**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.2 **************************************************************************************************************************************************************************************************** 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 Motif 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 PScanChIP_DM230.txt 14 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 Combined Motif Original Motif Original Motif DHTWWWATWTDH AATHATATWTHAAA DHWATWATATWTHAAA Direction: Forward Position #: 3 Overlap #: 10 Alignment: DHTWWWATWTDH---- --AATHATATWTHAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Reverse Complement Reverse Complement TTTDAWATATWATWHD WWTAKTTCDKAATT TTTDDTWYWTAATTHD Direction: Forward Position #: 1 Overlap #: 14 Alignment: TTTDAWATATWATWHD WWTAKTTCDKAATT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Reverse Complement Original Motif DHAATTAWKWADDAAA AAAAWTTRCWT AAAATTWDBWWDDAAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHAATTAWKWADDAAA AAAAWTTRCWT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 3 Original Motif Original Motif AAAATTWDBWWDDAAA AWAAAWTWAAASWA AWAAWWWWHAAVWAAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAAATTWDBWWDDAAA AWAAAWTWAAASWA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wsTACwGTAsw Original Motif Reverse Complement AWAAWWWWHAAVWAAA DBTACWGTAVH GTAVHWHTAMWAWAAWWWWHA Direction: Backward Position #: 6 Overlap #: 6 Alignment: AWAAWWWWHAAVWAAA----- ----------DBTACWGTAVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 5 Combined Motif Reverse Complement Reverse Complement THWWWWTTWTWRTAHWHVTAC AAATTKTATTTAWT THWAAATTKTATTWAWTVTAC Direction: Forward Position #: 4 Overlap #: 14 Alignment: THWWWWTTWTWRTAHWHVTAC ---AAATTKTATTTAWT---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif GTAVAWTWAATARAATTTWHA DGVBCABTGDWGCGKRRCSR GTADRDTHAVTRRARHKTRVMSR Direction: Forward Position #: 4 Overlap #: 18 Alignment: GTAVAWTWAATARAATTTWHA-- ---DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Reverse Complement Reverse Complement MSRBKARHMTKKABTHADKHTAC MSGKKRCGCWDCABTGBBCD MSGKKAVVCTKBABTDHDHDTAC Direction: Forward Position #: 1 Overlap #: 20 Alignment: MSRBKARHMTKKABTHADKHTAC MSGKKRCGCWDCABTGBBCD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 kcACCTGCAgc Original Motif Original Motif DHACATTCTGH BCACCTGCABC DHACMTKCWGH Direction: Backward Position #: 1 Overlap #: 11 Alignment: DHACATTCTGH BCACCTGCABC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 16 Reverse Complement Reverse Complement DCWGYAYGTDH TCAAAATKAWTTGT TCAAAATKADTTGTAYGTDH Direction: Forward Position #: 10 Overlap #: 5 Alignment: ---------DCWGYAYGTDH TCAAAATKAWTTGT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwAAATAATAtw Reverse Complement Original Motif DHACKTACAADTYATTTTGA HDAAATAATADD DHAMDTAMWADTYATTTTGA Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHACKTACAADTYATTTTGA HDAAATAATADD-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif tkAAATAATAtw Original Motif Original Motif DHAMDTAMWADTYATTTTGA HDAAATAATAHW DHAAATAATADWYATTTTGA Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHAMDTAMWADTYATTTTGA HDAAATAATAHW-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Original Motif Original Motif DHAAATAATADWYATTTTGA AATTYDGAARTAWW AATTHARWAATAWWYATTTTGA Direction: Forward Position #: 3 Overlap #: 12 Alignment: --DHAAATAATADWYATTTTGA AATTYDGAARTAWW-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif kCAGCCAATmr Original Motif Reverse Complement AATTHARWAATAWWYATTTTGA MBATTGGCTGH CTGHAHATWKKAATTHARWAATAWWY Direction: Backward Position #: 5 Overlap #: 7 Alignment: AATTHARWAATAWWYATTTTGA---- ---------------MBATTGGCTGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GABPA Combined Motif Original Motif Original Motif CTGHAHATWKKAATTHARWAATAWWY CCGGAAGTGVV CTGHAHAYHGGAAKTDVVWAATAWWY Direction: Forward Position #: 8 Overlap #: 11 Alignment: CTGHAHATWKKAATTHARWAATAWWY -------CCGGAAGTGVV-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GABPA