******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.6.1 (Release date: Mon Mar 21 15:08:38 EST 2011) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net. This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://meme.nbcr.net. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** DATAFILE= mm10.Myocyte_specific_expanded.liftOver.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr10:80940445-80941162 1.0000 717 chr10:81072192-81072934 1.0000 742 chr11:6481396-6482367 1.0000 971 chr12:112617839-11261859 1.0000 754 chr12:27390261-27391004 1.0000 743 chr15:97811911-97812695 1.0000 784 chr1:43136409-43137115 1.0000 706 chr1:134160159-134162063 1.0000 1904 chr1:134322485-134323001 1.0000 516 chr1:134071265-134073689 1.0000 2424 chr1:134160156-134160953 1.0000 797 chr1:134332668-134333623 1.0000 955 chr1:91413901-91414660 1.0000 759 chr1:134067000-134067680 1.0000 680 chr1:135697928-135699002 1.0000 1074 chr1:135794180-135795780 1.0000 1600 chr1:134195643-134196479 1.0000 836 chr1:134195091-134196479 1.0000 1388 chr1:134195091-134196873 1.0000 1782 chr1:134244219-134245778 1.0000 1559 chr1:170655330-170656359 1.0000 1029 chr1:134289319-134290101 1.0000 782 chr1:66921855-66922977 1.0000 1122 chr1:134244752-134245912 1.0000 1160 chr1:134082948-134083616 1.0000 668 chr1:134244847-134245778 1.0000 931 chr4:139770981-139771606 1.0000 625 chr5:125110919-125111688 1.0000 769 chr6:128258964-128259829 1.0000 865 chr6:72216026-72218866 1.0000 2840 chr7:127210176-127210781 1.0000 605 chr7:19409569-19410199 1.0000 630 chr7:46352696-46354059 1.0000 1363 chr8:122636472-122637392 1.0000 920 chr8:123894638-123896819 1.0000 2181 chr8:120265441-120266019 1.0000 578 chrX:166778620-166779781 1.0000 1161 chrX:166805408-166805925 1.0000 517 chrX:166803118-166803588 1.0000 470 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme mm10.Myocyte_specific_expanded.liftOver.fa -maxw 25 -dna -nmotifs 10 -maxsize 300000 -o mm10.Myocyte_specific_expanded.liftOver.meme.maxw25 model: mod= zoops nmotifs= 10 evt= inf object function= E-value of product of p-values width: minw= 8 maxw= 25 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 39 wnsites= 0.8 theta: prob= 1 spmap= uni spfuzz= 0.5 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 40907 N= 39 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.231 C 0.278 G 0.253 T 0.238 Background letter frequencies (from dataset with add-one prior applied): A 0.231 C 0.278 G 0.253 T 0.238 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 25 sites = 34 llr = 452 E-value = 4.7e-032 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 214:51141:124:256224416:7 pos.-specific C :::2::23::21121::11:1::2: probability G 8947297169553473466458383 matrix T :1112::33:1213:2:112111:: bits 2.1 1.9 1.7 * * 1.5 * * Relative 1.3 * * * * Entropy 1.1 ** * * * ** (19.2 bits) 0.8 ** * ** ** * * **** 0.6 ******* ** *** * **** 0.4 ******* ** ************ 0.2 ************************* 0.0 ------------------------- Multilevel GGGGAGGAGGGGAGGAAGGGGGAGA consensus ACG CCT CTGTAGGAAAA GCG sequence T T C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chr5:125110919-125111688 209 6.94e-12 TCTTTACAGT GGGGGGGTGGGGAGGTAGGGGGAGA CAGGAGTAGT chr4:139770981-139771606 432 3.51e-09 CCGCTCCTCT GGTGAGGGAGGGAGGAAGGGAGGGA GGCTCTGCCT chr1:66921855-66922977 728 3.51e-09 AGAAAGAGGG AGGGAGGGAGGGAGGGAGGGAGAGA GAGAGAGAGA chr6:72216026-72218866 526 4.59e-09 AGCAAACAAG GGGGTGGCGGGGGGGGGGGGGTGGA TAAAAACCAG chr1:134244847-134245778 392 5.24e-09 GCTACACAAA GGACAGCTGGGGCTGAAGGAGGACA AAGATGGGCA chr1:134244752-134245912 487 5.24e-09 GCTACACAAA GGACAGCTGGGGCTGAAGGAGGACA AAGATGGGCA chr1:134244219-134245778 1020 5.24e-09 GCTACACAAA GGACAGCTGGGGCTGAAGGAGGACA AAGATGGGCA chr6:128258964-128259829 222 8.78e-09 AAAAAGGGGG GAAGAGGTGGGAAGAAGGGGGGACA GGATAGAAAG chr8:123894638-123896819 786 9.95e-09 GGTGGAAGAG GGGGAGGAGGTAGTGAGAGGAGGCA TGGGGACTAT chr1:134195091-134196873 891 9.95e-09 GAGAGAAAGT GGGGAGGAGGCTACGAACAAGGAGG GAACAGCCGG chr1:134195091-134196479 891 9.95e-09 GAGAGAAAGT GGGGAGGAGGCTACGAACAAGGAGG GAACAGCCGG chr1:134195643-134196479 339 9.95e-09 GAGAGAAAGT GGGGAGGAGGCTACGAACAAGGAGG GAACAGCCGG chr1:134289319-134290101 512 1.13e-08 AGGCCTGCAG GGTGGGGTGGGGGCAAAAGGAGAGG GAAGGGGAAT chr7:127210176-127210781 422 2.60e-08 GCATTGGCAT GGACTGGAGGAGGGCAAGGGAGGGA ACACATTCCT chr1:134160156-134160953 564 2.60e-08 GGGCACTGGG GGGGGGGCTGCCTGGGAAGGAGAGA CATCTAAAGA chr1:134160159-134162063 561 2.60e-08 GGGCACTGGG GGGGGGGCTGCCTGGGAAGGAGAGA CATCTAAAGA chr1:134332668-134333623 350 4.10e-08 AACCAGAGTG GGAGAGGATGGGGGGTGGGTTGGCA CATGCCCTTC chrX:166803118-166803588 8 7.84e-08 AGAGGAG GAAGAGGAGGAGGAGGAGGAGGAGG AAGAAAAGAT chr1:135794180-135795780 747 2.14e-07 GGCTCAGCAT GGAGTGGAGTGGGTGTGGAGAGGGG GCTCCGTCTT chr10:80940445-80941162 578 2.60e-07 AGGCTATATA GGACAAGAGGAAGGAGAGGGGGAGG GAGAATCTTA chr8:122636472-122637392 179 2.85e-07 GGCAGAAAGT GGAGAGGCGGTGTTGGGTGTAAGGA GTCTGAATCT chr11:6481396-6482367 256 3.77e-07 TGCGACAGTC AGAGAGACTGTTAGATGGGAAGAGA CAGGTGTGGG chr15:97811911-97812695 527 1.60e-06 GATGCTGGGA GGTGGGGCTGCTTCAGGGTAGGAGG TGGCCCTATG chr1:135697928-135699002 731 1.73e-06 CACAGCAGCA GGGGAGCCTGCTTGGAAGGTCGTGG GGCCCTGGGA chr7:46352696-46354059 1173 2.75e-06 AGGAAAGTTG AGGTTGGTGGTTATGGAGTTGAAGA GACATGGGTT chr1:134082948-134083616 324 3.19e-06 CGTGAGCTGG AGTTTGGCGGGAGTGAGGGAGTACA GGGTTGCTGT chr1:134067000-134067680 408 3.43e-06 GGAAACACCT GGAGGAGAGGGCAGCTGGCAAGGGA GCTTGCCTCT chr7:19409569-19410199 32 4.91e-06 GAATCAACAG AGGGAGCCGGGGGCAATACTGGAGA AGCTGGTCTC chr10:81072192-81072934 170 1.03e-05 TTATACAGCC ATTCTGCATGGGACGAGGAGCGAGA TGGCCCTGCC chrX:166778620-166779781 264 1.24e-05 CCACAAGAAT GAAGAGAATGCAATGGGAATAAGGA AGCCCAGGTG chr1:134071265-134073689 383 1.32e-05 CCTCGTTTGT GGGATGCAGGGTGGCAAGTGGCAGG GCCAGGTTTC chr1:170655330-170656359 562 1.41e-05 GTTGTAACCC TGAGGGCTTAGAAGGGGAGGAGACA GTAGACCCCA chr12:27390261-27391004 99 1.90e-05 GCTGCTGGTG GTGGTGGTGGTGATAAATAAAATGG AAAAGAAATC chr8:120265441-120266019 309 3.55e-05 CCTTGGCTGG GGGCGGGGTGGCCTGTGTTATGGGA GGAACCCACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:125110919-125111688 6.9e-12 208_[+1]_536 chr4:139770981-139771606 3.5e-09 431_[+1]_169 chr1:66921855-66922977 3.5e-09 727_[+1]_370 chr6:72216026-72218866 4.6e-09 525_[+1]_2290 chr1:134244847-134245778 5.2e-09 391_[+1]_515 chr1:134244752-134245912 5.2e-09 486_[+1]_649 chr1:134244219-134245778 5.2e-09 1019_[+1]_515 chr6:128258964-128259829 8.8e-09 221_[+1]_619 chr8:123894638-123896819 1e-08 785_[+1]_1371 chr1:134195091-134196873 1e-08 890_[+1]_867 chr1:134195091-134196479 1e-08 890_[+1]_473 chr1:134195643-134196479 1e-08 338_[+1]_473 chr1:134289319-134290101 1.1e-08 511_[+1]_246 chr7:127210176-127210781 2.6e-08 421_[+1]_159 chr1:134160156-134160953 2.6e-08 563_[+1]_209 chr1:134160159-134162063 2.6e-08 560_[+1]_1319 chr1:134332668-134333623 4.1e-08 349_[+1]_581 chrX:166803118-166803588 7.8e-08 7_[+1]_438 chr1:135794180-135795780 2.1e-07 746_[+1]_829 chr10:80940445-80941162 2.6e-07 577_[+1]_115 chr8:122636472-122637392 2.9e-07 178_[+1]_717 