**************************************************************************************************************************************************************************************************** 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 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Original Motif Original Motif AAAAWTAWTWWHTH AATTYDGAARTAWW AAAATTHWKAAVTAWW Direction: Forward Position #: 3 Overlap #: 12 Alignment: AAAAWTAWTWWHTH-- --AATTYDGAARTAWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Original Motif Original Motif AAAATTHWKAAVTAWW AAAAWTTRCWT AAAAWTTRBWWVTAWW Direction: Forward Position #: 1 Overlap #: 11 Alignment: AAAATTHWKAAVTAWW AAAAWTTRCWT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 3 Original Motif Original Motif AAAAWTTRBWWVTAWW AWAAAWTWAAASWA AAAAATTAHAAVWAWW Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAAAWTTRBWWVTAWW AWAAAWTWAAASWA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Original Motif WWTWVTTHTAATTTTT AWTAAATAYAATTT AWTAAWTATAATTTTT Direction: Forward Position #: 1 Overlap #: 14 Alignment: WWTWVTTHTAATTTTT AWTAAATAYAATTT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Original Motif Reverse Complement AWTAAWTATAATTTTT MSGKKRCGCWDCABTGBBCD MSGKKRCGCWWYAVWKHBMATTTTT Direction: Forward Position #: 10 Overlap #: 11 Alignment: ---------AWTAAWTATAATTTTT MSGKKRCGCWDCABTGBBCD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif AAAAATYVHRWBTMWWGCGKRYCSR DGVBCABTGDWGCGKRRCSR AAAAADDVBVWBTVAWGCGKRNCSR Direction: Forward Position #: 6 Overlap #: 20 Alignment: AAAAATYVHRWBTMWWGCGKRYCSR -----DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GABPA Combined Motif Reverse Complement Reverse Complement MSGNKRCGCWTVABWBVBHDTTTTT VVCACTTCCGG MSGNKRCGCWTVABWBVBHAYTTCYGG Direction: Forward Position #: 17 Overlap #: 9 Alignment: MSGNKRCGCWTVABWBVBHDTTTTT-- ----------------VVCACTTCCGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif GABPA Reverse Complement Original Motif CCKGAAKTDBVVWBTVAWGCGKRNCSR CCGGAAGTGVV CCGGAAGTGVVVWBTVAWGCGKRNCSR Direction: Forward Position #: 1 Overlap #: 11 Alignment: CCKGAAKTDBVVWBTVAWGCGKRNCSR CCGGAAGTGVV---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Reverse Complement Original Motif MSGNKRCGCWTVABWBVVCACTTCCGG TTCWTAGATTAWA GATTAWATTCHTAMSGNKRCGCWTVABWBVVCAC Direction: Backward Position #: 8 Overlap #: 6 Alignment: MSGNKRCGCWTVABWBVVCACTTCCGG------- ---------------------TTCWTAGATTAWA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Original Motif Reverse Complement SCCYSCCCCDCCCCCBB GCCYCMCCCD SCCYCMCCCDCCCCCBB Direction: Forward Position #: 1 Overlap #: 10 Alignment: SCCYSCCCCDCCCCCBB GCCYCMCCCD------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Reverse Complement Original Motif BVGGGGGHGGGRGKGGS BBVGCCBVGGCCTV BVGGSSGVGGSCKBGGS Direction: Forward Position #: 1 Overlap #: 14 Alignment: BVGGGGGHGGGRGKGGS BBVGCCBVGGCCTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Original Motif BVGGSSGVGGSCKBGGS BBVGCCBVGGCCTV BVSGSCBVGGCCTBGGS Direction: Forward Position #: 1 Overlap #: 14 Alignment: BVGGSSGVGGSCKBGGS BBVGCCBVGGCCTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Original Motif Reverse Complement BVSGSCBVGGCCTBGGS MSGKKRCGCWDCABTGBBCD VSGGBVCVSGBCDBKGBBCD Direction: Forward Position #: 1 Overlap #: 17 Alignment: BVSGSCBVGGCCTBGGS--- MSGKKRCGCWDCABTGBBCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif VSGGBVCVSGBCDBKGBBCD DGVBCABTGDWGCGKRRCSR VSGGBRVBSDBYDDDGCDHDRCSR Direction: Forward Position #: 5 Overlap #: 16 Alignment: VSGGBVCVSGBCDBKGBBCD---- ----DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif VSGGBRVBSDBYDDDGCDHDRCSR HGCGTGGGCGK KHGSGKVGGCGVSGGBRVBSDBYDD Direction: Backward