Combined Motif Original Motif Original Motif CTGHAHAYHGGAAKTDVVWAATAWWY CCGGAAGTGVV CTGHAHACCGGAAGTVVVWAATAWWY Direction: Forward Position #: 8 Overlap #: 11 Alignment: CTGHAHAYHGGAAKTDVVWAATAWWY -------CCGGAAGTGVV-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 15 Combined Motif Reverse Complement Reverse Complement KWWTATTWVVVACTTCCGGTHTDCAG TTTTATTGTYAT ATTWVVVACTTCCGGTHTDCAGTHATKWWTATTWVVVACTTCCGGTHT Direction: Backward Position #: 23 Overlap #: 4 Alignment: --------KWWTATTWVVVACTTCCGGTHTDCAG ----------------------TTTTATTGTYAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Original Motif Reverse Complement ATTWVVVACTTCCGGTHTDCAGTHATKWWTATTWVVVACTTCCGGTHT MTMMTCMMTCTKCK MTYHBVMMYYTYCKGTHTDCAGTHATKWWTATTWVVVACTTCCGGTHT Direction: Forward Position #: 1 Overlap #: 14 Alignment: ATTWVVVACTTCCGGTHTDCAGTHATKWWTATTWVVVACTTCCGGTHT MTMMTCMMTCTKCK---------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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: Backward Position #: 1 Overlap #: 11 Alignment: BCACCTGCABC DBTACWGTAVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Reverse Complement Original Motif DVTKCAGYWBD DHACATTCTGH DHACATTCTKCAGYWBD Direction: Forward Position #: 7 Overlap #: 5 Alignment: ------DVTKCAGYWBD DHACATTCTGH------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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: Forward Position #: 1 Overlap #: 6 Alignment: TTTTAT------ TTTTATTGTYAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 5 Combined Motif Original Motif Reverse Complement TTTTATTGTYAT AAATTKTATTTAWT TTWWATTGTHWTTAWT Direction: Forward Position #: 3 Overlap #: 10 Alignment: TTTTATTGTYAT---- --AAATTKTATTTAWT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Reverse Complement TTWWATTGTHWTTAWT TTTCATWAAAT TTTHATTRWATTTAWT Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTWWATTGTHWTTAWT TTTCATWAAAT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Reverse Complement Original Motif AWTAAATWKAATDAAA AAATRWTAAAATCA AAWWAWTAAAATBAAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AWTAAATWKAATDAAA AAATRWTAAAATCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Reverse Complement Original Motif TTTBATTTTAWTWWTT TTTCATAAWT TTTCATWAWWWTWWTT Direction: Forward Position #: 1 Overlap #: 10 Alignment: TTTBATTTTAWTWWTT TTTCATAAWT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 19 Combined Motif Reverse Complement Original Motif AAWWAWWWTWATGAAA TTCWTAGATTAWA AAWTWMWTAKATKAAA Direction: Forward Position #: 4 Overlap #: 13 Alignment: AAWWAWWWTWATGAAA ---TTCWTAGATTAWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 14 Combined Motif Reverse Complement Reverse Complement TTTRATYTAWRWAWTT TTATTTWT TTTAWTTWWWRWAWTT Direction: Forward Position #: 2 Overlap #: 8 Alignment: TTTRATYTAWRWAWTT -TTATTTWT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 20 Reverse Complement Reverse Complement AAWTWMWWWAAWTAAA AAATCTTTYAA AAATHTTTHAAWTAAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: AAWTWMWWWAAWTAAA AAATCTTTYAA----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwAAATAATAtw Reverse Complement Reverse Complement TTTAWTTHAAADATTT DDTATTATTTDH TTTATTWTWWHDATTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: TTTAWTTHAAADATTT DDTATTATTTDH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 3 Reverse Complement Original Motif AAATHHWWAWAATAAA AWAAAWTWAAASWA AWAWAWWWAWAVTAAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAATHHWWAWAATAAA AWAAAWTWAAASWA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ArntAhr Original Motif Original Motif YGCGTG YGCGTG YGCGTG Direction: Backward Position #: 1 Overlap #: 6 Alignment: YGCGTG YGCGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif YGCGTG HGCGTGGGCGK YGCGTGGGCGK Direction: Forward Position #: 1 Overlap #: 6 Alignment: YGCGTG----- HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif YGCGTGGGCGK HGCGTGGGCGK HGCGTGGGCGK Direction: Forward Position #: 1 Overlap #: 11 Alignment: YGCGTGGGCGK HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Original Motif HGCGTGGGCGK VBACGTGV VBRCGTGGGCGK Direction: Forward Position #: 2 Overlap #: 7 Alignment: -HGCGTGGGCGK VBACGTGV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Original Motif VBRCGTGGGCGK VBACGTGV VBRCGTGVGCGK Direction: Forward Position #: 1 Overlap #: 8 Alignment: VBRCGTGGGCGK VBACGTGV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement VBRCGTGVGCGK GCCACGTGSD GSCACGTGSGCGK Direction: Forward Position #: 2 Overlap #: 9 Alignment: -VBRCGTGVGCGK GCCACGTGSD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement GSCACGTGSGCGK GCCACGTGSD GCCACGTGSRCGK Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSGCGK GCCACGTGSD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Original Motif GCCACGTGSRCGK HVGCCCCGCCCCBB HVGCCMCGYSCVBGK Direction: Forward Position #: 3 Overlap #: 12 Alignment: --GCCACGTGSRCGK HVGCCCCGCCCCBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement HVGCCMCGYSCVBGK DCCACGTGCV HVGCCMCGTGCVBGK Direction: Forward Position #: 3 Overlap #: 10 Alignment: HVGCCMCGYSCVBGK --DCCACGTGCV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement HVGCCMCGTGCVBGK DCCACGTGCV HVGCCACGTGCVBGK Direction: Forward Position #: 3 Overlap #: 10 Alignment: HVGCCMCGTGCVBGK --DCCACGTGCV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 56 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ArntAhr ArntAhr Original Motif Original Motif YGCGTG YGCGTG YGCGTG Direction: Backward Position #: 1 Overlap #: 6 Alignment: YGCGTG YGCGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif YGCGTG HGCGTGGGCGK YGCGTGGGCGK Direction: Forward Position #: 1 Overlap #: 6 Alignment: YGCGTG----- HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif YGCGTGGGCGK HGCGTGGGCGK HGCGTGGGCGK Direction: Forward Position #: 1 Overlap #: 11 Alignment: YGCGTGGGCGK HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Original Motif HGCGTGGGCGK VBACGTGV VBRCGTGGGCGK Direction: Forward Position #: 2 Overlap #: 7 Alignment: -HGCGTGGGCGK VBACGTGV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Original Motif VBRCGTGGGCGK VBACGTGV VBRCGTGVGCGK Direction: Forward Position #: 1 Overlap #: 8 Alignment: VBRCGTGGGCGK VBACGTGV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement VBRCGTGVGCGK GCCACGTGSD GSCACGTGSGCGK Direction: Forward Position #: 2 Overlap #: 9 Alignment: -VBRCGTGVGCGK GCCACGTGSD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement GSCACGTGSGCGK GCCACGTGSD GCCACGTGSRCGK Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSGCGK GCCACGTGSD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Original Motif GCCACGTGSRCGK HVGCCCCGCCCCBB HVGCCMCGYSCVBGK Direction: Forward Position #: 3 Overlap #: 12 Alignment: --GCCACGTGSRCGK HVGCCCCGCCCCBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement HVGCCMCGYSCVBGK DCCACGTGCV HVGCCMCGTGCVBGK Direction: Forward Position #: 3 Overlap #: 10 Alignment: HVGCCMCGYSCVBGK --DCCACGTGCV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Reverse Complement HVGCCMCGTGCVBGK DCCACGTGCV HVGCCACGTGCVBGK Direction: Forward Position #: 3 Overlap #: 10 Alignment: HVGCCMCGTGCVBGK --DCCACGTGCV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 10 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 10 Motif 11 Reverse Complement Original Motif AWTTATGAAA ATTTWATGAAA AWTTTATGAAA Direction: Forward Position #: 2 Overlap #: 10 Alignment: -AWTTATGAAA ATTTWATGAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Original Motif Original Motif AWTTTATGAAA AATTYDGAARTAWW AATTTAKRAAAAWW Direction: Forward Position #: 1 Overlap #: 11 Alignment: AWTTTATGAAA--- AATTYDGAARTAWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Original Motif Original Motif AATTTAKRAAAAWW AAATRWTAAAATCA AAWTDATAAAAWMA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AATTTAKRAAAAWW AAATRWTAAAATCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Reverse Complement TRWTTTTATDAWTT AAATTKTATTTAWT WAATTTTATTWATT Direction: Forward Position #: 1 Overlap #: 14 Alignment: TRWTTTTATDAWTT