chr11:6481396-6482367 3.8e-07 255_[+1]_691 chr15:97811911-97812695 1.6e-06 526_[+1]_233 chr1:135697928-135699002 1.7e-06 730_[+1]_319 chr7:46352696-46354059 2.7e-06 1172_[+1]_166 chr1:134082948-134083616 3.2e-06 323_[+1]_320 chr1:134067000-134067680 3.4e-06 407_[+1]_248 chr7:19409569-19410199 4.9e-06 31_[+1]_574 chr10:81072192-81072934 1e-05 169_[+1]_548 chrX:166778620-166779781 1.2e-05 263_[+1]_873 chr1:134071265-134073689 1.3e-05 382_[+1]_2017 chr1:170655330-170656359 1.4e-05 561_[+1]_443 chr12:27390261-27391004 1.9e-05 98_[+1]_620 chr8:120265441-120266019 3.5e-05 308_[+1]_245 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=25 seqs=34 chr5:125110919-125111688 ( 209) GGGGGGGTGGGGAGGTAGGGGGAGA 1 chr4:139770981-139771606 ( 432) GGTGAGGGAGGGAGGAAGGGAGGGA 1 chr1:66921855-66922977 ( 728) AGGGAGGGAGGGAGGGAGGGAGAGA 1 chr6:72216026-72218866 ( 526) GGGGTGGCGGGGGGGGGGGGGTGGA 1 chr1:134244847-134245778 ( 392) GGACAGCTGGGGCTGAAGGAGGACA 1 chr1:134244752-134245912 ( 487) GGACAGCTGGGGCTGAAGGAGGACA 1 chr1:134244219-134245778 ( 1020) GGACAGCTGGGGCTGAAGGAGGACA 1 chr6:128258964-128259829 ( 222) GAAGAGGTGGGAAGAAGGGGGGACA 1 chr8:123894638-123896819 ( 786) GGGGAGGAGGTAGTGAGAGGAGGCA 1 chr1:134195091-134196873 ( 891) GGGGAGGAGGCTACGAACAAGGAGG 1 chr1:134195091-134196479 ( 891) GGGGAGGAGGCTACGAACAAGGAGG 1 chr1:134195643-134196479 ( 339) GGGGAGGAGGCTACGAACAAGGAGG 1 chr1:134289319-134290101 ( 512) GGTGGGGTGGGGGCAAAAGGAGAGG 1 chr7:127210176-127210781 ( 422) GGACTGGAGGAGGGCAAGGGAGGGA 1 chr1:134160156-134160953 ( 564) GGGGGGGCTGCCTGGGAAGGAGAGA 1 chr1:134160159-134162063 ( 561) GGGGGGGCTGCCTGGGAAGGAGAGA 1 chr1:134332668-134333623 ( 350) GGAGAGGATGGGGGGTGGGTTGGCA 1 chrX:166803118-166803588 ( 8) GAAGAGGAGGAGGAGGAGGAGGAGG 1 chr1:135794180-135795780 ( 747) GGAGTGGAGTGGGTGTGGAGAGGGG 1 chr10:80940445-80941162 ( 578) GGACAAGAGGAAGGAGAGGGGGAGG 1 chr8:122636472-122637392 ( 179) GGAGAGGCGGTGTTGGGTGTAAGGA 1 chr11:6481396-6482367 ( 256) AGAGAGACTGTTAGATGGGAAGAGA 1 chr15:97811911-97812695 ( 527) GGTGGGGCTGCTTCAGGGTAGGAGG 1 chr1:135697928-135699002 ( 731) GGGGAGCCTGCTTGGAAGGTCGTGG 1 chr7:46352696-46354059 ( 1173) AGGTTGGTGGTTATGGAGTTGAAGA 1 chr1:134082948-134083616 ( 324) AGTTTGGCGGGAGTGAGGGAGTACA 1 chr1:134067000-134067680 ( 408) GGAGGAGAGGGCAGCTGGCAAGGGA 1 chr7:19409569-19410199 ( 32) AGGGAGCCGGGGGCAATACTGGAGA 1 chr10:81072192-81072934 ( 170) ATTCTGCATGGGACGAGGAGCGAGA 1 chrX:166778620-166779781 ( 264) GAAGAGAATGCAATGGGAATAAGGA 1 chr1:134071265-134073689 ( 383) GGGATGCAGGGTGGCAAGTGGCAGG 1 chr1:170655330-170656359 ( 562) TGAGGGCTTAGAAGGGGAGGAGACA 1 chr12:27390261-27391004 ( 99) GTGGTGGTGGTGATAAATAAAATGG 1 chr8:120265441-120266019 ( 309) GGGCGGGGTGGCCTGTGTTATGGGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 39971 bayes= 10.2676 E= 4.7e-032 -39 -1173 165 -301 -139 -1173 175 -202 84 -1173 80 -70 -297 -43 148 -202 120 -1173 -11 -2 -197 -1173 189 -1173 -197 -24 148 -1173 73 -7 -152 15 -197 -1173 135 30 -297 -1173 189 -301 -139 -24 106 -70 -39 -124 89 -2 84 -124 35 -70 -297 -43 80 44 -16 -165 148 -1173 112 -1173 35 -43 128 -1173 70 -301 -16 -165 128 -143 -16 -224 128 -102 73 -1173 80 -43 84 -224 89 -202 -97 -324 165 -202 149 -1173 21 -202 -1173 -24 159 -1173 155 -1173 35 -1173 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 34 E= 4.7e-032 0.176471 0.000000 0.794118 0.029412 0.088235 0.000000 0.852941 0.058824 0.411765 0.000000 0.441176 0.147059 0.029412 0.205882 0.705882 0.058824 0.529412 0.000000 0.235294 0.235294 0.058824 0.000000 0.941176 0.000000 0.058824 0.235294 0.705882 0.000000 0.382353 0.264706 0.088235 0.264706 0.058824 0.000000 0.647059 0.294118 0.029412 0.000000 0.941176 0.029412 0.088235 0.235294 0.529412 0.147059 0.176471 0.117647 0.470588 0.235294 0.411765 0.117647 0.323529 0.147059 0.029412 0.205882 0.441176 0.323529 0.205882 0.088235 0.705882 0.000000 0.500000 0.000000 0.323529 0.176471 0.558824 0.000000 0.411765 0.029412 0.205882 0.088235 0.617647 0.088235 0.205882 0.058824 0.617647 0.117647 0.382353 0.000000 0.441176 0.176471 0.411765 0.058824 0.470588 0.058824 0.117647 0.029412 0.794118 0.058824 0.647059 0.000000 0.294118 0.058824 0.000000 0.235294 0.764706 0.000000 0.676471 0.000000 0.323529 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- GG[GA][GC][AGT]G[GC][ACT][GT]G[GC][GT][AG][GTC][GA][AG][AG][GA][GA][GA][GA]G[AG][GC][AG] -------------------------------------------------------------------------------- Time 56.34 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 20 sites = 35 llr = 430 E-value = 3.0e-030 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :3::1::31:21:4:1211: pos.-specific C 9:6897a5598892535867 probability G 1:4:::::11:1:11:3::: matrix T :7:2:3:121:11445:132 bits 2.1 1.9 1.7 * 1.5 * Relative 1.3 * * * * Entropy 1.1 ** **** ** * * (17.7 bits) 0.8 ******* **** * * 0.6 ******** **** * *** 0.4 ******** **** ****** 0.2 ******************** 0.0 -------------------- Multilevel CTCCCCCCCCCCCTCTCCCC consensus AG T AT A ATCG TT sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------- chr6:72216026-72218866 2628 3.19e-11 TCCCACCCAC CTCCCCCACCCCCTTTCCCC AGCATAGATG chr1:134244847-134245778 570 3.61e-09 CTCTCTGGGC CTCCACCCCCCCCTTTCCCC TGTTCCCTCT chr1:134244752-134245912 665 3.61e-09 CTCTCTGGGC CTCCACCCCCCCCTTTCCCC TGTTCCCTCT chr1:134244219-134245778 1198 3.61e-09 CTCTCTGGGC CTCCACCCCCCCCTTTCCCC TGTTCCCTCT chr1:134332668-134333623 728 9.79e-09 ATGGGAGAAA CACCCCCCCCCCCCCCGCCC AGGCTGGACT chr8:123894638-123896819 31 4.00e-08 GTCTCCAGGT CACCCTCCCCACCTCCACCC TACCTGCTGC chr1:134160156-134160953 634 4.00e-08 ATCACTCTTG CACCCCCCCCCCCATCACTT GGTCCTCACT chr1:134160159-134162063 631 4.00e-08 ATCACTCTTG CACCCCCCCCCCCATCACTT GGTCCTCACT chrX:166803118-166803588 341 5.87e-08 CAGCTCACCC CACCCCCACCCCCTCTCCCA CCCTGCAGTT chrX:166778620-166779781 734 7.50e-08 CTCTCTTCCT CTCCCTCTCCCCCTCCCTCC CTCCATCCTT chr1:134071265-134073689 1539 1.07e-07 CTCTCCCTCT CTCCCTCCTTCCCTCTCCTC TTCTCTATCT chr1:91413901-91414660 190 1.21e-07 TCCCCTTAGA GTCCCCCATCCCCACTACCC CCAGTCCCTC chr8:120265441-120266019 55 3.95e-07 TCCTCACACC CTGCCCCCACCCTCCTGCTC CCCCAGAGGC chr7:19409569-19410199 355 3.95e-07 AGACATGTGG CTGCCCCCCCCCCCCAACAC CTGCTGCCTG chr1:134195091-134196873 1186 4.83e-07 GGCTCAGGCT CAGTCCCCACACCATCCCCC AGGGACAGGA chr1:134195091-134196479 1186 4.83e-07 GGCTCAGGCT CAGTCCCCACACCATCCCCC AGGGACAGGA chr1:134195643-134196479 634 4.83e-07 GGCTCAGGCT CAGTCCCCACACCATCCCCC AGGGACAGGA chr1:135794180-135795780 1121 6.47e-07 CACTCTGAGT CTCTCTCCTGCCCTCCCCCC AACATAGAAA chr5:125110919-125111688 518 7.11e-07 TGCCCCCACC TACCCCCACCCCCATCACTC TTGCCACTAG chr12:112617839-11261859 122 7.11e-07 ACGGAGAGCA CTGCCTCCCCAGCCTTCCTC CCCATTGCTT chr1:134082948-134083616 537 1.03e-06 GGTGGACCAG CTGCCTCTTCACCCCTCCTT AAGCAGACCG chr1:134289319-134290101 396 1.90e-06 GGAATGCACC CACCCCCACCTTCCCTGCCC CACAGGGGCT chr1:134067000-134067680 560 1.90e-06 ACAAGTGATG CTGCCCCCTGCCCTACCCCC ACCCGACACC chr15:97811911-97812695 597 1.90e-06 GAGGGGGGAA CTCCCCCCCCCCCAGAGGCC TTCCCCTCAC chr4:139770981-139771606 179 2.44e-06 ACCCTTGACC CTCCCCCCTCCTTGTTCCCT TTCTTTACCC chr10:81072192-81072934 129 