Position #: 2 Overlap #: 10 Alignment: VSGGBRVBSDBYDDDGCDHDRCSR- --------------HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Egr1 Combined Motif Original Motif Original Motif KHGSGKVGGCGVSGGBRVBSDBYDD HGCGTGGGCGK KHGCGTGGGCGBSGGBRVBSDBYDD Direction: Forward Position #: 2 Overlap #: 11 Alignment: KHGSGKVGGCGVSGGBRVBSDBYDD -HGCGTGGGCGK------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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: Forward 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 HIF1AARNT Original Motif 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- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Reverse Complement Original Motif YCVSCCYCGCSCCBB VGCACGTGGH YCGCMCBYGSBCCBB Direction: Forward Position #: 2 Overlap #: 10 Alignment: YCVSCCYCGCSCCBB -VGCACGTGGH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 1 Reverse Complement Original Motif BBGGBSCKBGYGCGK GGCGGGGC GGCGGGGCKBGYGCGK Direction: Forward Position #: 2 Overlap #: 7 Alignment: -BBGGBSCKBGYGCGK GGCGGGGC-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Original Motif YCGCMCBYGCCCCGCC SGGTCACGTGACCS SBSKCACGTGMCCCGCC Direction: Forward Position #: 2 Overlap #: 13 Alignment: -YCGCMCBYGCCCCGCC SGGTCACGTGACCS--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Reverse Complement GGCGGGYCACGTGRSBS BBGGGGCGGGGCGGB GGCBSGGSRCGKGGCGSB Direction: Forward Position #: 4 Overlap #: 14 Alignment: GGCGGGYCACGTGRSBS- ---BBGGGGCGGGGCGGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Original Motif Reverse Complement GGCBSGGSRCGKGGCGSB MSGGGGCGGGGYSG GGSGGGSGGSGBGGCGSB Direction: Forward Position #: 1 Overlap #: 14 Alignment: GGCBSGGSRCGKGGCGSB MSGGGGCGGGGYSG---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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: Forward 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 HIF1AARNT Original Motif 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- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Reverse Complement Original Motif YCVSCCYCGCSCCBB VGCACGTGGH YCGCMCBYGSBCCBB Direction: Forward Position #: 2 Overlap #: 10 Alignment: YCVSCCYCGCSCCBB -VGCACGTGGH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 1 Reverse Complement Original Motif BBGGBSCKBGYGCGK GGCGGGGC GGCGGGGCKBGYGCGK Direction: Forward Position #: 2 Overlap #: 7 Alignment: -BBGGBSCKBGYGCGK GGCGGGGC-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sSGTCACGTGACSs Reverse Complement Original Motif YCGCMCBYGCCCCGCC SGGTCACGTGACCS SBSKCACGTGMCCCGCC Direction: Forward Position #: 2 Overlap #: 13 Alignment: -YCGCMCBYGCCCCGCC SGGTCACGTGACCS--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Original Motif Reverse Complement SBSKCACGTGMCCCGCC BBGGGGCGGGGCGGB BBGGSRCGKGGCSSGCC Direction: Forward Position #: 1 Overlap #: 15 Alignment: SBSKCACGTGMCCCGCC BBGGGGCGGGGCGGB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Reverse Complement Original Motif GGCSSGCCYCGMSCCBB CSKCCCCGCCCCSY GGCBSGCCCCGCCCCSB Direction: Forward Position #: 4 Overlap #: 14 Alignment: GGCSSGCCYCGMSCCBB ---CSKCCCCGCCCCSY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ 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 SP1 Original Motif Original Motif CCCCKCCCCC CCCCKCCCCC CCCCKCCCCC Direction: Backward Position #: 1 Overlap #: 10 Alignment: CCCCKCCCCC CCCCKCCCCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Reverse Complement Reverse Complement GGGGGYGGGG MSGGGGCGGGGYSG VGGGGGSGGGGYSG Direction: Forward Position #: 1 Overlap #: 10 Alignment: GGGGGYGGGG---- MSGGGGCGGGGYSG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Original Motif Reverse Complement VGGGGGSGGGGYSG BBGGGGCGGGGCVD VBGGGGCGGGGCSG