AAATTKTATTTAWT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 17 Original Motif Original Motif WAATTTTATTWATT AAAAATGAAT AAAAWTKWATTWATT Direction: Forward Position #: 2 Overlap #: 9 Alignment: -WAATTTTATTWATT AAAAATGAAT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 Combined Motif Original Motif Original Motif AAAAWTKWATTWATT AATHATATWTHAAA AAAATTDWATTTHWWA Direction: Forward Position #: 3 Overlap #: 13 Alignment: AAAAWTKWATTWATT- --AATHATATWTHAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 15 Combined Motif Reverse Complement Reverse Complement TWWHAAATWHAATTTT TTTTATTGTYAT TWWHAAATTTWATTKTYAT Direction: Forward Position #: 8 Overlap #: 9 Alignment: TWWHAAATWHAATTTT--- -------TTTTATTGTYAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 3 Original Motif Reverse Complement TWWHAAATTTWATTKTYAT TWSTTTWAWTTTWT TWHTWWWWWTTWWTKTYAT Direction: Forward Position #: 1 Overlap #: 14 Alignment: TWWHAAATTTWATTKTYAT TWSTTTWAWTTTWT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 18 Original Motif Original Motif TWHTWWWWWTTWWTKTYAT TTAGWTWATAA TTAGWTWATAWTWWTKTYAT Direction: Forward Position #: 2 Overlap #: 10 Alignment: -TWHTWWWWWTTWWTKTYAT TTAGWTWATAA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Original Motif Original Motif TTAGWTWATAWTWWTKTYAT TTCWTAGATTAWA TTMDTWKATWAWAWTKTYAT Direction: Forward Position #: 1 Overlap #: 13 Alignment: TTAGWTWATAWTWWTKTYAT TTCWTAGATTAWA------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 1 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 csGCCCCGCCCCsc Reverse Complement Original Motif GCCCCGCC HVGCCCCGCCCCBB CCBBGCCCCGCCHV Direction: Backward Position #: 5 Overlap #: 8 Alignment: --GCCCCGCC---- HVGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Original Motif CCBBGCCCCGCCHV BCCGCCCCGCCCCBB CCBBSSCCCSSCCCCBB Direction: Forward Position #: 3 Overlap #: 12 Alignment: CCBBGCCCCGCCHV--- --BCCGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Original Motif Original Motif CCBBSSCCCSSCCCCBB CSKCCCCGCCCCSY CCBCGCCCCGCCCCCBB Direction: Forward Position #: 3 Overlap #: 14 Alignment: CCBBSSCCCSSCCCCBB --CSKCCCCGCCCCSY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Original Motif Reverse Complement CCBCGCCCCGCCCCCBB GCCYCMCCCD SCCYSCCCCDCCCCCBB Direction: Forward Position #: 1 Overlap #: 10 Alignment: CCBCGCCCCGCCCCCBB GCCYCMCCCD------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Combined Motif Reverse Complement Original Motif BVGGGGGHGGGGSKGGS DGGGYGKGGC BVGDGGGYGGGGSKGGS Direction: Forward Position #: 4 Overlap #: 10 Alignment: BVGGGGGHGGGGSKGGS ---DGGGYGKGGC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Reverse Complement Original Motif SCCYSCCCCKCCCHCBB BBVGCCBVGGCCTV SCSBSCCCSGCCYVCBB Direction: Forward Position #: 1 Overlap #: 14 Alignment: SCCYSCCCCKCCCHCBB BBVGCCBVGGCCTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Original Motif SCSBSCCCSGCCYVCBB BBVGCCBVGGCCTV SSVBSCBVGGCCTVCBB Direction: Forward Position #: 1 Overlap #: 14 Alignment: SCSBSCCCSGCCYVCBB BBVGCCBVGGCCTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif BVGVAGGCCVBGSBVSS DGVBCABTGDWGCGKRRCSR BVGVRGGCVVBGVHGSGKRRCSR Direction: Forward Position #: 4 Overlap #: 14 Alignment: BVGVAGGCCVBGSBVSS------ ---DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif MSGKKRCSCHVCVVVGCCKVCBB DGVBCABTGDWGCGKRRCSR MSGKDRVBCHVYVVDGCVKVVCVR Direction: Forward Position #: 5 Overlap #: 19 Alignment: MSGKKRCSCHVCVVVGCCKVCBB- ----DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Reverse Complement Original Motif MVGVBRVGCDBVKVHGBVMHYCSR HGCGTGGGCGK HGSGTRGGCGKVKVHGBVMHYCSR Direction: Forward Position #: 1 Overlap #: 11 Alignment: MVGVBRVGCDBVKVHGBVMHYCSR HGCGTGGGCGK------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif HGSGTRGGCGKVKVHGBVMHYCSR HGCGTGGGCGK HGCGTGGGCGKVKVHGBVMHYCSR Direction: Forward Position #: 1 Overlap #: 11 Alignment: HGSGTRGGCGKVKVHGBVMHYCSR HGCGTGGGCGK------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 HIF1AARNT Original Motif Original Motif VBACGTGV VBACGTGV VBACGTGV Direction: Backward