2.65e-06 TGGGGATGAG CTGTCCCACCCTCATTCTAC ATGGCTGTCA chr10:80940445-80941162 623 3.65e-06 GTGAAGGTGC CTCTCTCAGACCCTCTGCTC TCTCCAGCCT chr8:122636472-122637392 854 7.69e-06 CCACCCATGG CTGCCCCACTCATACTCCTT GGACTTCGGT chr7:127210176-127210781 122 8.25e-06 TTCATAACTT CTCCATCTTCCCCTTTGATT CAAGTTTACT chr7:46352696-46354059 976 9.48e-06 ACTAGGGTCC CTGCCTCACCCGCACAGACT TAGAACATTT chr1:135697928-135699002 824 1.09e-05 ACGCGAGCCA GAGCCCCTTCCTCGCTCCCC CATCACGTCG chr1:134322485-134323001 379 1.51e-05 ACTGGCCAAG CTCCCTGAGCCCCAGTGTCC CCTCCTGACA chr1:170655330-170656359 794 1.61e-05 TCTTTCCAGC CTGCCTCAGCCATACCATCC ATAGTTCTTC chr11:6481396-6482367 680 2.21e-05 TGCCTGGTTA CTCCGTCTGCCCTTCTGCTT GATTAGAGCA chr6:128258964-128259829 80 2.65e-05 AGTGGTGGGG CACACCCACCACCTGAGCAC TGAGGCAGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:72216026-72218866 3.2e-11 2627_[+2]_193 chr1:134244847-134245778 3.6e-09 569_[+2]_342 chr1:134244752-134245912 3.6e-09 664_[+2]_476 chr1:134244219-134245778 3.6e-09 1197_[+2]_342 chr1:134332668-134333623 9.8e-09 727_[+2]_208 chr8:123894638-123896819 4e-08 30_[+2]_2131 chr1:134160156-134160953 4e-08 633_[+2]_144 chr1:134160159-134162063 4e-08 630_[+2]_1254 chrX:166803118-166803588 5.9e-08 340_[+2]_110 chrX:166778620-166779781 7.5e-08 733_[+2]_408 chr1:134071265-134073689 1.1e-07 1538_[+2]_866 chr1:91413901-91414660 1.2e-07 189_[+2]_550 chr8:120265441-120266019 4e-07 54_[+2]_504 chr7:19409569-19410199 4e-07 354_[+2]_256 chr1:134195091-134196873 4.8e-07 1185_[+2]_577 chr1:134195091-134196479 4.8e-07 1185_[+2]_183 chr1:134195643-134196479 4.8e-07 633_[+2]_183 chr1:135794180-135795780 6.5e-07 1120_[+2]_460 chr5:125110919-125111688 7.1e-07 517_[+2]_232 chr12:112617839-11261859 7.1e-07 121_[+2]_613 chr1:134082948-134083616 1e-06 536_[+2]_112 chr1:134289319-134290101 1.9e-06 395_[+2]_367 chr1:134067000-134067680 1.9e-06 559_[+2]_101 chr15:97811911-97812695 1.9e-06 596_[+2]_168 chr4:139770981-139771606 2.4e-06 178_[+2]_427 chr10:81072192-81072934 2.7e-06 128_[+2]_594 chr10:80940445-80941162 3.6e-06 622_[+2]_75 chr8:122636472-122637392 7.7e-06 853_[+2]_47 chr7:127210176-127210781 8.2e-06 121_[+2]_464 chr7:46352696-46354059 9.5e-06 975_[+2]_368 chr1:135697928-135699002 1.1e-05 823_[+2]_231 chr1:134322485-134323001 1.5e-05 378_[+2]_118 chr1:170655330-170656359 1.6e-05 793_[+2]_216 chr11:6481396-6482367 2.2e-05 679_[+2]_272 chr6:128258964-128259829 2.6e-05 79_[+2]_766 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=20 seqs=35 chr6:72216026-72218866 ( 2628) CTCCCCCACCCCCTTTCCCC 1 chr1:134244847-134245778 ( 570) CTCCACCCCCCCCTTTCCCC 1 chr1:134244752-134245912 ( 665) CTCCACCCCCCCCTTTCCCC 1 chr1:134244219-134245778 ( 1198) CTCCACCCCCCCCTTTCCCC 1 chr1:134332668-134333623 ( 728) CACCCCCCCCCCCCCCGCCC 1 chr8:123894638-123896819 ( 31) CACCCTCCCCACCTCCACCC 1 chr1:134160156-134160953 ( 634) CACCCCCCCCCCCATCACTT 1 chr1:134160159-134162063 ( 631) CACCCCCCCCCCCATCACTT 1 chrX:166803118-166803588 ( 341) CACCCCCACCCCCTCTCCCA 1 chrX:166778620-166779781 ( 734) CTCCCTCTCCCCCTCCCTCC 1 chr1:134071265-134073689 ( 1539) CTCCCTCCTTCCCTCTCCTC 1 chr1:91413901-91414660 ( 190) GTCCCCCATCCCCACTACCC 1 chr8:120265441-120266019 ( 55) CTGCCCCCACCCTCCTGCTC 1 chr7:19409569-19410199 ( 355) CTGCCCCCCCCCCCCAACAC 1 chr1:134195091-134196873 ( 1186) CAGTCCCCACACCATCCCCC 1 chr1:134195091-134196479 ( 1186) CAGTCCCCACACCATCCCCC 1 chr1:134195643-134196479 ( 634) CAGTCCCCACACCATCCCCC 1 chr1:135794180-135795780 ( 1121) CTCTCTCCTGCCCTCCCCCC 1 chr5:125110919-125111688 ( 518) TACCCCCACCCCCATCACTC 1 chr12:112617839-11261859 ( 122) CTGCCTCCCCAGCCTTCCTC 1 chr1:134082948-134083616 ( 537) CTGCCTCTTCACCCCTCCTT 1 chr1:134289319-134290101 ( 396) CACCCCCACCTTCCCTGCCC 1 chr1:134067000-134067680 ( 560) CTGCCCCCTGCCCTACCCCC 1 chr15:97811911-97812695 ( 597) CTCCCCCCCCCCCAGAGGCC 1 chr4:139770981-139771606 ( 179) CTCCCCCCTCCTTGTTCCCT 1 chr10:81072192-81072934 ( 129) CTGTCCCACCCTCATTCTAC 1 chr10:80940445-80941162 ( 623) CTCTCTCAGACCCTCTGCTC 1 chr8:122636472-122637392 ( 854) CTGCCCCACTCATACTCCTT 1 chr7:127210176-127210781 ( 122) CTCCATCTTCCCCTTTGATT 1 chr7:46352696-46354059 ( 976) CTGCCTCACCCGCACAGACT 1 chr1:135697928-135699002 ( 824) GAGCCCCTTCCTCGCTCCCC 1 chr1:134322485-134323001 ( 379) CTCCCTGAGCCCCAGTGTCC 1 chr1:170655330-170656359 ( 794) CTGCCTCAGCCATACCATCC 1 chr11:6481396-6482367 ( 680) CTCCGTCTGCCCTTCTGCTT 1 chr6:128258964-128259829 ( 80) CACACCCACCACCTGAGCAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 20 n= 40166 bayes= 10.2657 E= 3.0e-030 -1177 172 -215 -306 57 -1177 -1177 146 -1177 118 55 -1177 -301 153 -1177 -47 -101 163 -315 -1177 -1177 124 -1177 53 -1177 181 -315 -1177 57 89 -1177 -74 -101 97 -115 -6 -301 163 -215 -206 -21 147 -1177 -306 -201 147 -215 -106 -1177 163 -1177 -74 69 -70 -215 75 -301 81 -156 75 -101 30 -1177 119 -21 89 17 -1177 -201 153 -315 -106 -143 111 -1177 40 -301 142 -1177 -6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 20 nsites= 35 E= 3.0e-030 0.000000 0.914286 0.057143 0.028571 0.342857 0.000000 0.000000 0.657143 0.000000 0.628571 0.371429 0.000000 0.028571 0.800000 0.000000 0.171429 0.114286 0.857143 0.028571 0.000000 0.000000 0.657143 0.000000 0.342857 0.000000 0.971429 0.028571 0.000000 0.342857 0.514286 0.000000 0.142857 0.114286 0.542857 0.114286 0.228571 0.028571 0.857143 0.057143 0.057143 0.200000 0.771429 0.000000 0.028571 0.057143 0.771429 0.057143 0.114286 0.000000 0.857143 0.000000 0.142857 0.371429 0.171429 0.057143 0.400000 0.028571 0.485714 0.085714 0.400000 0.114286 0.342857 0.000000 0.542857 0.200000 0.514286 0.285714 0.000000 0.057143 0.800000 0.028571 0.114286 0.085714 0.600000 0.000000 0.314286 0.028571 0.742857 0.000000 0.228571 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- C[TA][CG]CC[CT]C[CA][CT]C[CA]CC[TA][CT][TC][CGA]C[CT][CT] -------------------------------------------------------------------------------- Time 111.28 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 25 sites = 18 llr = 317 E-value = 9.6e-023 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :31418:9263759192439672a5 pos.