**************************************************************************************************************************************************************************************************** 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 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-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 Combined Motif Original Motif Original Motif TWVHWWWYTTTYTTTTWTWTTHWTHDH AATHATATWTHAAA TWVHWWWYTTTYTTTWWTWWTATTTHAAA Direction: Forward Position #: 16 Overlap #: 12 Alignment: TWVHWWWYTTTYTTTTWTWTTHWTHDH-- ---------------AATHATATWTHAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Original Motif Reverse Complement TWVHWWWYTTTYTTTWWTWWTATTTHAAA WWTAKTTCDKAATT TWVHWWWYTTTYTTTWWTWTWDTTYDDAATT Direction: Forward Position #: 18 Overlap #: 12 Alignment: TWVHWWWYTTTYTTTWWTWWTATTTHAAA-- -----------------WWTAKTTCDKAATT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM1 Combined Motif Reverse Complement Reverse Complement AATTDDKAADWAWAWWAAAMAAAMWWWHBWA ABAAAAAAWHAAAAARAW AATTDDKAADWAWAWWAAVAAAAAAWDHDAAARAW Direction: Forward Position #: 18 Overlap #: 14 Alignment: AATTDDKAADWAWAWWAAAMAAAMWWWHBWA---- -----------------ABAAAAAAWHAAAAARAW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Reverse Complement Original Motif WTKTTTDHDWTTTTTTBTTWWTWTWDTTYDDAATT WWHTTTTTCABAAWTTWA WTKTTTDHDWTTTTTTBTTWWWWTWKTTCWDAATTTWA Direction: Forward Position #: 21 Overlap #: 15 Alignment: WTKTTTDHDWTTTTTTBTTWWTWTWDTTYDDAATT--- --------------------WWHTTTTTCABAAWTTWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif TWAAATTDWGAARWAWWWWAAVAAAAAAWDHDAAARAW ATKAAWTTTTRMAABAHHTW TWAAATTDWGAARWAWWWWAAVAWAAAAWTHWAAAAWAHHTW Direction: Forward Position #: 23 Overlap #: 16 Alignment: TWAAATTDWGAARWAWWWWAAVAAAAAAWDHDAAARAW---- ----------------------ATKAAWTTTTRMAABAHHTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 4 Combined Motif Original Motif Original Motif TWAAATTDWGAARWAWWWWAAVAWAAAAWTHWAAAAWAHHTW AAAAWTTRCWT TWAAATTDWGAARWAWWWWAAVAWAAAAAWWTWAMHWAHHTW Direction: Forward Position #: 27 Overlap #: 11 Alignment: TWAAATTDWGAARWAWWWWAAVAWAAAAWTHWAAAAWAHHTW --------------------------AAAAWTTRCWT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Reverse Complement WAHHTWHYTWAWWTTTTTWTBTTWWWWTWKTTCWDAATTTWA TWSTTTWAWTTTWT WAHHTWHYTWAWWTTTTTWTBTTWWWWTWBTTYWHAWTTWTA Direction: Forward Position #: 28 Overlap #: 14 Alignment: WAHHTWHYTWAWWTTTTTWTBTTWWWWTWKTTCWDAATTTWA ---------------------------TWSTTTWAWTTTWT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 TWAMATTCTGWAAAAHWW Direction: Backward Position #: 8 Overlap #: 11 Alignment: DHACATTCTGH------- TWAAWTTVTGAAAAAHWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Original Motif Original Motif TWAMATTCTGWAAAAHWW BCACCTGCABC BHACMTKCWGHAAAAHWW Direction: Forward Position #: 1 Overlap #: 11 Alignment: TWAMATTCTGWAAAAHWW BCACCTGCABC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 16 Reverse Complement Original Motif WWHTTTTDCWGYARGTDV ACAAWTRATTTTGA ACAAWTDATTTTGMWGYARGTDV