**************************************************************************************************************************************************************************************************** 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 and Local 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 DBTACAGTRSH Direction: Forward Position #: 5 Overlap #: 6 Alignment: ----CAGTGC- DBTACWGTAVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Original Motif Original Motif DBTACAGTRSH DGVBCABTGDWGCGKRRCSR DVTACAGTRVDGCGKRRCSR Direction: Forward Position #: 1 Overlap #: 11 Alignment: DBTACAGTRSH--------- DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM12 Combined Motif Reverse Complement Original Motif MSGKKRCGCDBMACTGTAVD RAGKGMAGVRRGSRCASAGV MSGKKRCGCADVRCWGDAVDSRCASAGV Direction: Forward Position #: 9 Overlap #: 12 Alignment: MSGKKRCGCDBMACTGTAVD-------- --------RAGKGMAGVRRGSRCASAGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Reverse Complement Reverse Complement VCTSTGKSHVTDCWGKVHTGCGKRYCSR DCCACGTGCV DCYMYGTGCVTDCWGKVHTGCGKRYCSR Direction: Forward Position #: 1 Overlap #: 10 Alignment: VCTSTGKSHVTDCWGKVHTGCGKRYCSR DCCACGTGCV------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif GABPA Original Motif Reverse Complement DCYMYGTGCVTDCWGKVHTGCGKRYCSR VVCACTTCCGG VCCMCKTSCGKDCWGKVHTGCGKRYCSR Direction: Forward Position #: 1 Overlap #: 11 Alignment: DCYMYGTGCVTDCWGKVHTGCGKRYCSR VVCACTTCCGG----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwAAATAATAtw Combined Motif Original Motif Original Motif DHRWWAATAHDH HDAAATAATADD DHRWWAAWATAWTADD Direction: Forward Position #: 5 Overlap #: 8 Alignment: DHRWWAATAHDH---- ----HDAAATAATADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 Combined Motif Reverse Complement Original Motif DDTAWTATWTTWWKHD AATHATATWTHAAA DDTAWTAWWTWWATWTHAAA Direction: Forward Position #: 7 Overlap #: 10 Alignment: DDTAWTATWTTWWKHD---- ------AATHATATWTHAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFM3 Combined Motif Original Motif Reverse Complement DDTAWTAWWTWWATWTHAAA BTTHAAAAAAYAAAAAAR DDTAWTAWBTTWAWWWAAMAAAAAAR Direction: Forward Position #: 9 Overlap #: 12 Alignment: DDTAWTAWWTWWATWTHAAA------ --------BTTHAAAAAAYAAAAAAR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Original Motif Reverse Complement DDTAWTAWBTTWAWWWAAMAAAAAAR WWTAKTTCDKAATT WWTADTTMWKAATTTWAWWWAAMAAAAAAR Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----DDTAWTAWBTTWAWWWAAMAAAAAAR WWTAKTTCDKAATT---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 Original Motif Original Motif ATAAAA ATMACAATAAAA ATMACAATAAAA Direction: Forward Position #: 7 Overlap #: 6 Alignment: ------ATAAAA ATMACAATAAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Reverse Complement Original Motif TTTTATTGTYAT ATTTWATGAAA WTTTAWTGWHAT Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTTTATTGTYAT ATTTWATGAAA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Original Motif Original Motif WTTTAWTGWHAT AAATRWTAAAATCA AWWTAWTRAAATCA Direction: Forward Position #: 1 Overlap #: 12 Alignment: WTTTAWTGWHAT-- AAATRWTAAAATCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 5 Combined Motif Original Motif Original Motif AWWTAWTRAAATCA AWTAAATAYAATTT AWWTAATDAAATMHAATTT Direction: Forward Position #: 6 Overlap #: 9 Alignment: AWWTAWTRAAATCA----- -----AWTAAATAYAATTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 10 Combined Motif Reverse Complement Reverse Complement AAATTHYATTTDATTAWWT AWTTATGAAA AAATTHYATTTAWKWAAWT Direction: Forward Position #: 8 Overlap #: 10 Alignment: AAATTHYATTTDATTAWWT -------AWTTATGAAA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 TFM2 Reverse Complement Reverse Complement GBTGCAGGTGB GCAGAKGSAGGABDGHDG GCAGHTGCAGGTBDGHDG Direction: Forward Position #: 4 Overlap #: 11 Alignment: ---GBTGCAGGTGB---- GCAGAKGSAGGABDGHDG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wsTACwGTAsw Combined Motif Original Motif Original Motif GCAGHTGCAGGTBDGHDG HVTACWGTABD GCABVTRCAGKABDGHDG Direction: Forward Position #: 4 Overlap #: 11 Alignment: GCAGHTGCAGGTBDGHDG ---HVTACWGTABD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFF11 Combined Motif Original Motif Original Motif GCABVTRCAGKABDGHDG CTGCTGBDBBDGBD GCABVTRCWGYWGVVDBDGBD Direction: Forward Position #: 8 Overlap #: 11 Alignment: GCABVTRCAGKABDGHDG--- -------CTGCTGBDBBDGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Original Motif GCABVTRCWGYWGVVDBDGBD DHACATTCTGH KHACATWCTGHWGVVDBDGBD Direction: Forward Position #: 1 Overlap #: 11 Alignment: GCABVTRCWGYWGVVDBDGBD DHACATTCTGH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- sSGTCACGTGACSs Combined Motif Original Motif Original Motif KHACATWCTGHWGVVDBDGBD SGGTCACGTGACCS KHACATWCTGHWGVVDBGGTCACGTGACCS Direction: Forward Position #: 17 Overlap #: 5 Alignment: KHACATWCTGHWGVVDBDGBD--------- ----------------SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 2 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 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--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 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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