Position #: 1 Overlap #: 8 Alignment: VBACGTGV VBACGTGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement VBACGTGV GCCACGTGSD GSCACGTGSD Direction: Forward Position #: 2 Overlap #: 8 Alignment: -VBACGTGV- GCCACGTGSD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement GSCACGTGSD GCCACGTGSD GCCACGTGSD Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSD GCCACGTGSD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Reverse Complement GCCACGTGSD DCCACGTGCV GCCACGTGSV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GCCACGTGSD DCCACGTGCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Reverse Complement Original Motif VSCACGTGGC VGCACGTGGH VGCACGTGGC Direction: Forward Position #: 1 Overlap #: 10 Alignment: VSCACGTGGC VGCACGTGGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Reverse Complement Original Motif GCCACGTGCV BCACCTGCABC GBCACSTGCABC Direction: Forward Position #: 2 Overlap #: 9 Alignment: GCCACGTGCV-- -BCACCTGCABC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Reverse Complement GBTGCASGTGBC SGGTCACGTGACCS SSKKCACGTGDCCS Direction: Forward Position #: 1 Overlap #: 12 Alignment: GBTGCASGTGBC-- SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Reverse Complement Reverse Complement SGGDCACGTGRYSS GCGGACGTTV SGSGSACGTKVYSS Direction: Forward Position #: 2 Overlap #: 10 Alignment: SGGDCACGTGRYSS -GCGGACGTTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Original Motif Reverse Complement SGSGSACGTKVYSS GCGGACGTTV SGCGGACGTDVYSS Direction: Forward Position #: 2 Overlap #: 10 Alignment: SGSGSACGTKVYSS -GCGGACGTTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Original Motif Reverse Complement SGCGGACGTDVYSS MSGKKRCGCWDCABTGBBCD VGSGGACGYWDCVVTGBBCD Direction: Forward Position #: 1 Overlap #: 14 Alignment: SGCGGACGTDVYSS------ MSGKKRCGCWDCABTGBBCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 53 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIF1AARNT HIF1AARNT Original Motif Original Motif VBACGTGV VBACGTGV VBACGTGV Direction: Forward Position #: 1 Overlap #: 8 Alignment: VBACGTGV VBACGTGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement VBACGTGV GCCACGTGSD GSCACGTGSD Direction: Forward Position #: 2 Overlap #: 8 Alignment: -VBACGTGV- GCCACGTGSD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement GSCACGTGSD GCCACGTGSD GCCACGTGSD Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSD GCCACGTGSD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Reverse Complement GCCACGTGSD DCCACGTGCV GCCACGTGSV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GCCACGTGSD DCCACGTGCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Reverse Complement Original Motif VSCACGTGGC VGCACGTGGH VGCACGTGGC Direction: Forward Position #: 1 Overlap #: 10 Alignment: VSCACGTGGC VGCACGTGGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Reverse Complement Original Motif GCCACGTGCV BCACCTGCABC GBCACSTGCABC Direction: Forward Position #: 2 Overlap #: 9 Alignment: GCCACGTGCV-- -BCACCTGCABC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Reverse Complement GBTGCASGTGBC SGGTCACGTGACCS SSKKCACGTGDCCS Direction: Forward Position #: 1 Overlap #: 12 Alignment: GBTGCASGTGBC-- SGGTCACGTGACCS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Reverse Complement Reverse Complement SGGDCACGTGRYSS GCGGACGTTV SGSGSACGTKVYSS Direction: Forward Position #: 2 Overlap #: 10 Alignment: SGGDCACGTGRYSS -GCGGACGTTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Original Motif Reverse Complement SGSGSACGTKVYSS GCGGACGTTV SGCGGACGTDVYSS Direction: Forward Position #: 2 Overlap #: 10 Alignment: SGSGSACGTKVYSS -GCGGACGTTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Reverse Complement SGCGGACGTDVYSS MSGKKRCGCWDCABTGBBCD VGSGGACGYWDCVVTGBBCD Direction: Forward Position #: 1 Overlap #: 14 Alignment: SGCGGACGTDVYSS------ MSGKKRCGCWDCABTGBBCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-18-2018 14:32:36 Runtime: 695.758 seconds MOTIFSIM is written by Ngoc Tam L. 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