-specific C 854472a174714:8:3:3:326:2 probability G ::::21::1:11111:16:1::::3 matrix T 2262:::::::2:::13:4:112:1 bits 2.1 * 1.9 * * * * * 1.7 * * * * * 1.5 ** * * * * Relative 1.3 * ** * * * * Entropy 1.1 * *** * *** * * * * (25.4 bits) 0.8 * * ******* *** * * * * 0.6 * * ************ * ***** 0.4 **************** ******** 0.2 **************** ******** 0.0 ------------------------- Multilevel CCTACACACACAAACACGTAAACAA consensus ACCG ACA C TAA CCA G sequence T T A C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chr1:134195091-134196873 682 1.72e-13 TAGCACCCCC CCTCCACACACACACACGTAAACAG CAGGATGTCT chr1:134195091-134196479 682 1.72e-13 TAGCACCCCC CCTCCACACACACACACGTAAACAG CAGGATGTCT chr1:134195643-134196479 130 1.72e-13 TAGCACCCCC CCTCCACACACACACACGTAAACAG CAGGATGTCT chr1:134289319-134290101 92 1.31e-10 ACGATAGGGA CACACACACACACACACACACACAC ACACACACAC chr1:134067000-134067680 619 2.17e-10 CACACAGACA CACAGACACACACACACACACACAG ACACACAGAC chr1:134071265-134073689 55 6.19e-10 TGCGACCCTG TCTCAACAAACAAACAAACAAACAA AGTGGGCGTA chr8:120265441-120266019 533 1.60e-09 CACACTCTTT CATACACACACACACATACACTCAC ATACACACAC chr1:134244847-134245778 173 2.36e-09 GCTTTTTGGC CCTTCCCACCCTAACATGTAACTAA TGGCAGGTAG chr1:134244752-134245912 268 2.36e-09 GCTTTTTGGC CCTTCCCACCCTAACATGTAACTAA TGGCAGGTAG chr1:134244219-134245778 801 2.36e-09 GCTTTTTGGC CCTTCCCACCCTAACATGTAACTAA TGGCAGGTAG chr6:72216026-72218866 87 2.60e-09 CAGACACACA TCCAGACACACGCACACGTACACAA GGACAAACAT chr1:134160156-134160953 122 5.89e-09 CAGAGCCTGC CTCAGACAAAAAAAAAAAAAAAAAA AAAAAAAAAA chr1:134160159-134162063 119 5.89e-09 CAGAGCCTGC CTCAGACAAAAAAAAAAAAAAAAAA AAAAAAAAAA chr1:170655330-170656359 595 2.66e-08 CAGTAGACCC CATTCACCCCAACACATGTGTACAA TACTGTTGCA chr1:135794180-135795780 324 1.51e-07 TGGATTCAAT CCCCAGCACCGAAACAAGAATACAC GAAGAACTTA chr1:66921855-66922977 876 1.89e-07 AAGGCACGCA CTACCACACCCAAGCTTGAAAACAT GATTTAAGTT chr6:128258964-128259829 193 3.19e-07 TCAAAAATAC CTTCCACCAAAAGAGAGAAAAAAAG GGGGGAAGAG chr10:80940445-80941162 219 4.29e-07 GTAGCATAGC TACACACAGCACAACAGGCACCAAA CCTGTAGCCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:134195091-134196873 1.7e-13 681_[+3]_1076 chr1:134195091-134196479 1.7e-13 681_[+3]_682 chr1:134195643-134196479 1.7e-13 129_[+3]_682 chr1:134289319-134290101 1.3e-10 91_[+3]_666 chr1:134067000-134067680 2.2e-10 618_[+3]_37 chr1:134071265-134073689 6.2e-10 54_[+3]_2345 chr8:120265441-120266019 1.6e-09 532_[+3]_21 chr1:134244847-134245778 2.4e-09 172_[+3]_734 chr1:134244752-134245912 2.4e-09 267_[+3]_868 chr1:134244219-134245778 2.4e-09 800_[+3]_734 chr6:72216026-72218866 2.6e-09 86_[+3]_2729 chr1:134160156-134160953 5.9e-09 121_[+3]_651 chr1:134160159-134162063 5.9e-09 118_[+3]_1761 chr1:170655330-170656359 2.7e-08 594_[+3]_410 chr1:135794180-135795780 1.5e-07 323_[+3]_1252 chr1:66921855-66922977 1.9e-07 875_[+3]_222 chr6:128258964-128259829 3.2e-07 192_[+3]_648 chr10:80940445-80941162 4.3e-07 218_[+3]_474 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=25 seqs=18 chr1:134195091-134196873 ( 682) CCTCCACACACACACACGTAAACAG 1 chr1:134195091-134196479 ( 682) CCTCCACACACACACACGTAAACAG 1 chr1:134195643-134196479 ( 130) CCTCCACACACACACACGTAAACAG 1 chr1:134289319-134290101 ( 92) CACACACACACACACACACACACAC 1 chr1:134067000-134067680 ( 619) CACAGACACACACACACACACACAG 1 chr1:134071265-134073689 ( 55) TCTCAACAAACAAACAAACAAACAA 1 chr8:120265441-120266019 ( 533) CATACACACACACACATACACTCAC 1 chr1:134244847-134245778 ( 173) CCTTCCCACCCTAACATGTAACTAA 1 chr1:134244752-134245912 ( 268) CCTTCCCACCCTAACATGTAACTAA 1 chr1:134244219-134245778 ( 801) CCTTCCCACCCTAACATGTAACTAA 1 chr6:72216026-72218866 ( 87) TCCAGACACACGCACACGTACACAA 1 chr1:134160156-134160953 ( 122) CTCAGACAAAAAAAAAAAAAAAAAA 1 chr1:134160159-134162063 ( 119) CTCAGACAAAAAAAAAAAAAAAAAA 1 chr1:170655330-170656359 ( 595) CATTCACCCCAACACATGTGTACAA 1 chr1:135794180-135795780 ( 324) CCCCAGCACCGAAACAAGAATACAC 1 chr1:66921855-66922977 ( 876) CTACCACACCCAAGCTTGAAAACAT 1 chr6:128258964-128259829 ( 193) CTTCCACCAAAAGAGAGAAAAAAAG 1 chr10:80940445-80941162 ( 219) TACACACAGCACAACAGGCACCAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 39971 bayes= 11.9644 E= 9.6e-023 -1081 159 -1081 -51 27 85 -1081 -10 -205 49 -1081 122 75 49 -1081 -10 -105 126 -19 -1081 175 -74 -219 -1081 -1081 185 -1081 -1081 195 -132 -1081 -1081 -5 138 -219 -1081 140 49 -1081 -1081 27 126 -219 -1081 165 -232 -219 -51 112 68 -219 -1081 203 -1081 -219 -1081 -105 159 -219 -1081 203 -1081 -1081 -210 -5 26 -119 48 75 -1081 127 -1081 27 0 -1081 90 203 -1081 -219 -1081 140 0 -1081 -110 165 -32 -1081 -210 -5 114 -1081 -51 212 -1081 -1081 -1081 112 -74 13 -210 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 18 E= 9.6e-023 0.000000 0.833333 0.000000 0.166667 0.277778 0.500000 0.000000 0.222222 0.055556 0.388889 0.000000 0.555556 0.388889 0.388889 0.000000 0.222222 0.111111 0.666667 0.222222 0.000000 0.777778 0.166667 0.055556 0.000000 0.000000 1.000000 0.000000 0.000000 0.888889 0.111111 0.000000 0.000000 0.222222 0.722222 0.055556 0.000000 0.611111 0.388889 0.000000 0.000000 0.277778 0.666667 0.055556 0.000000 0.722222 0.055556 0.055556 0.166667 0.500000 0.444444 0.055556 0.000000 0.944444 0.000000 0.055556 0.000000 0.111111 0.833333 0.055556 0.000000 0.944444 0.000000 0.000000 0.055556 0.222222 0.333333 0.111111 0.333333 0.388889 0.000000 0.611111 0.000000 0.277778 0.277778 0.000000 0.444444 0.944444 0.000000 0.055556 0.000000 0.611111 0.277778 0.000000 0.111111 0.722222 0.222222 0.000000 0.055556 0.222222 0.611111 0.000000 0.166667 1.000000 0.000000 0.000000 0.000000 0.500000 0.166667 0.277778 0.055556 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- C[CAT][TC][ACT][CG]ACA[CA][AC][CA]A[AC]ACA[CTA][GA][TAC]A[AC][AC][CA]A[AG] -------------------------------------------------------------------------------- Time 165.41 secs. ******************************************************************************** ******************************************************************************** MOTIF 4 width = 11 sites = 37 llr = 348 E-value = 1.3e-014 ******************************************************************************** -------------------------------------------------------------------------------- Motif 4 Description -------------------------------------------------------------------------------- Simplified A :1:9::4::1: pos.-specific C 449::a::7:: probability G 441:a::a11a matrix T 1211::6:28: bits 2.1 1.9 * * * 1.7 ** * * 1.5 *** * * Relative 1.3 **** * * Entropy 1.1 **** * ** (13.6 bits) 0.8 ********* 0.6 ********* 0.4 * ********* 0.2 * ********* 0.0 ----------- Multilevel CCCAGCTGCTG consensus GG A T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------- chr1:134195091-134196873 1218 2.91e-07 GGACAGGAAT GGCAGCTGCTG CAGCTTCCAC chr1:134195091-134196479 1218 2.91e-07 GGACAGGAAT GGCAGCTGCTG CAGCTTCCAC chr1:134195643-134196479 666 2.91e-07 GGACAGGAAT GGCAGCTGCTG CAGCTTCCAC chr1:134067000-134067680 268 2.91e-07 GGTGTCAAGA GGCAGCTGCTG TTTGTGGTCT chr1:43136409-43137115 282 1.57e-06 CTGTGTGACT GGCAGCAGCTG TGTGGCTGGC chr10:81072192-81072934 259 2.19e-06 TGGGATCAGT GCCAGCAGCTG CTAGTGCCAC chr1:170655330-170656359 323 3.66e-06 ACACAGGATG CTCAGCAGCTG TTTAGTTGGG chr1:134244847-134245778 358 5.02e-06 CAAAGGCTGG CACAGCTGCTG GGGTGGCCCA chr1:134244752-134245912 453 5.02e-06 CAAAGGCTGG CACAGCTGCTG GGGTGGCCCA chr1:134244219-134245778 986 5.02e-06 CAAAGGCTGG CACAGCTGCTG GGGTGGCCCA chr11:6481396-6482367 415 5.02e-06 CTCGGCTGAA GCCAGCTGTTG TGTCCACAAA chrX:166778620-166779781 1021 5.32e-06 ATGAATCTTG CCCAGCTGTTG TACCCTCTGC chr12:112617839-11261859 498 5.32e-06 CTGGCAGGGT CCCAGCTGTTG AGCCTGAGTG chr5:125110919-125111688 385 6.10e-06 TCTGGGCCAA GACAGCAGCTG CTGGCAGCCA chr1:134289319-134290101 668 7.50e-06 TTAAATGGCA CCCAGCAGTTG GTGTGAGGGG chr1:135697928-135699002 583 8.01e-06 AGATGTGCTT TGCAGCAGCTG TGACGGAAAG chr7:46352696-46354059 588 8.84e-06 AGTATCCTCC TCCAGCAGCTG GTCACAAAGC chr1:91413901-91414660 301 8.84e-06 CGTGACAGTT GGCAGCTGCAG CCGCTTCCGC chr6:72216026-72218866 1072 1.12e-05 AGGCGGCGCT CCCAGCTGCAG CCGGAGGCCG chr12:27390261-27391004 