Direction: Forward Position #: 6 Overlap #: 9 Alignment: -----WWHTTTTDCWGYARGTDV ACAAWTRATTTTGA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif Reverse Complement Original Motif BHACMTKCWYCAAAATDAWTTGT HDAAATAATADD BHACMTDMAWYAAWATDAWTTGT Direction: Forward Position #: 6 Overlap #: 12 Alignment: BHACMTKCWYCAAAATDAWTTGT -----HDAAATAATADD------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM11 Combined Motif Original Motif Reverse Complement BHACMTDMAWYAAWATDAWTTGT TWVHWWWYTTTYTTTTTHTTTVWBH BHACMTDMAWTAAWAWWWWTTGTTTTTHTTTVWBH Direction: Forward Position #: 11 Overlap #: 13 Alignment: BHACMTDMAWYAAWATDAWTTGT------------ ----------TWVHWWWYTTTYTTTTTHTTTVWBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Reverse Complement BHACMTDMAWTAAWAWWWWTTGTTTTTHTTTVWBH WAHHTVTTYKAAAAWTTRAT BHACMTDMAWTAAWAWWWWTTDTHTDTTTTWVAWWTTRAT Direction: Forward Position #: 21 Overlap #: 15 Alignment: BHACMTDMAWTAAWAWWWWTTGTTTTTHTTTVWBH----- --------------------WAHHTVTTYKAAAAWTTRAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- tkAAATAATAtw Combined Motif Original Motif Reverse Complement BHACMTDMAWTAAWAWWWWTTDTHTDTTTTWVAWWTTRAT WHTATTATTTDH BHACMTDMAWTAAWAWWWWTTDTHTDTHTWTTATTTWDAT Direction: Forward Position #: 27 Overlap #: 12 Alignment: BHACMTDMAWTAAWAWWWWTTDTHTDTTTTWVAWWTTRAT --------------------------WHTATTATTTDH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Reverse Complement Reverse Complement ATDWAAATAAWAHADAHADAAWWWWTWTTAWTRDARGTDV WWTAKTTCDKAATT ATDWAAATAAWAHADAHADAAWWWWWWTWDTTVDDARTWV Direction: Forward Position #: 26 Overlap #: 14 Alignment: ATDWAAATAAWAHADAHADAAWWWWTWTTAWTRDARGTDV -------------------------WWTAKTTCDKAATT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kCAGCCAATmr Reverse Complement Original Motif BWAKTDDVAADWAWWWWWWTTDTHTDTHTWTTATTTWDAT DCAGCCAATVR DCAGCCAATDDDVAADWAWWWWWWTTDTHTDTHTWTTATTTWDAT Direction: Forward Position #: 6 Overlap #: 6 Alignment: -----BWAKTDDVAADWAWWWWWWTTDTHTDTHTWTTATTTWDAT DCAGCCAATVR---------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif GABPA Reverse Complement Original Motif ATDWAAATAAWAHADAHADAAWWWWWWTWDTTVDHDATTGGCTGH CCGGAAGTGVV CCGGAARTDDHAATAAWAHADAHADAAWWWWWWTWDTTVDHDATTGGCTGH Direction: Forward Position #: 7 Overlap #: 5 Alignment: ------ATDWAAATAAWAHADAHADAAWWWWWWTWDTTVDHDATTGGCTGH CCGGAAGTGVV---------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 Reverse Complement Reverse Complement GGGGGYGGGG MSGGGGCGGGGYSG MGGGGGCGGGGYSG Direction: Backward Position #: 4 Overlap #: 10 Alignment: -GGGGGYGGGG--- MSGGGGCGGGGYSG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Reverse Complement Original Motif CSKCCCCGCCCCCY HVGCCCCGCCCCBB CSGCCCCGCCCCSB Direction: Forward Position #: 1 Overlap #: 14 Alignment: CSKCCCCGCCCCCY HVGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Reverse Complement VSGGGGCGGGGCSG BBGGGGCGGGGCGGB VBGGGGCGGGGCGGB Direction: Forward Position #: 1 Overlap #: 14 Alignment: VSGGGGCGGGGCSG- BBGGGGCGGGGCGGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Reverse Complement