reverse Complement MSGCMYCVCMDCRBMVVVCDYYY VAGGCCBBGGCVBB MSGCVASGCCBCGBCVVVCDYYY Direction: Forward Position #: 5 Overlap #: 14 Alignment: MSGCMYCVCMDCRBMVVVCDYYY ----VAGGCCBBGGCVBB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Reverse Complement Reverse Complement KKKDGVVVGBCGVGGCSTVGCSR GBTGCAGGTGB GTGBVVKSCAGKKKDGVVVGBCGVGGC Direction: Backward Position #: 5 Overlap #: 7 Alignment: KKKDGVVVGBCGVGGCSTVGCSR---- ----------------GBTGCAGGTGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wbgTAAATAww Combined Motif Reverse Complement Original Motif GCCBCGBCVVVCDYYYCTGSRVVBCAC DBGTAAATAHD GCCDBGTAMATMDHYYCTGSRVVBCAC Direction: Forward Position #: 4 Overlap #: 11 Alignment: GCCBCGBCVVVCDYYYCTGSRVVBCAC ---DBGTAAATAHD------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dhACATTCTkh Combined Motif Original Motif Original Motif GCCDBGTAMATMDHYYCTGSRVVBCAC DHACATTCTGH GCCDBGTAMATMDHYYCTGSRVVDHACATTCTGH Direction: Forward Position #: 24 Overlap #: 4 Alignment: GCCDBGTAMATMDHYYCTGSRVVBCAC------- -----------------------DHACATTCTGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Reverse Complement Original Motif HCAGAATGTDHVVKSCAGKKDDYATYTACBDGGC GGMGGRGGCGGVGC HCAGAATGKVVGVGGCRGDGBDYATYTACBDGGC Direction: Forward Position #: 8 Overlap #: 14 Alignment: HCAGAATGTDHVVKSCAGKKDDYATYTACBDGGC -------GGMGGRGGCGGVGC------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Reverse Complement Original Motif GCCDBGTAMATMDBCHCMGCCVCVBRCATTCTGH AATTYDGAARTAWW ARTAWWHAYTYRSAGCCDBGTAMATMDBCHCMGCCVCVBR Direction: Backward Position #: 7 Overlap #: 8 Alignment: GCCDBGTAMATMDBCHCMGCCVCVBRCATTCTGH------ --------------------------AATTYDGAARTAWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Original Motif ARTAWWHAYTYRSAGCCDBGTAMATMDBCHCMGCCVCVBR BCCGCCCCGCCCCBB ARTAWWHMYKCVCMGCCCCGBAMATMDBCHCMGCCVCVBR Direction: Forward Position #: 7 Overlap #: 15 Alignment: ARTAWWHAYTYRSAGCCDBGTAMATMDBCHCMGCCVCVBR ------BCCGCCCCGCCCCBB------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-20-2016 14:26:06 Runtime: 707.569 seconds MOTIFSIM is written by Ngoc Tam L. 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