76 1.12e-05 CCAAAGCCAA CGCTGCTGCTG CTGCTGCTGG chr8:123894638-123896819 1944 1.42e-05 CCACACCTGG CGCAGCAGCAG GCAGGTGAGT chr1:66921855-66922977 343 2.15e-05 CTGTTGTTTC GCCAGCTGGTG GGGATTTGTA chr8:120265441-120266019 284 2.67e-05 ACAGGTCACC CTCTGCAGCTG TCCTCCTTGG chr1:134071265-134073689 1835 2.67e-05 GGTCAGGCGC ACCAGCTGCTG GTGCTGCCCT chr15:97811911-97812695 333 3.92e-05 GCCTACGCCA GCCAGCTGTGG GCCTGGTCTG chrX:166803118-166803588 361 4.54e-05 CCCTCTCCCA CCCTGCAGTTG TTTGCCAATC chr1:134160159-134162063 1561 4.85e-05 GCCAAAGGTA GCCAGCAGTGG AATATGACGT chr7:127210176-127210781 321 5.09e-05 GAAGGCCAAG GGCAGCTGCTA AGTTTAGGGT chr1:134332668-134333623 482 5.09e-05 GCCCCCCACC TCCTGCAGCTG TCAGAAGTGC chrX:166805408-166805925 363 5.39e-05 TTACAAAGTA CTTAGCAGCTG TCTGGGAAAT chr6:128258964-128259829 399 5.39e-05 TGGGGAGATC CTGAGCAGCTG GAGATTGCAA chr1:134082948-134083616 431 7.13e-05 TTTGCCTGGG TGTAGCTGCTG CAGATGCTAA chr8:122636472-122637392 651 8.43e-05 GCCAGACACT GTCACCTGCTG CCTAGGACCA chr1:135794180-135795780 900 9.61e-05 ACAATGCCGG GGCAGCTGGGG CTGGCTGACA chr4:139770981-139771606 319 1.10e-04 TGGCAGTGTC GGGAGCAGCAG CCAGTGGGAA chr10:80940445-80941162 280 1.81e-04 CATCCCTGCC CTCTGCTGTGG CCTGAGGCCA chr7:19409569-19410199 510 1.91e-04 GGCCACTTCC CTCAGCCGCAG GTTTGTTTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:134195091-134196873 2.9e-07 1217_[+4]_554 chr1:134195091-134196479 2.9e-07 1217_[+4]_160 chr1:134195643-134196479 2.9e-07 665_[+4]_160 chr1:134067000-134067680 2.9e-07 267_[+4]_402 chr1:43136409-43137115 1.6e-06 281_[+4]_414 chr10:81072192-81072934 2.2e-06 258_[+4]_473 chr1:170655330-170656359 3.7e-06 322_[+4]_696 chr1:134244847-134245778 5e-06 357_[+4]_563 chr1:134244752-134245912 5e-06 452_[+4]_697 chr1:134244219-134245778 5e-06 985_[+4]_563 chr11:6481396-6482367 5e-06 414_[+4]_546 chrX:166778620-166779781 5.3e-06 1020_[+4]_130 chr12:112617839-11261859 5.3e-06 497_[+4]_246 chr5:125110919-125111688 6.1e-06 384_[+4]_374 chr1:134289319-134290101 7.5e-06 667_[+4]_104 chr1:135697928-135699002 8e-06 582_[+4]_481 chr7:46352696-46354059 8.8e-06 587_[+4]_765 chr1:91413901-91414660 8.8e-06 300_[+4]_448 chr6:72216026-72218866 1.1e-05 1071_[+4]_1758 chr12:27390261-27391004 1.1e-05 75_[+4]_657 chr8:123894638-123896819 1.4e-05 1943_[+4]_227 chr1:66921855-66922977 2.2e-05 342_[+4]_769 chr8:120265441-120266019 2.7e-05 283_[+4]_284 chr1:134071265-134073689 2.7e-05 1834_[+4]_579 chr15:97811911-97812695 3.9e-05 332_[+4]_441 chrX:166803118-166803588 4.5e-05 360_[+4]_99 chr1:134160159-134162063 4.8e-05 1560_[+4]_333 chr7:127210176-127210781 5.1e-05 320_[+4]_274 chr1:134332668-134333623 5.1e-05 481_[+4]_463 chrX:166805408-166805925 5.4e-05 362_[+4]_144 chr6:128258964-128259829 5.4e-05 398_[+4]_456 chr1:134082948-134083616 7.1e-05 430_[+4]_227 chr8:122636472-122637392 8.4e-05 650_[+4]_259 chr1:135794180-135795780 9.6e-05 899_[+4]_690 chr4:139770981-139771606 0.00011 318_[+4]_296 chr10:80940445-80941162 0.00018 279_[+4]_427 chr7:19409569-19410199 0.00019 509_[+4]_110 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 4 width=11 seqs=37 chr1:134195091-134196873 ( 1218) GGCAGCTGCTG 1 chr1:134195091-134196479 ( 1218) GGCAGCTGCTG 1 chr1:134195643-134196479 ( 666) GGCAGCTGCTG 1 chr1:134067000-134067680 ( 268) GGCAGCTGCTG 1 chr1:43136409-43137115 ( 282) GGCAGCAGCTG 1 chr10:81072192-81072934 ( 259) GCCAGCAGCTG 1 chr1:170655330-170656359 ( 323) CTCAGCAGCTG 1 chr1:134244847-134245778 ( 358) CACAGCTGCTG 1 chr1:134244752-134245912 ( 453) CACAGCTGCTG 1 chr1:134244219-134245778 ( 986) CACAGCTGCTG 1 chr11:6481396-6482367 ( 415) GCCAGCTGTTG 1 chrX:166778620-166779781 ( 1021) CCCAGCTGTTG 1 chr12:112617839-11261859 ( 498) CCCAGCTGTTG 1 chr5:125110919-125111688 ( 385) GACAGCAGCTG 1 chr1:134289319-134290101 ( 668) CCCAGCAGTTG 1 chr1:135697928-135699002 ( 583) TGCAGCAGCTG 1 chr7:46352696-46354059 ( 588) TCCAGCAGCTG 1 chr1:91413901-91414660 ( 301) GGCAGCTGCAG 1 chr6:72216026-72218866 ( 1072) CCCAGCTGCAG 1 chr12:27390261-27391004 ( 76) CGCTGCTGCTG 1 chr8:123894638-123896819 ( 1944) CGCAGCAGCAG 1 chr1:66921855-66922977 ( 343) GCCAGCTGGTG 1 chr8:120265441-120266019 ( 284) CTCTGCAGCTG 1 chr1:134071265-134073689 ( 1835) ACCAGCTGCTG 1 chr15:97811911-97812695 ( 333) GCCAGCTGTGG 1 chrX:166803118-166803588 ( 361) CCCTGCAGTTG 1 chr1:134160159-134162063 ( 1561) GCCAGCAGTGG 1 chr7:127210176-127210781 ( 321) GGCAGCTGCTA 1 chr1:134332668-134333623 ( 482) TCCTGCAGCTG 1 chrX:166805408-166805925 ( 363) CTTAGCAGCTG 1 chr6:128258964-128259829 ( 399) CTGAGCAGCTG 1 chr1:134082948-134083616 ( 431) TGTAGCTGCTG 1 chr8:122636472-122637392 ( 651) GTCACCTGCTG 1 chr1:135794180-135795780 ( 900) GGCAGCTGGGG 1 chr4:139770981-139771606 ( 319) GGGAGCAGCAG 1 chr10:80940445-80941162 ( 280) CTCTGCTGTGG 1 chr7:19409569-19410199 ( 510) CTCAGCCGCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 40517 bayes= 10.2607 E= 1.3e-014 -309 64 77 -114 -109 34 47 -33 -1185 168 -223 -214 191 -1185 -1185 -82 -1185 -336 194 -1185 -1185 185 -1185 -1185 81 -336 -1185 125 -1185 -1185 198 -1185 -1185 139 -223 -14 -77 -1185 -123 167 -309 -1185 194 -1185 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 37 E= 1.3e-014 0.027027 0.432432 0.432432 0.108108 0.108108 0.351351 0.351351 0.189189 0.000000 0.891892 0.054054 0.054054 0.864865 0.000000 0.000000 0.135135 0.000000 0.027027 0.972973 0.000000 0.000000 1.000000 0.000000 0.000000 0.405405 0.027027 0.000000 0.567568 0.000000 0.000000 1.000000 0.000000 0.000000 0.729730 0.054054 0.216216 0.135135 0.000000 0.108108 0.756757 0.027027 0.000000 0.972973 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 regular expression -------------------------------------------------------------------------------- [CG][CG]CAGC[TA]G[CT]TG -------------------------------------------------------------------------------- Time 218.92 secs. ******************************************************************************** ******************************************************************************** MOTIF 5 width = 25 sites = 10 llr = 222 E-value = 4.7e-013 ******************************************************************************** -------------------------------------------------------------------------------- Motif 5 Description -------------------------------------------------------------------------------- Simplified A ::73:4:3:6:2:9::1:::3:3:: pos.