Direction: Forward Position #: 1 Overlap #: 14 Alignment: VGGGGGSGGGGYSG BBGGGGCGGGGCVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Original Motif Reverse Complement VBGGGGCGGGGCSG BBGGGGCGGGGCGGB VBGGGGSGSGGSGSGGB Direction: Forward Position #: 3 Overlap #: 12 Alignment: VBGGGGCGGGGCSG--- --BBGGGGCGGGGCGGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Reverse Complement Original Motif BCCSCSCCSCSCCCCBV BBVGCCBVGGCCTV BBSGCCCCGSCCYSCBV Direction: Forward Position #: 1 Overlap #: 14 Alignment: BCCSCSCCSCSCCCCBV BBVGCCBVGGCCTV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PLAG1 Combined Motif Reverse Complement Original Motif VBGSMGGSCGGGGCSBB GGGGCCCAAGGGGG VBGGVGGSCVDVGGGGG Direction: Forward Position #: 4 Overlap #: 14 Alignment: VBGSMGGSCGGGGCSBB ---GGGGCCCAAGGGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Combined Motif Reverse Complement Reverse Complement CCCCCVDVGSCCVCCBV GCCYCMCCCD CCCSCCBCVCCCVCCBV Direction: Forward Position #: 4 Overlap #: 10 Alignment: CCCCCVDVGSCCVCCBV ---GCCYCMCCCD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Reverse Complement Original Motif VBGGBGGGVGVGGSGGG RGRAGARRGARRAR RGRRDRGGVVVRRVGGG Direction: Forward Position #: 1 Overlap #: 14 Alignment: VBGGBGGGVGVGGSGGG RGRAGARRGARRAR--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Egr1 Combined Motif Reverse Complement Reverse Complement CCCVMMVVVCCMHKMCK YCGCCCACGCH CCCCVCCCACSCHKMCK Direction: Forward Position #: 3 Overlap #: 11 Alignment: CCCVMMVVVCCMHKMCK --YCGCCCACGCH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif RGRRDGSGTGGGVGGGG DGVBCABTGDWGCGKRRCSR DGVDVRVKKRRGCGKRRCSR Direction: Forward Position #: 1 Overlap #: 17 Alignment: RGRRDGSGTGGGVGGGG--- DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 48 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 SP1 Original Motif Original Motif CCCCKCCCCC CCCCKCCCCC CCCCKCCCCC Direction: Forward Position #: 1 Overlap #: 10 Alignment: CCCCKCCCCC CCCCKCCCCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Reverse Complement Reverse Complement GGGGGYGGGG MSGGGGCGGGGYSG GVGGGGGSGGGGYSG Direction: Forward Position #: 2 Overlap #: 9 Alignment: GGGGGYGGGG----- -MSGGGGCGGGGYSG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Reverse Complement Original Motif CSKCCCCSCCCCCVC HVGCCCCGCCCCBB CSGCCCCGCCCCBVC Direction: Forward Position #: 1 Overlap #: 14 Alignment: CSKCCCCSCCCCCVC HVGCCCCGCCCCBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Reverse Complement Reverse Complement GVBGGGGCGGGGCSG BBGGGGCGGGGCGGB GBGGGGSSGGGSSGB Direction: Forward Position #: 1 Overlap #: 15 Alignment: GVBGGGGCGGGGCSG BBGGGGCGGGGCGGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Original Motif Reverse Complement GBGGGGSSGGGSSGB VAGGCCBBGGCVBB GBSRGGCCGGGSCVBB Direction: Forward Position #: 3 Overlap #: 13 Alignment: GBGGGGSSGGGSSGB- --VAGGCCBBGGCVBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PLAG1 Combined Motif Original Motif Original Motif GBSRGGCCGGGSCVBB GGGGCCCAAGGGGG GBGRGGCCBDRGGGGG Direction: Forward Position #: 3 Overlap #: 14 Alignment: GBSRGGCCGGGSCVBB --GGGGCCCAAGGGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Reverse Complement Reverse Complement CCCCCMDBGGCCMCBC GCCYCMCCCD GCCCCMCCCDGCCMCBC Direction: Forward Position #: 2 Overlap #: 9 Alignment: -CCCCCMDBGGCCMCBC GCCYCMCCCD------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 Combined Motif Reverse Complement Original Motif GBGRGGCHGGGRGGGGC RGRAGARRGARRAR GBGRGGMVRGGGVGGRV Direction: Forward Position #: 4 Overlap #: 14 Alignment: GBGRGGCHGGGRGGGGC ---RGRAGARRGARRAR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif GBGRGGMVRGGGVGGRV HGCGTGGGCGK HGCGKGGGBGKGGVGGRV Direction: Forward Position #: 2 Overlap #: 10 Alignment: -GBGRGGMVRGGGVGGRV HGCGTGGGCGK------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif HGCGKGGGBGKGGVGGRV DGVBCABTGDWGCGKRRCSR HGCGRGGVHVKGRDGVRDRRCSR Direction: Forward Position #: 4 Overlap #: 15 Alignment: HGCGKGGGBGKGGVGGRV----- ---DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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 Myc Original Motif Reverse Complement GSCACGTGSD DCCACGTGCV GCCACGTGSV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSD DCCACGTGCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Original Motif Original Motif GCCACGTGSV BCACCTGCABC GBCACSTGCABC Direction: Forward Position #: 2 Overlap #: 9 Alignment: GCCACGTGSV-- -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--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif SGSGSACGTKVYSS DGVBCABTGDWGCGKRRCSR SGSDSMMSTGVHGCGKRRCSR Direction: Forward Position #: 2 Overlap #: 13 Alignment: SGSGSACGTKVYSS------- -DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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: 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 Myc Original Motif Reverse Complement GSCACGTGSD DCCACGTGCV GCCACGTGSV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GSCACGTGSD DCCACGTGCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- kcACCTGCAgc Combined Motif Original Motif Original Motif GCCACGTGSV BCACCTGCABC GBCACSTGCABC Direction: Forward Position #: 2 Overlap #: 9 Alignment: GCCACGTGSV-- -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--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Original Motif Reverse Complement SGSGSACGTKVYSS MSGKKRCGCWDCABTGBBCD VSGKKACGYDDCVVTGBBCD Direction: Forward Position #: 1 Overlap #: 14 Alignment: SGSGSACGTKVYSS------ MSGKKRCGCWDCABTGBBCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dhACATTCTkh Original Motif Original Motif VSGKKACGYDDCVVTGBBCD DHACATTCTGH TTCTGHDHMCAVSGKKACGYDDCVVT Direction: Backward Position #: 7 Overlap #: 5 Alignment: VSGKKACGYDDCVVTGBBCD------ ---------------DHACATTCTGH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GABPA Combined Motif Original Motif Reverse Complement TTCTGHDHMCAVSGKKACGYDDCVVT VVCACTTCCGG TTCTGHVHACWTCCGGACGYDDCVVT Direction: Forward Position #: 6 Overlap #: 11 Alignment: TTCTGHDHMCAVSGKKACGYDDCVVT -----VVCACTTCCGG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Reverse Complement Reverse Complement AVVGDDKCGTCCGGAWGTDVHCAGAA BBGGGGCGGGGCVD DBGGGGBSGKSCSGAWGTDVHCAGAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AVVGDDKCGTCCGGAWGTDVHCAGAA BBGGGGCGGGGCVD------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 51 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Klf4 Original Motif Original Motif DGGGYGKGGC DGGGYGKGGC DGGGYGKGGC Direction: Backward Position #: 1 Overlap #: 10 Alignment: DGGGYGKGGC DGGGYGKGGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Reverse Complement Original Motif GCCYCMCCCD CSKCCCCGCCCCSY GCCBCCCCSHCCCSY Direction: Forward Position #: 2 Overlap #: 9 Alignment: GCCYCMCCCD----- -CSKCCCCGCCCCSY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csGCCCCGCCCCsc Combined Motif Original Motif Original Motif GCCBCCCCSHCCCSY HVGCCCCGCCCCBB GCCBSCCCCGCCCCBB Direction: Forward Position #: 3 Overlap #: 13 Alignment: GCCBCCCCSHCCCSY- --HVGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cccGCCCCGCCCCsb Reverse Complement Reverse Complement BBGGGGCGGGGSBGGC BBGGGGCGGGGCGGB BBGGGGCGGGGCBGGC Direction: Forward Position #: 1 Overlap #: 15 Alignment: BBGGGGCGGGGSBGGC BBGGGGCGGGGCGGB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Reverse Complement Reverse Complement GCCBGCCCCGCCCCBB VAGGCCBBGGCVBB