Reverse Complement BCCGCCCCGCCCCBV GCVCCGCCMCCYCC SCVSCSCCVCCCCCV Direction: Forward Position #: 1 Overlap #: 14 Alignment: BCCGCCCCGCCCCBV GCVCCGCCMCCYCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM12 Reverse Complement Reverse Complement VGGGGGVGGSGSVGS KKKAGGDGGAKKMGBBGKMG KKKAGGDGGAKKMGBBGGVGVGGSGSVGS Direction: Forward Position #: 15 Overlap #: 6 Alignment: --------------VGGGGGVGGSGSVGS KKKAGGDGGAKKMGBBGKMG--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Original Motif Original Motif KKKAGGDGGAKKMGBBGGVGVGGSGSVGS RGRGGAGRRGGHGGDG KKKAGGDGGAKKMGBBGGRGVRGGGGGVGGDG Direction: Forward Position #: 17 Overlap #: 13 Alignment: KKKAGGDGGAKKMGBBGGVGVGGSGSVGS--- ----------------RGRGGAGRRGGHGGDG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Original Motif Original Motif KKKAGGDGGAKKMGBBGGRGVRGGGGGVGGDG BBVGCCBVGGCCTV KKKAGGDGGAKKMGBBGGRGVVGGSSBVGGCSTV Direction: Forward Position #: 21 Overlap #: 12 Alignment: KKKAGGDGGAKKMGBBGGRGVRGGGGGVGGDG-- --------------------BBVGCCBVGGCCTV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF1 Combined Motif Original Motif Original Motif KKKAGGDGGAKKMGBBGGRGVVGGSSBVGGCSTV CGGVGCCGCVGC KKKAGGDGGAKKMGBBGGRGVVGGVGCVGSVGYV Direction: Forward Position #: 22 Overlap #: 12 Alignment: KKKAGGDGGAKKMGBBGGRGVVGGSSBVGGCSTV ---------------------CGGVGCCGCVGC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PLAG1 Combined Motif Reverse Complement Reverse Complement VMCVSCVGCVCCVVCKCCBBCYYYTCCHCCTYYY CCCCCTTGGGCCCC VMCVSCVGCCCCCCYTVSSCCCCYTCCHCCTYYY Direction: Forward Position #: 10 Overlap #: 14 Alignment: VMCVSCVGCVCCVVCKCCBBCYYYTCCHCCTYYY ---------CCCCCTTGGGCCCC----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Combined Motif Reverse Complement Original Motif KKKAGGDGGAKGGGGSSVAKGGGGGGCVGSVGYV DGGGYGKGGC KKKAGGDGGAKGGGGSSVAKGGGGGGYGGGGSYV Direction: Forward Position #: 23 Overlap #: 10 Alignment: KKKAGGDGGAKGGGGSSVAKGGGGGGCVGSVGYV ----------------------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 YCGCCCACGCM Direction: Backward Position #: 1 Overlap #: 6 Alignment: -----CACGCM YCGCCCACGCH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Reverse Complement Original Motif YGCGTGGGCGK VBACGTGV VBRCGTGGGCGK Direction: Forward Position #: 2 Overlap #: 7 Alignment: -YGCGTGGGCGK VBACGTGV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement VBRCGTGGGCGK GCCACGTGSD GSCACGTGSGCGK Direction: Forward Position #: 2 Overlap #: 9 Alignment: -VBRCGTGGGCGK GCCACGTGSD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Reverse Complement GSCACGTGSGCGK BBGGGGCGGGGCVD BBGGSGCGKGGSVGK Direction: Forward Position #: 3 Overlap #: 12 Alignment: --GSCACGTGSGCGK BBGGGGCGGGGCVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Original Motif BBGGSGCGKGGSVGK VGCACGTGGH VGCACGBGGCGKGGSVGK Direction: Forward Position #: 4 Overlap #: 7 Alignment: ---BBGGSGCGKGGSVGK VGCACGTGGH-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 1 Reverse Complement Reverse Complement YCVSCCYCGCCVCGTGCV GCCCCGCC GCCCCSCCCGCCVCGTGCV Direction: Forward Position #: 2 Overlap #: 7 Alignment: -YCVSCCYCGCCVCGTGCV GCCCCGCC----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Reverse Complement VGCACGBGGCGGGSGGGGC SGGTCACGTGACCS SGSBCACGTGRCSGGSGGGGC Direction: Forward Position #: 3 Overlap #: 12 Alignment: --VGCACGBGGCGGGSGGGGC SGGTCACGTGACCS------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Original Motif GCCCCSCCSGKCACGTGVSCS BCCGCCCCGCCCCBB GCCCCGCCCSGCMCSTGVSCS Direction: Forward Position #: 3 Overlap #: 15 Alignment: GCCCCSCCSGKCACGTGVSCS --BCCGCCCCGCCCCBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Original Motif Original Motif GCCCCGCCCSGCMCSTGVSCS CSKCCCCGCCCCSY GCCCCGCCCCGCCCCBBVSCS Direction: Forward Position #: 4 Overlap #: 14 Alignment: GCCCCGCCCSGCMCSTGVSCS ---CSKCCCCGCCCCSY---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW2 Combined Motif Original Motif Reverse Complement GCCCCGCCCCGCCCCBBVSCS CCGCGCGS GCCCCGCCSCGCSCCBBVSCS Direction: Forward Position #: 7 Overlap #: 8 Alignment: GCCCCGCCCCGCCCCBBVSCS ------CCGCGCGS------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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: 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 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 Original Motif AATBRWAAAWWAHW AATHATATWTHAAA AATHRTAWWTHAAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AATBRWAAAWWAHW AATHATATWTHAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM3 Reverse Complement Original Motif TTTHAWWTAKHATT WWHTTTTTCABAAWTTWA WWHTTTTTCABAAWTTWAWWTAKHATT Direction: Forward Position #: 14 Overlap #: 5 Alignment: -------------TTTHAWWTAKHATT WWHTTTTTCABAAWTTWA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif AATHRTAWWTWAAWTTVTGAAAAAHWW DGVBCABTGDWGCGKRRCSR AATHRTAWWTDRHDYWVTGAWRMRDDDCSR Direction: Forward Position #: 11 Overlap #: 17 Alignment: AATHRTAWWTWAAWTTVTGAAAAAHWW--- ----------DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Reverse Complement Original Motif MSGDDDKYMWTCAVWMDHKDAWWTAKHATT ATKAAWTTTTRMAABAHHTW MSGDDDKYMWTCAVWMATKWAWWTWTRAWWBAHHTW Direction: Forward Position #: 17 Overlap #: 14 Alignment: MSGDDDKYMWTCAVWMDHKDAWWTAKHATT------ ----------------ATKAAWTTTTRMAABAHHTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Reverse Complement Original Motif WAHHTVWWTKAWAWWTWRATYWVTGAWRMRDDDCSR TTCWTAGATTAWA TWCWTADATTAWAWWTWRATYWVTGAWRMRDDDCSR Direction: Forward Position #: 1 Overlap #: 13 Alignment: WAHHTVWWTKAWAWWTWRATYWVTGAWRMRDDDCSR TTCWTAGATTAWA----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 TTTTATTGTYAT Direction: Backward Position #: 7 Overlap #: 6 Alignment: TTTTAT------ TTTTATTGTYAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Original Motif TTTTATTGTYAT ATTTWATGAAA WTTTAWTGWHAT Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTTTATTGTYAT ATTTWATGAAA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif WTTTAWTGWHAT AWTAAATAYAATTT ATTWAATRHAATTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: WTTTAWTGWHAT-- AWTAAATAYAATTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 