-specific C ::21a:27a1::7:356a::197:6 probability G a616:28:::a83:2::::a61::4 matrix T :4:::4:::3:::1553:a::::a: bits 2.1 * * 1.9 * * * * *** * 1.7 * * * * * *** * 1.5 * * * * * *** * * Relative 1.3 * * * * ** * *** * * Entropy 1.1 ** * *** **** * *** *** (32.0 bits) 0.8 *** * ******** * *** **** 0.6 ************** ********** 0.4 ************************* 0.2 ************************* 0.0 ------------------------- Multilevel GGAGCAGCCAGGCATCCCTGGCCTC consensus TCA TCA T AG CTT A A G sequence G G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chr1:134195091-134196873 1007 3.09e-15 TTGGCCACCT GGAGCTGCCAGGCATTCCTGGCCTC CCAGAGCTGT chr1:134195091-134196479 1007 3.09e-15 TTGGCCACCT GGAGCTGCCAGGCATTCCTGGCCTC CCAGAGCTGT chr1:134195643-134196479 455 3.09e-15 TTGGCCACCT GGAGCTGCCAGGCATTCCTGGCCTC CCAGAGCTGT chr1:134244847-134245778 476 1.77e-11 TAGACCTTTC GTAGCAGCCTGGGACCTCTGACCTC ACTCTTGCCA chr1:134244752-134245912 571 1.77e-11 TAGACCTTTC GTAGCAGCCTGGGACCTCTGACCTC ACTCTTGCCA chr1:134244219-134245778 1104 1.77e-11 TAGACCTTTC GTAGCAGCCTGGGACCTCTGACCTC ACTCTTGCCA chr1:134160156-134160953 298 1.53e-10 TATGGGGAGG GGCACGGACAGACATTCCTGGCATG ATCGCCCTTC chr1:134160159-134162063 295 1.53e-10 TATGGGGAGG GGCACGGACAGACATTCCTGGCATG ATCGCCCTTC chr1:134067000-134067680 187 1.78e-09 TCCCTTCCTC GTGACTCACCGGCAGCCCTGCCCTG CCCTCCCTCC chr5:125110919-125111688 35 2.67e-09 CTCTAGTCAG GGACCACCCAGGCTGCACTGGGATG CTCTGGCAAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:134195091-134196873 3.1e-15 1006_[+5]_751 chr1:134195091-134196479 3.1e-15 1006_[+5]_357 chr1:134195643-134196479 3.1e-15 454_[+5]_357 chr1:134244847-134245778 1.8e-11 475_[+5]_431 chr1:134244752-134245912 1.8e-11 570_[+5]_565 chr1:134244219-134245778 1.8e-11 1103_[+5]_431 chr1:134160156-134160953 1.5e-10 297_[+5]_475 chr1:134160159-134162063 1.5e-10 294_[+5]_1585 chr1:134067000-134067680 1.8e-09 186_[+5]_469 chr5:125110919-125111688 2.7e-09 34_[+5]_710 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 5 width=25 seqs=10 chr1:134195091-134196873 ( 1007) GGAGCTGCCAGGCATTCCTGGCCTC 1 chr1:134195091-134196479 ( 1007) GGAGCTGCCAGGCATTCCTGGCCTC 1 chr1:134195643-134196479 ( 455) GGAGCTGCCAGGCATTCCTGGCCTC 1 chr1:134244847-134245778 ( 476) GTAGCAGCCTGGGACCTCTGACCTC 1 chr1:134244752-134245912 ( 571) GTAGCAGCCTGGGACCTCTGACCTC 1 chr1:134244219-134245778 ( 1104) GTAGCAGCCTGGGACCTCTGACCTC 1 chr1:134160156-134160953 ( 298) GGCACGGACAGACATTCCTGGCATG 1 chr1:134160159-134162063 ( 295) GGCACGGACAGACATTCCTGGCATG 1 chr1:134067000-134067680 ( 187) GTGACTCACCGGCAGCCCTGCCCTG 1 chr5:125110919-125111688 ( 35) GGACCACCCAGGCTGCACTGGGATG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 39971 bayes= 12.216 E= 4.7e-013 -997 -997 198 -997 -997 -997 124 75 160 -47 -134 -997 38 -147 124 -997 -997 185 -997 -997 79 -997 -34 75 -997 -47 166 -997 38 133 -997 -997 -997 185 -997 -997 138 -147 -997 33 -997 -997 198 -997 -21 -997 166 -997 -997 133 24 -997 196 -997 -997 -125 -997 11 -34 107 -997 85 -997 107 -120 111 -997 33 -997 185 -997 -997 -997 -997 -997 207 -997 -997 198 -997 38 -147 124 -997 -997 170 -134 -997 38 133 -997 -997 -997 -997 -997 207 -997 111 66 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 10 E= 4.7e-013 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.600000 0.400000 0.700000 0.200000 0.100000 0.000000 0.300000 0.100000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.400000 0.000000 0.200000 0.400000 0.000000 0.200000 0.800000 0.000000 0.300000 0.700000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.600000 0.100000 0.000000 0.300000 0.000000 0.000000 1.000000 0.000000 0.200000 0.000000 0.800000 0.000000 0.000000 0.700000 0.300000 0.000000 0.900000 0.000000 0.000000 0.100000 0.000000 0.300000 0.200000 0.500000 0.000000 0.500000 0.000000 0.500000 0.100000 0.600000 0.000000 0.300000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.300000 0.100000 0.600000 0.000000 0.000000 0.900000 0.100000 0.000000 0.300000 0.700000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.600000 0.400000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 regular expression -------------------------------------------------------------------------------- G[GT][AC][GA]C[ATG][GC][CA]C[AT]G[GA][CG]A[TCG][CT][CT]CTG[GA]C[CA]T[CG] -------------------------------------------------------------------------------- Time 271.25 secs. ******************************************************************************** ******************************************************************************** MOTIF 6 width = 15 sites = 39 llr = 379 E-value = 4.2e-014 ******************************************************************************** -------------------------------------------------------------------------------- Motif 6 Description -------------------------------------------------------------------------------- Simplified A :3111:14:::3423 pos.-specific C 21:::27:::211:1 probability G 8:66972:a985466 matrix T :54411:6:1:212: bits 2.1 1.9 * 1.7 * 1.5 * ** Relative 1.3 * * ** Entropy 1.1 * * **** (14.0 bits) 0.8 * ********* 0.6 *********** ** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel GTGGGGCTGGGGGGG consensus CATT GA AATA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- chr6:72216026-72218866 1328 3.60e-08 TGGCTGGGGG GTGGGGGTGGGGGGG CACTCCTGGG chr6:128258964-128259829 459 3.60e-08 GAGGACCTGG GAGGGGCTGGGAAGG ACATCCCTAC chr1:134244847-134245778 78 9.10e-08 TTTTCTATGT GTGTGGCTGGGAGGA TTTGGTGGTA chr1:134244752-134245912 173 9.10e-08 TTTTCTATGT GTGTGGCTGGGAGGA TTTGGTGGTA chr1:134244219-134245778 706 9.10e-08 TTTTCTATGT GTGTGGCTGGGAGGA TTTGGTGGTA chr1:135794180-135795780 811 1.50e-07 TCCCTGAGCA GTGTGGGAGGGGAGG GCCTGCTGGC chr12:112617839-11261859 450 5.60e-07 TGGGCTCACT GAGGGGGTGGGGGTG CTAATTCCGG chr8:122636472-122637392 796 1.29e-06 ACACACCAGG GTGTGGCAGGGACGG CCATCTCTGG chr1:134195091-134196873 937 1.47e-06 CCTCTCATGA GCTGGGCAGGGGAGA GTGGAGGCCC chr1:134195091-134196479 937 1.47e-06 CCTCTCATGA GCTGGGCAGGGGAGA GTGGAGGCCC chr1:134195643-134196479 385 1.47e-06 CCTCTCATGA GCTGGGCAGGGGAGA GTGGAGGCCC chrX:166803118-166803588 168 2.43e-06 GCCTTCACCT GTTGGGCTGGCAGTG CCTGTGTCAG chr1:134332668-134333623 800 2.72e-06 AGGCTGGGCA GTGGGGCAGGCAGAG CCCTGACCTG chr1:134082948-134083616 401 3.89e-06 AGGGACTGGC CTTGGGGTGGGGGTG CTGAGTTTGC chr8:120265441-120266019 164 4.36e-06 TCTGAGACGC CTGTGGCTGGGAAAA CCAGGCCCCC chr1:134160156-134160953 283 4.36e-06 CTTGCCCAGG GTGTGTATGGGGAGG GGCACGGACA chr1:134160159-134162063 280 4.36e-06 CTTGCCCAGG GTGTGTATGGGGAGG GGCACGGACA chr10:80940445-80941162 552 6.71e-06 TAGATGACAG GTGGACCTGGGGAGG AAGGCTATAT chr1:134289319-134290101 418 7.43e-06 CCCTGCCCCA CAGGGGCTGTGGAGA AATGAAAACT chr7:19409569-19410199 482 1.00e-05 GATCCAGGGT GAGGGGCAGGCTGAG GGCGGCCACT chr11:6481396-6482367 284 1.22e-05 GAAGAGACAG GTGTGGGAGGTGAGG GGAAGGGTGC chr8:123894638-123896819 1333 1.34e-05 ACTTATGGAA GCTGGGATGGGGGTG AGTAGAGGTC chr1:135697928-135699002 335 1.47e-05 GGCTGCAGTC CAGGGGCTGGGGTGC TACCCAGAGA chr4:139770981-139771606 553 1.77e-05 GCCCTGCCAA GAATGTCAGGGGAGG GGGGCGGTTT chr1:134067000-134067680 91 2.31e-05 TCCTTGCAGG GGTGGGGTGGGGGAG ATTTGCCCTC chr1:134322485-134323001 438 2.31e-05 CCCGGGCAGT GTTTTGGTGGGGGAG TCTCCTTTCT chr1:170655330-170656359 979 2.74e-05 TCTTCCTCCA GATGGCCTGGAGAGG TATCATTGAC chr1:43136409-43137115 162 2.98e-05 GGCTGCAGCT GTGTGGCTGGGCTGC AGCTGTGTGG chr10:81072192-81072934 234 2.98e-05 TGTCGAACAA GTGTTGCTGGGGCTG TGGGATCAGT chr1:134071265-134073689 1420 3.51e-05 GGCCTCCAGT GTTTGCCAGTGGTGG GGATGGTTTA chr7:46352696-46354059 270 3.80e-05 TGCTTCAGGC CTGAGGCAGGCAGGG GCCAGGCCCT chr7:127210176-127210781 299 5.19e-05 CTAAAGCCGG GAGGGGCTGTGCGAA GGCCAAGGGC chrX:166778620-166779781 819 7.47e-05 AAAGTTAAGG GATGGGGAGGGTCTA TTCTTCCTCC chr1:91413901-91414660 483 7.47e-05 CGCGGGAGGG GTGTGTGTGTGTGTG