GCCVRSSCCBCSSCBBB Direction: Forward Position #: 4 Overlap #: 13 Alignment: GCCBGCCCCGCCCCBB- ---VAGGCCBBGGCVBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SP1 Reverse Complement Reverse Complement BBBGSSGBGGSSKVGGC GGGGGYGGGG GGGGGBGGGGSSKVGGC Direction: Forward Position #: 1 Overlap #: 10 Alignment: BBBGSSGBGGSSKVGGC GGGGGYGGGG------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Original Motif Original Motif GGGGGBGGGGSSKVGGC VGCACGTGGH GVGSRCGBGGSSKVGGC Direction: Forward Position #: 2 Overlap #: 10 Alignment: GGGGGBGGGGSSKVGGC -VGCACGTGGH------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif GVGSRCGBGGSSKVGGC DGVBCABTGDWGCGKRRCSR DRVBVHGTGGHGBGKRVCSR Direction: Forward Position #: 1 Overlap #: 17 Alignment: GVGSRCGBGGSSKVGGC--- DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn Combined Motif Original Motif Original Motif DRVBVHGTGGHGBGKRVCSR HSCACGTGGC DVVCACGTGGHGBGKRVCSR Direction: Forward Position #: 2 Overlap #: 10 Alignment: DRVBVHGTGGHGBGKRVCSR -HSCACGTGGC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 Combined Motif Reverse Complement Reverse Complement MSGVMYCBCDCCACGTGVVH MTMMTCMMTCTKCK MSGVMTMVBVCCDCKTSBVH Direction: Forward Position #: 5 Overlap #: 14 Alignment: MSGVMYCBCDCCACGTGVVH ----MTMMTCMMTCTKCK-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global 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 Klf4 Original Motif Original Motif DGGGYGKGGC DGGGYGKGGC DGGGYGKGGC Direction: Forward Position #: 1 Overlap #: 10 Alignment: DGGGYGKGGC DGGGYGKGGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Reverse Complement Original Motif GCCYCMCCCD CSKCCCCGCCCCSY GCCBCCCCSHCCCSY Direction: Forward Position #: 2 Overlap #: 9 Alignment: GCCYCMCCCD----- -CSKCCCCGCCCCSY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csGCCCCGCCCCsc Reverse Complement Reverse Complement MSGGGDSGGGGVGGC BBGGGGCGGGGCVD VSGGGGCGGGGCGGC Direction: Forward Position #: 1 Overlap #: 14 Alignment: MSGGGDSGGGGVGGC BBGGGGCGGGGCVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cccGCCCCGCCCCsb Combined Motif Reverse Complement Original Motif GCCGCCCCGCCCCSB BCCGCCCCGCCCCBB GCVVCSCCSCSCCCCBB Direction: Forward Position #: 3 Overlap #: 13 Alignment: GCCGCCCCGCCCCSB-- --BCCGCCCCGCCCCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Original Motif Reverse Complement GCVVCSCCSCSCCCCBB VAGGCCBBGGCVBB GCVVMGSCCCSSSCCBB Direction: Forward Position #: 4 Overlap #: 14 Alignment: GCVVCSCCSCSCCCCBB ---VAGGCCBBGGCVBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Reverse Complement Reverse Complement BBGGSSSGGGSCYVVGC GGGGGYGGGG BBGGGGGGSGGSKVVGC Direction: Forward Position #: 4 Overlap #: 10 Alignment: BBGGSSSGGGSCYVVGC ---GGGGGYGGGG---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Original Motif BBGGGGGGSGGSKVVGC VGCACGTGGH VVCASGKGGBGGSKVVGC Direction: Forward Position #: 2 Overlap #: 9 Alignment: -BBGGGGGGSGGSKVVGC VGCACGTGGH-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif VVCASGKGGBGGSKVVGC DGVBCABTGDWGCGKRRCSR VGVDCRBKGVRGSGBRRCSR Direction: Forward Position #: 1 Overlap #: 18 Alignment: VVCASGKGGBGGSKVVGC-- DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Original Motif VGVDCRBKGVRGSGBRRCSR HSCACGTGGC VSCACGYGGVRGSGBRRCSR Direction: Forward Position #: 1 Overlap #: 10 Alignment: VGVDCRBKGVRGSGBRRCSR HSCACGTGGC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Original Motif Original Motif VSCACGYGGVRGSGBRRCSR RGRAGARRGARRAR VGVASRDGGVRGVRBRRCSR Direction: Forward Position #: 1 Overlap #: 14 Alignment: VSCACGYGGVRGSGBRRCSR RGRAGARRGARRAR------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-18-2018 14:32:36 Runtime: 695.758 seconds MOTIFSIM is written by Ngoc Tam L. Tran