8 Combined Motif Original Motif Reverse Complement ATTWAATRHAATTT TGATTTTAWKATTT WKWTWWTAWDATTT Direction: Forward Position #: 1 Overlap #: 14 Alignment: ATTWAATRHAATTT TGATTTTAWKATTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Reverse Complement Reverse Complement AAATDWTAWWAWYW AWTTATGAAA AAWTATKAAAAWYW Direction: Forward Position #: 1 Overlap #: 10 Alignment: AAATDWTAWWAWYW AWTTATGAAA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 14 Reverse Complement Reverse Complement WKWTTTTYATAWTT TTATTTWT TTATTTTTATAWTT Direction: Forward Position #: 1 Overlap #: 8 Alignment: WKWTTTTYATAWTT TTATTTWT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 20 Reverse Complement Reverse Complement AAWTATAAAAATAA AAATCTTTYAA AAATMTWWHAATAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: AAWTATAAAAATAA AAATCTTTYAA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Reverse Complement Reverse Complement TTATTHWWARATTT TWTAATCTAWGAA TWTAWTCTAAGAWTT Direction: Forward Position #: 2 Overlap #: 12 Alignment: -TTATTHWWARATTT TWTAATCTAWGAA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif Original Motif Original Motif TWTAWTCTAAGAWTT HDAAATAATADD TWTAWWMTAAKAWTT Direction: Forward Position #: 3 Overlap #: 12 Alignment: TWTAWTCTAAGAWTT --HDAAATAATADD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Reverse Complement AAWTRTTAYWWTAWA TWSTTTWAWTTTWT WWHTWTTAWTTTAWA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAWTRTTAYWWTAWA 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 GSCACGTGSD Direction: Forward Position #: 2 Overlap #: 8 Alignment: -VBACGTGV- GCCACGTGSD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Reverse Complement GSCACGTGSD DCCACGTGCV GCCACGTGSV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSD DCCACGTGCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Reverse Complement Reverse Complement VSCACGTGGC GBTGCAGGTGB GBTGCASGTGBC Direction: Forward Position #: 3 Overlap #: 9 Alignment: --VSCACGTGGC GBTGCAGGTGB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Original Motif Reverse Complement GBTGCASGTGBC SGGTCACGTGACCS SSKKCACGTGDCCS Direction: Forward Position #: 1 Overlap #: 12 Alignment: GBTGCASGTGBC-- SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Reverse Complement Reverse Complement SGGDCACGTGRYSS GCGGACGTTV GCGGACGKTCACGTGRYSS Direction: Forward Position #: 6 Overlap #: 5 Alignment: -----SGGDCACGTGRYSS GCGGACGTTV--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Reverse Complement Reverse Complement SSKKCACGTGARCGTCCGC MSGKKRCGCWDCABTGBBCD MSGKKRCGCWDCABTGBBHCACGTGARCGTCCGC Direction: Forward Position #: 16 Overlap #: 5 Alignment: ---------------SSKKCACGTGARCGTCCGC MSGKKRCGCWDCABTGBBCD-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dhACATTCTkh Combined Motif Reverse Complement Original Motif GCGGACGKTCACGTGDBBCABTGDWGCGKRYCSR DHACATTCTGH GCGGACGKDHACRTTCTKHABTGDWGCGKRYCSR Direction: Forward Position #: 9 Overlap #: 11 Alignment: GCGGACGKTCACGTGDBBCABTGDWGCGKRYCSR --------DHACATTCTGH--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif GABPA Original Motif Original Motif GCGGACGKDHACRTTCTKHABTGDWGCGKRYCSR CCGGAAGTGVV SCGGAMGTDVACRTTCTKHABTGDWGCGKRYCSR Direction: Forward Position #: 1 Overlap #: 11 Alignment: GCGGACGKDHACRTTCTKHABTGDWGCGKRYCSR CCGGAAGTGVV----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFW2 Original Motif Original Motif SCGGAMGTDVACRTTCTKHABTGDWGCGKRYCSR SCGCGCGG SCGSRCGKDVACRTTCTKHABTGDWGCGKRYCSR Direction: Forward Position #: 1 Overlap #: 8 Alignment: SCGGAMGTDVACRTTCTKHABTGDWGCGKRYCSR SCGCGCGG-------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif SCGSRCGKDVACRTTCTKHABTGDWGCGKRYCSR GGMGGRGGCGGVGC SCGSRCGGGVVSRKKCKGVRSTGDWGCGKRYCSR Direction: Forward Position #: 8 Overlap #: 14 Alignment: SCGSRCGKDVACRTTCTKHABTGDWGCGKRYCSR -------GGMGGRGGCGGVGC------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Original Motif Original Motif CSGCCCCVCCCHSY HVGCCCCGCCCCBB CSGCCCCGCCCCSB Direction: Forward Position #: 1 Overlap #: 14 Alignment: CSGCCCCVCCCHSY HVGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Reverse Complement Reverse Complement VSGGGGCGGGGCSG BBGGGGCGGGGCGGB BBGGGGCGGGGCSGGGGCGGGGCSG Direction: Forward Position #: 12 Overlap #: 4 Alignment: -----------VSGGGGCGGGGCSG BBGGGGCGGGGCGGB---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif BBGGGGCGGGGCSGGGGCGGGGCSG GGMGGRGGCGGVGC BBGGGGCGGGGCSGGGGSGGGGCGGVGC Direction: Forward Position #: 15 Overlap #: 11 Alignment: BBGGGGCGGGGCSGGGGCGGGGCSG--- --------------GGMGGRGGCGGVGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Reverse Complement BBGGGGCGGGGCSGGGGSGGGGCGGVGC KKKAGGDGGAKKMGBBGKMG BBGGGGCGGGGCSGGGGBRGGGSGRDGMGBBGKMG Direction: Forward Position #: 16 Overlap #: 13 Alignment: BBGGGGCGGGGCSGGGGSGGGGCGGVGC------- ---------------KKKAGGDGGAKKMGBBGKMG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Reverse Complement CYYCBBCRCHMCSCCCMBCCCCSGCCCCGCCCCBB CHCCBCCKMCTCCKCM CYYCBBCRCHMCSCCCMBCCCCHVCCCCGCCYCCBCM Direction: Forward Position #: 22 Overlap #: 14 Alignment: CYYCBBCRCHMCSCCCMBCCCCSGCCCCGCCCCBB-- ---------------------CHCCBCCKMCTCCKCM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Reverse Complement Original Motif RGVGGKGGCGGGGVDGGGGBRGGGSGRDGMGBBGKMG BBVGCCBVGGCCTV RGVGGKGGCGGGGVDGGGGBRGGGSGVGSCGVGGCCKV Direction: Forward Position #: 25 Overlap #: 13 Alignment: RGVGGKGGCGGGGVDGGGGBRGGGSGRDGMGBBGKMG- ------------------------BBVGCCBVGGCCTV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Reverse Complement Original Motif VYGGCCVCGSCVCSCCCMBCCCCHVCCCCGCCYCCBCM CCCCKCCCCC VYGGCCVCGSCVCSCCCMBCCCCHVCCCCKCCYCCBCM Direction: Forward Position #: 26 Overlap #: 10 Alignment: VYGGCCVCGSCVCSCCCMBCCCCHVCCCCGCCYCCBCM -------------------------CCCCKCCCCC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement VYGGCCVCGSCVCSCCCMBCCCCHVCCCCKCCYCCBCM DCCACGTGCV VYGGCCVCGSCVCBCCMCGTSCVHVCCCCKCCYCCBCM Direction: Forward Position #: 14 Overlap #: 10 Alignment: VYGGCCVCGSCVCSCCCMBCCCCHVCCCCKCCYCCBCM -------------DCCACGTGCV--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif RGVGGKGGYGGGGVDVGSACGYGGBGVGSCGVGGCCKV DGVBCABTGDWGCGKRRCSR RGVGGKGGYGGGGVDVGSACGYGGVBVDBYGVDGCVKRRCSR Direction: Forward Position #: 23 Overlap #: 16 Alignment: RGVGGKGGYGGGGVDVGSACGYGGBGVGSCGVGGCCKV---- ----------------------DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif KKKAGSCGGAAGHGBVGKMG RGRGGAGRRGGHGGDG KKGRRGVRGRAGBVGVGGMG Direction: Forward Position #: 3 Overlap #: 16 Alignment: KKKAGSCGGAAGHGBVGKMG --RGRGGAGRRGGHGGDG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif KKGRRGVRGRAGBVGVGGMG DGVBCABTGDWGCGKRRCSR KKGRRGVRGRRGBVVVBGHGGCGKRRCSR Direction: Forward Position #: 10 Overlap #: 11 Alignment: KKGRRGVRGRAGBVGVGGMG--------- ---------DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Reverse Complement Original Motif MSGKKRCGCCHCVVBVBCKKCMVCMMCYY BBVGCCBVGGCCTV MSGKKRCGCCHCVVBVBCBBCVSCBVGSCCTV Direction: Forward Position #: 19 Overlap #: 11 Alignment: MSGKKRCGCCHCVVBVBCKKCMVCMMCYY--- ------------------BBVGCCBVGGCCTV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kcACCTGCAgc Reverse Complement Reverse Complement VAGGSCBBGSVGBBGBVVVBGHGGCGKRYCSR GBTGCAGGTGB GBTGCAGGTVBBGSVGBBGBVVVBGHGGCGKRYCSR Direction: Forward Position #: 5 Overlap #: 7 Alignment: ----VAGGSCBBGSVGBBGBVVVBGHGGCGKRYCSR GBTGCAGGTGB------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wbgTAAATAww Reverse Complement Reverse Complement MSGKKRCGCCHCVVBVBCBBCVSCBVVACCTGCABC DHTATTTACBD DHTATTTACGDKRCGCCHCVVBVBCBBCVSCBVVACCTGCABC Direction: Forward Position #: 8 Overlap #: 4 Alignment: -------MSGKKRCGCCHCVVBVBCBBCVSCBVVACCTGCABC DHTATTTACBD-------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Reverse Complement Reverse Complement GBTGCAGGTVBBGSVGBBGBVVVBGHGGCGKRDCGTAAATAHD HCAGAATGTHD VCWGMAKGTHDBGSVGBBGBVVVBGHGGCGKRDCGTAAATAHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: GBTGCAGGTVBBGSVGBBGBVVVBGHGGCGKRDCGTAAATAHD HCAGAATGTHD-------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Reverse Complement VCWGMAKGTHDBGSVGBBGBVVVBGHGGCGKRDCGTAAATAHD GCVCCGCCMCCYCC VCWGMAKGTHDBGGCVCCGCCVCBBMVGCGKRDCGTAAATAHD Direction: Forward Position #: 14 Overlap #: 14 Alignment: VCWGMAKGTHDBGSVGBBGBVVVBGHGGCGKRDCGTAAATAHD -------------GCVCCGCCMCCYCC---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Reverse Complement Reverse Complement DHTATTTACGDKRCGCVRBBGBGGCGGVGCCBDDACRTYCWGV WWTAKTTCDKAATT WWTATTTMBKADWHGCVRBBGBGGCGGVGCCBDDACRTYCWGV Direction: Forward Position #: 1 Overlap #: 14 Alignment: DHTATTTACGDKRCGCVRBBGBGGCGGVGCCBDDACRTYCWGV WWTAKTTCDKAATT----------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Reverse Complement WWTATTTMBKADWHGCVRBBGBGGCGGVGCCBDDACRTYCWGV BBGGGGCGGGGCGGB WWTATTTHBGRGKCGSGGCGGBGGCGGVGCCBDDACRTYCWGV Direction: Forward Position #: 8 Overlap #: 15 Alignment: WWTATTTMBKADWHGCVRBBGBGGCGGVGCCBDDACRTYCWGV -------BBGGGGCGGGGCGGB--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-20-2016 22:10:51 Runtime: 822.546 seconds MOTIFSIM is written by Ngoc Tam L. 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