TGTGTGTGTG chr12:27390261-27391004 397 7.47e-05 TGGTGTCCTG CAGGGCCAGGGTGGC CTCCTCATCC chr15:97811911-97812695 345 8.02e-05 CAGCTGTGGG CCTGGTCTGGCAAGG ACAGCAGGCT chr5:125110919-125111688 404 1.12e-04 TGCTGGCAGC CATGGCCAGGCAGAG TCTGCGGCTG chr1:66921855-66922977 801 5.11e-04 AACTCTTTCT GTAGACCAGGGTAGC CTCAAACTCA chrX:166805408-166805925 341 6.58e-04 ATCTACACAG GATAGGCTGTCTTTA CAAAGTACTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:72216026-72218866 3.6e-08 1327_[+6]_1498 chr6:128258964-128259829 3.6e-08 458_[+6]_392 chr1:134244847-134245778 9.1e-08 77_[+6]_839 chr1:134244752-134245912 9.1e-08 172_[+6]_973 chr1:134244219-134245778 9.1e-08 705_[+6]_839 chr1:135794180-135795780 1.5e-07 810_[+6]_775 chr12:112617839-11261859 5.6e-07 449_[+6]_290 chr8:122636472-122637392 1.3e-06 795_[+6]_110 chr1:134195091-134196873 1.5e-06 936_[+6]_831 chr1:134195091-134196479 1.5e-06 936_[+6]_437 chr1:134195643-134196479 1.5e-06 384_[+6]_437 chrX:166803118-166803588 2.4e-06 167_[+6]_288 chr1:134332668-134333623 2.7e-06 799_[+6]_141 chr1:134082948-134083616 3.9e-06 400_[+6]_253 chr8:120265441-120266019 4.4e-06 163_[+6]_400 chr1:134160156-134160953 4.4e-06 282_[+6]_500 chr1:134160159-134162063 4.4e-06 279_[+6]_1610 chr10:80940445-80941162 6.7e-06 551_[+6]_151 chr1:134289319-134290101 7.4e-06 417_[+6]_350 chr7:19409569-19410199 1e-05 481_[+6]_134 chr11:6481396-6482367 1.2e-05 283_[+6]_673 chr8:123894638-123896819 1.3e-05 1332_[+6]_834 chr1:135697928-135699002 1.5e-05 334_[+6]_725 chr4:139770981-139771606 1.8e-05 552_[+6]_58 chr1:134067000-134067680 2.3e-05 90_[+6]_575 chr1:134322485-134323001 2.3e-05 437_[+6]_64 chr1:170655330-170656359 2.7e-05 978_[+6]_36 chr1:43136409-43137115 3e-05 161_[+6]_530 chr10:81072192-81072934 3e-05 233_[+6]_494 chr1:134071265-134073689 3.5e-05 1419_[+6]_990 chr7:46352696-46354059 3.8e-05 269_[+6]_1079 chr7:127210176-127210781 5.2e-05 298_[+6]_292 chrX:166778620-166779781 7.5e-05 818_[+6]_328 chr1:91413901-91414660 7.5e-05 482_[+6]_262 chr12:27390261-27391004 7.5e-05 396_[+6]_332 chr15:97811911-97812695 8e-05 344_[+6]_425 chr5:125110919-125111688 0.00011 403_[+6]_351 chr1:66921855-66922977 0.00051 800_[+6]_307 chrX:166805408-166805925 0.00066 340_[+6]_162 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 6 width=15 seqs=39 chr6:72216026-72218866 ( 1328) GTGGGGGTGGGGGGG 1 chr6:128258964-128259829 ( 459) GAGGGGCTGGGAAGG 1 chr1:134244847-134245778 ( 78) GTGTGGCTGGGAGGA 1 chr1:134244752-134245912 ( 173) GTGTGGCTGGGAGGA 1 chr1:134244219-134245778 ( 706) GTGTGGCTGGGAGGA 1 chr1:135794180-135795780 ( 811) GTGTGGGAGGGGAGG 1 chr12:112617839-11261859 ( 450) GAGGGGGTGGGGGTG 1 chr8:122636472-122637392 ( 796) GTGTGGCAGGGACGG 1 chr1:134195091-134196873 ( 937) GCTGGGCAGGGGAGA 1 chr1:134195091-134196479 ( 937) GCTGGGCAGGGGAGA 1 chr1:134195643-134196479 ( 385) GCTGGGCAGGGGAGA 1 chrX:166803118-166803588 ( 168) GTTGGGCTGGCAGTG 1 chr1:134332668-134333623 ( 800) GTGGGGCAGGCAGAG 1 chr1:134082948-134083616 ( 401) CTTGGGGTGGGGGTG 1 chr8:120265441-120266019 ( 164) CTGTGGCTGGGAAAA 1 chr1:134160156-134160953 ( 283) GTGTGTATGGGGAGG 1 chr1:134160159-134162063 ( 280) GTGTGTATGGGGAGG 1 chr10:80940445-80941162 ( 552) GTGGACCTGGGGAGG 1 chr1:134289319-134290101 ( 418) CAGGGGCTGTGGAGA 1 chr7:19409569-19410199 ( 482) GAGGGGCAGGCTGAG 1 chr11:6481396-6482367 ( 284) GTGTGGGAGGTGAGG 1 chr8:123894638-123896819 ( 1333) GCTGGGATGGGGGTG 1 chr1:135697928-135699002 ( 335) CAGGGGCTGGGGTGC 1 chr4:139770981-139771606 ( 553) GAATGTCAGGGGAGG 1 chr1:134067000-134067680 ( 91) GGTGGGGTGGGGGAG 1 chr1:134322485-134323001 ( 438) GTTTTGGTGGGGGAG 1 chr1:170655330-170656359 ( 979) GATGGCCTGGAGAGG 1 chr1:43136409-43137115 ( 162) GTGTGGCTGGGCTGC 1 chr10:81072192-81072934 ( 234) GTGTTGCTGGGGCTG 1 chr1:134071265-134073689 ( 1420) GTTTGCCAGTGGTGG 1 chr7:46352696-46354059 ( 270) CTGAGGCAGGCAGGG 1 chr7:127210176-127210781 ( 299) GAGGGGCTGTGCGAA 1 chrX:166778620-166779781 ( 819) GATGGGGAGGGTCTA 1 chr1:91413901-91414660 ( 483) GTGTGTGTGTGTGTG 1 chr12:27390261-27391004 ( 397) CAGGGCCAGGGTGGC 1 chr15:97811911-97812695 ( 345) CCTGGTCTGGCAAGG 1 chr5:125110919-125111688 ( 404) CATGGCCAGGCAGAG 1 chr1:66921855-66922977 ( 801) GTAGACCAGGGTAGC 1 chrX:166805408-166805925 ( 341) GATAGGCTGTCTTTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 40361 bayes= 10.2377 E= 4.2e-014 -1193 -44 165 -1193 42 -111 -330 118 -217 -1193 122 59 -217 -1193 115 69 -217 -1193 182 -221 -1193 -85 150 -89 -158 132 -14 -1193 74 -1193 -1193 137 -1193 -1193 198 -1193 -1193 -1193 178 -89 -317 -63 160 -321 29 -244 102 -63 74 -185 78 -122 -36 -1193 128 -22 29 -144 128 -1193 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 39 E= 4.2e-014 0.000000 0.205128 0.794872 0.000000 0.307692 0.128205 0.025641 0.538462 0.051282 0.000000 0.589744 0.358974 0.051282 0.000000 0.564103 0.384615 0.051282 0.000000 0.897436 0.051282 0.000000 0.153846 0.717949 0.128205 0.076923 0.692308 0.230769 0.000000 0.384615 0.000000 0.000000 0.615385 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.871795 0.128205 0.025641 0.179487 0.769231 0.025641 0.282051 0.051282 0.512821 0.153846 0.384615 0.076923 0.435897 0.102564 0.179487 0.000000 0.615385 0.205128 0.282051 0.102564 0.615385 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 regular expression -------------------------------------------------------------------------------- [GC][TA][GT][GT]GG[CG][TA]GGG[GA][GA][GT][GA] -------------------------------------------------------------------------------- Time 323.14 secs. ******************************************************************************** ******************************************************************************** MOTIF 7 width = 25 sites = 15 llr = 279 E-value = 1.1e-017 ******************************************************************************** -------------------------------------------------------------------------------- Motif 7 Description -------------------------------------------------------------------------------- Simplified A :414:::3::5113:1:29372162 pos.