**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.2 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 5 Number of top significant motifs: 5 Number of best matches: 5 Similarity cutoff: >= 0.75 Matching motif database: UniProbe Homo Sapiens Motif tree: Yes Combined similar motifs: Yes Output file type: All Output file format: PDF 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_DM05.txt 11 5 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ************************************************************ Combined Motifs for Top Global Significant Motif ID 46 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFW3 wsTACwGTAsw Reverse Complement Reverse Complement CAGTGC DBTACWGTAVH HCAGTRSDBTA Direction: Backward Position #: 2 Overlap #: 6 Alignment: ----CAGTGC- DBTACWGTAVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Original Motif Reverse Complement HCAGTRSDBTA MSGKKRCGCWDCABTGBBCD MSGKKDCRSTDCVBTABBCD Direction: Forward Position #: 6 Overlap #: 11 Alignment: -----HCAGTRSDBTA---- MSGKKRCGCWDCABTGBBCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Original Motif MSGKKDCRSTDCVBTABBCD VGCACGTGGH VGCACGTGGCRSTDCVBTABBCD Direction: Forward Position #: 4 Overlap #: 7 Alignment: ---MSGKKDCRSTDCVBTABBCD VGCACGTGGH------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif GABPA Original Motif Original Motif VGCACGTGGCRSTDCVBTABBCD CCGGAAGTGVV CCGSAMGTGVCRSTDCVBTABBCD Direction: Forward Position #: 2 Overlap #: 10 Alignment: -VGCACGTGGCRSTDCVBTABBCD CCGGAAGTGVV------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Original Motif Reverse Complement CCGSAMGTGVCRSTDCVBTABBCD BBGGGGCGGGGCGGB BCSGGRCGKGGCRSDDCVBTABBCD Direction: Forward Position #: 2 Overlap #: 14 Alignment: -CCGSAMGTGVCRSTDCVBTABBCD BBGGGGCGGGGCGGB---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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 Motif 9 Reverse Complement Original Motif DHTATTTACBD AATHATATWTHAAA AAAAWTAWTWWHTH Direction: Backward Position #: 4 Overlap #: 11 Alignment: DHTATTTACBD--- AATHATATWTHAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM3 Original Motif Reverse Complement AAAAWTAWTWWHTH BTTHAAAAAAYAAAAAAR BTTHAAAAAAHAWAAWAAHTH Direction: Forward Position #: 8 Overlap #: 11 Alignment: -------AAAAWTAWTWWHTH BTTHAAAAAAYAAAAAAR--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Reverse Complement Reverse Complement HADTTWTTWTHTTTTTTDAAB WWTAKTTCDKAATT HADTTWTTWTTWTTTYTKAATT Direction: Forward Position #: 9 Overlap #: 13 Alignment: HADTTWTTWTHTTTTTTDAAB- --------WWTAKTTCDKAATT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Original Motif HADTTWTTWTTWTTTYTKAATT TTTTTTTKTTKTTTAATTHW HADTTWTTWTTTTTTTKTWWTTTAATTHW Direction: Forward Position #: 10 Overlap #: 13 Alignment: HADTTWTTWTTWTTTYTKAATT------- ---------TTTTTTTKTTKTTTAATTHW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 4 Combined Motif Reverse Complement Original Motif WHAATTAAAWWARAAAAAAAWAAWAAHTH AAAAWTTRCWT WHAATTAAAWWAAAAAAWWAHAWWAAHTH Direction: Forward Position #: 13 Overlap #: 11 Alignment: WHAATTAAAWWARAAAAAAAWAAWAAHTH ------------AAAAWTTRCWT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 2 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 TFM12 Original Motif Original Motif RGRAGARRGARRAR RAGKGMAGVRRGSRCASAGV RAGRGVAGARRGVRVARAGV Direction: Forward Position #: 4 Overlap #: 14 Alignment: ---RGRAGARRGARRAR--- RAGKGMAGVRRGSRCASAGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif RAGRGVAGARRGVRVARAGV DGVBCABTGDWGCGKRRCSR RAGRGVAGDRRBVRVHGADGCGKRRCSR Direction: Forward Position #: 9 Overlap #: 12 Alignment: RAGRGVAGARRGVRVARAGV-------- --------DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif MSGKKRCGCHTCHVKVBMMDCTBCKCTK CHHCHBTCCTSCYTCTGC MSGKKRCGCHTCHVHVHHHBCTSCBYYTGC Direction: Forward Position #: 13 Overlap #: 16 Alignment: MSGKKRCGCHTCHVKVBMMDCTBCKCTK-- ------------CHHCHBTCCTSCYTCTGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Original Motif Original Motif MSGKKRCGCHTCHVHVHHHBCTSCBYYTGC KTTTTTTKTTTTTTDAAB MSGKKRCGCHTCHVHVHHHBCTSCBTTTKYTKTTTTTTDAAB Direction: Forward Position #: 25 Overlap #: 6 Alignment: MSGKKRCGCHTCHVHVHHHBCTSCBYYTGC------------ ------------------------KTTTTTTKTTTTTTDAAB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM13 Combined Motif Original Motif Original Motif MSGKKRCGCHTCHVHVHHHBCTSCBTTTKYTKTTTTTTDAAB TTTTTTTKTTKTTTAATTHW MSGKKRCGCHTCHVHVHHHTYTKYTTTTTTTKTWWTTHWAAB Direction: Forward Position #: 20 Overlap #: 20 Alignment: MSGKKRCGCHTCHVHVHHHBCTSCBTTTKYTKTTTTTTDAAB -------------------TTTTTTTKTTKTTTAATTHW--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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 YSGGGGGGCGGGGM Direction: Backward Position #: 4 Overlap #: 10 Alignment: -GGGGGYGGGG--- MSGGGGCGGGGYSG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Original Motif Reverse Complement YSGGGGGGCGGGGM BBGGGGCGGGGCVD YSGGGGGGSGGSGGGGCVD Direction: Forward Position #: 6 Overlap #: 9 Alignment: YSGGGGGGCGGGGM----- -----BBGGGGCGGGGCVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Reverse Complement YSGGGGGGSGGSGGGGCVD BBGGGGCGGGGCGGB YSGGGGGGSGGGGCGGSGCGGB Direction: Forward Position #: 8 Overlap #: 12 Alignment: YSGGGGGGSGGSGGGGCVD--- -------BBGGGGCGGGGCGGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM2 Combined Motif Reverse Complement Original Motif BCCGCSCCGCCCCSCCCCCCSK CHHCHBTCCTSCYTCTGC BCCGCSCCGCCCCBBBCCBSCBTCTGC Direction: Forward Position #: 10 Overlap #: 13 Alignment: BCCGCSCCGCCCCSCCCCCCSK----- ---------CHHCHBTCCTSCYTCTGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Reverse Complement BCCGCSCCGCCCCBBBCCBSCBTCTGC VCTSTGKSCMKBCTRCYCTK BCCGCSCCGCCHCHSTSBBCCBHCTGCYCTK Direction: Forward Position #: 12 Overlap #: 16 Alignment: BCCGCSCCGCCCCBBBCCBSCBTCTGC---- -----------VCTSTGKSCMKBCTRCYCTK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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 TFM2 Reverse Complement Reverse Complement GBTGCAGGTGB GCAGAKGSAGGABDGHDG GHDGGHTGCAGGTBDGCA Direction: Backward Position #: 5 Overlap #: 11 Alignment: ---GBTGCAGGTGB---- GCAGAKGSAGGABDGHDG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Reverse Complement Original Motif TGCHBACCTGCAHCCHHC CTGCTGBDBBDGBD TGCHBACCTGCWGCBBHHGBD Direction: Forward Position #: 8 Overlap #: 11 Alignment: TGCHBACCTGCAHCCHHC--- -------CTGCTGBDBBDGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Original Motif Original Motif TGCHBACCTGCWGCBBHHGBD RAGKGMAGVRRGSRCASAGV TGCHBACCDRSDGCHGHVGVVRCASAGV Direction: Forward Position #: 9 Overlap #: 13 Alignment: TGCHBACCTGCWGCBBHHGBD------- --------RAGKGMAGVRRGSRCASAGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TFM1 Reverse Complement Reverse Complement VCTSTGKVVCBDCHGCDSMDGGTBDGCA TGTGTGWGTGTGTGTGTG TGTGTGDSTGTGTGTVTDCHGCDSMDGGTBDGCA Direction: Forward Position #: 7 Overlap #: 12 Alignment: ------VCTSTGKVVCBDCHGCDSMDGGTBDGCA TGTGTGWGTGTGTGTGTG---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Original Motif Reverse Complement TGTGTGDSTGTGTGTVTDCHGCDSMDGGTBDGCA MSGGGGCGGGGYSG TVKGKGGCKGKGYGBVTDCHGCDSMDGGTBDGCA Direction: Forward Position #: 2 Overlap #: 14 Alignment: TGTGTGDSTGTGTGTVTDCHGCDSMDGGTBDGCA -MSGGGGCGGGGYSG------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-24-2023 16:08:01 Runtime: 118.467 seconds MOTIFSIM is written by Ngoc Tam L. 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