-specific C 9:5:aa92171:5542a4:1:891: probability G 1:31::::93:9:::1::153:::1 matrix T :615::15::5:5267:4:1:::37 bits 2.1 1.9 ** * 1.7 ** * 1.5 *** * * * * * Relative 1.3 * *** * * * * *** Entropy 1.1 ** *** ** * * * * *** * (26.8 bits) 0.8 ** **** **** * * * ***** 0.6 ** ********** *** * ***** 0.4 ** ********************** 0.2 ************************* 0.0 ------------------------- Multilevel CTCTCCCTGCAGCCTTCCAGACCAT consensus AGA A GT TACC T AGA TA sequence C T A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chr1:134195091-134196873 1038 2.30e-12 CCTCCCAGAG CTGTCCCTGGAGCATTCCAAACCAT GGCGTTCTGG chr1:134195091-134196479 1038 2.30e-12 CCTCCCAGAG CTGTCCCTGGAGCATTCCAAACCAT GGCGTTCTGG chr1:134195643-134196479 486 2.30e-12 CCTCCCAGAG CTGTCCCTGGAGCATTCCAAACCAT GGCGTTCTGG chr1:134244847-134245778 449 1.46e-11 AATGTGTTCC CTCACCCCGCAGCCCTCTAGACCTT TCGTAGCAGC chr1:134244752-134245912 544 1.46e-11 AATGTGTTCC CTCACCCCGCAGCCCTCTAGACCTT TCGTAGCAGC chr1:134244219-134245778 1077 1.46e-11 AATGTGTTCC CTCACCCCGCAGCCCTCTAGACCTT TCGTAGCAGC chr1:134160156-134160953 419 8.52e-11 ATGTTCTTGC CATTCCCAGCTGTCTTCCAGACCAA TAATAACCTG chr1:134160159-134162063 416 8.52e-11 ATGTTCTTGC CATTCCCAGCTGTCTTCCAGACCAA TAATAACCTG chr1:134071265-134073689 1687 1.31e-08 CCGTCCTCAG CTCACCCTGCTGATCTCTAAGACAG GAAAAACTGG chr7:46352696-46354059 472 1.39e-08 TAGGCAGGGG GACACCCTGGAGCACCCCACAACAT GAGCCCCACA chrX:166805408-166805925 157 3.14e-08 GCACATGAAG GAAACCCAGGTGTCTCCTAGGACTT ATGGGAGTGT chr6:128258964-128259829 810 3.50e-08 CTCAGACTGC CAGGCCCTGCTATTTACAAGGCCTT GTTAATAAAT chr12:27390261-27391004 51 3.50e-08 ACTGATAATT CTCTCCTTCCTGTACCCAAAGCCAA CGCTGCTGCT chr15:97811911-97812695 186 4.76e-08 AGCTGCCACT CTCTCCCTCCCATTTTCTGTACCAT TCTGGTCCTG chrX:166803118-166803588 255 7.30e-08 CGGCTAACCT CAGTCCCAGCTGTCTGCAGGACACT TGATCACTTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:134195091-134196873 2.3e-12 1037_[+7]_720 chr1:134195091-134196479 2.3e-12 1037_[+7]_326 chr1:134195643-134196479 2.3e-12 485_[+7]_326 chr1:134244847-134245778 1.5e-11 448_[+7]_458 chr1:134244752-134245912 1.5e-11 543_[+7]_592 chr1:134244219-134245778 1.5e-11 1076_[+7]_458 chr1:134160156-134160953 8.5e-11 418_[+7]_354 chr1:134160159-134162063 8.5e-11 415_[+7]_1464 chr1:134071265-134073689 1.3e-08 1686_[+7]_713 chr7:46352696-46354059 1.4e-08 471_[+7]_867 chrX:166805408-166805925 3.1e-08 156_[+7]_336 chr6:128258964-128259829 3.5e-08 809_[+7]_31 chr12:27390261-27391004 3.5e-08 50_[+7]_668 chr15:97811911-97812695 4.8e-08 185_[+7]_574 chrX:166803118-166803588 7.3e-08 254_[+7]_191 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 7 width=25 seqs=15 chr1:134195091-134196873 ( 1038) CTGTCCCTGGAGCATTCCAAACCAT 1 chr1:134195091-134196479 ( 1038) CTGTCCCTGGAGCATTCCAAACCAT 1 chr1:134195643-134196479 ( 486) CTGTCCCTGGAGCATTCCAAACCAT 1 chr1:134244847-134245778 ( 449) CTCACCCCGCAGCCCTCTAGACCTT 1 chr1:134244752-134245912 ( 544) CTCACCCCGCAGCCCTCTAGACCTT 1 chr1:134244219-134245778 ( 1077) CTCACCCCGCAGCCCTCTAGACCTT 1 chr1:134160156-134160953 ( 419) CATTCCCAGCTGTCTTCCAGACCAA 1 chr1:134160159-134162063 ( 416) CATTCCCAGCTGTCTTCCAGACCAA 1 chr1:134071265-134073689 ( 1687) CTCACCCTGCTGATCTCTAAGACAG 1 chr7:46352696-46354059 ( 472) GACACCCTGGAGCACCCCACAACAT 1 chrX:166805408-166805925 ( 157) GAAACCCAGGTGTCTCCTAGGACTT 1 chr6:128258964-128259829 ( 810) CAGGCCCTGCTATTTACAAGGCCTT 1 chr12:27390261-27391004 ( 51) CTCTCCTTCCTGTACCCAAAGCCAA 1 chr15:97811911-97812695 ( 186) CTCTCCCTCCCATTTTCTGTACCAT 1 chrX:166803118-166803588 ( 255) CAGTCCCAGCTGTCTGCAGGACACT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 39971 bayes= 11.3042 E= 1.1e-017 -1055 164 -93 -1055 79 -1055 -1055 133 -179 75 40 -84 79 -1055 -192 116 -1055 185 -1055 -1055 -1055 185 -1055 -1055 -1055 175 -1055 -183 21 -47 -1055 116 -1055 -106 177 -1055 -1055 126 40 -1055 102 -206 -1055 97 -79 -1055 177 -1055 -179 75 -1055 97 53 75 -1055 -25 -1055 53 -1055 133 -179 -47 -192 148 -1055 185 -1055 -1055 -21 53 -1055 75 191 -1055 -93 -1055 53 -206 107 -183 167 -1055 7 -1055 -21 153 -1055 -1055 -179 175 -1055 -1055 138 -206 -1055 48 -21 -1055 -192 162 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 15 E= 1.1e-017 0.000000 0.866667 0.133333 0.000000 0.400000 0.000000 0.000000 0.600000 0.066667 0.466667 0.333333 0.133333 0.400000 0.000000 0.066667 0.533333 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.933333 0.000000 0.066667 0.266667 0.200000 0.000000 0.533333 0.000000 0.133333 0.866667 0.000000 0.000000 0.666667 0.333333 0.000000 0.466667 0.066667 0.000000 0.466667 0.133333 0.000000 0.866667 0.000000 0.066667 0.466667 0.000000 0.466667 0.333333 0.466667 0.000000 0.200000 0.000000 0.400000 0.000000 0.600000 0.066667 0.200000 0.066667 0.666667 0.000000 1.000000 0.000000 0.000000 0.200000 0.400000 0.000000 0.400000 0.866667 0.000000 0.133333 0.000000 0.333333 0.066667 0.533333 0.066667 0.733333 0.000000 0.266667 0.000000 0.200000 0.800000 0.000000 0.000000 0.066667 0.933333 0.000000 0.000000 0.600000 0.066667 0.000000 0.333333 0.200000 0.000000 0.066667 0.733333 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 regular expression -------------------------------------------------------------------------------- C[TA][CG][TA]CCC[TAC]G[CG][AT]G[CT][CAT][TC][TC]C[CTA]A[GA][AG][CA]C[AT][TA] -------------------------------------------------------------------------------- Time 373.62 secs. ******************************************************************************** ******************************************************************************** MOTIF 8 width = 25 sites = 11 llr = 233 E-value = 2.2e-014 ******************************************************************************** -------------------------------------------------------------------------------- Motif 8 Description -------------------------------------------------------------------------------- Simplified A :1:574411::::1:a::1631:2: pos.-specific C 49a533:159::a5a::a2:44a81 probability G 6::::4:43:26::::a::4::::: matrix T ::::::652184:5::::7:45::9 bits 2.1 * 1.9 * * **** * 1.7 * * **** * * 1.5 ** * * **** * * Relative 1.3 ** * ** * **** *** Entropy 1.1 ***** * **** **** * *** (30.5 bits) 0.8 ***** * **** ****** *** 0.6 ***** * *********** **** 0.4 ******** **************** 0.2 ************************* 0.0 ------------------------- Multilevel GCCAAATTCCTGCCCAGCTACTCCT consensus C CCGAGG T T GTC sequence C A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chr1:134195091-134196873 1074 6.36e-14 GCGTTCTGGA GCCAAGTGCCTGCTCAGCTAATCCT TGGAGACACA chr1:134195091-134196479 1074 6.36e-14 GCGTTCTGGA GCCAAGTGCCTGCTCAGCTAATCCT TGGAGACACA chr1:134195643-134196479 522 6.36e-14 GCGTTCTGGA GCCAAGTGCCTGCTCAGCTAATCCT TGGAGACACA chr1:134244847-134245778 603 1.96e-11 TCCCTCTGTC GCCCACATGCTGCCCAGCTGTCCCT GTCCCTGTGC chr1:134244752-134245912 698 1.96e-11 TCCCTCTGTC GCCCACATGCTGCCCAGCTGTCCCT GTCCCTGTGC chr1:134244219-134245778 1231 1.96e-11 TCCCTCTGTC GCCCACATGCTGCCCAGCTGTCCCT GTCCCTGTGC chr1:134160156-134160953 245 1.71e-10 AAGACCTGCT CCCACATTTCTTCTCAGCCACTCCT CATCTTGCCC chr1:134160159-134162063 242 1.71e-10 AAGACCTGCT CCCACATTTCTTCTCAGCCACTCCT CATCTTGCCC chr1:134071265-134073689 1729 1.43e-09 TGGGCAATTT CCCCAAAACCTTCCCAGCTACTCAC AGAAAAGAAC chrX:166778620-166779781 982 5.20e-09 GGTGTAATCT GACACATGACGTCACAGCTATCCAT CTGGATGAAT chr1:170655330-170656359 283 7.13e-09 GTTCTTTGTT CCCCAGTCCTGGCCCAGCAGCACCT GACACACACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:134195091-134196873 6.4e-14 1073_[+8]_684 chr1:134195091-134196479 6.4e-14 1073_[+8]_290 chr1:134195643-134196479 6.4e-14 521_[+8]_290 chr1:134244847-134245778 2e-11 602_[+8]_304 chr1:134244752-134245912 2e-11 697_[+8]_438 chr1:134244219-134245778 2e-11 1230_[+8]_304 chr1:134160156-134160953 1.7e-10 244_[+8]_528 chr1:134160159-134162063 1.7e-10 241_[+8]_1638 chr1:134071265-134073689 1.4e-09 1728_[+8]_671 chrX:166778620-166779781 5.2e-09 981_[+8]_155 chr1:170655330-170656359 7.1e-09 282_[+8]_722 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 8 width=25 seqs=11 chr1:134195091-134196873 ( 1074) GCCAAGTGCCTGCTCAGCTAATCCT 1 chr1:134195091-134196479 ( 1074) GCCAAGTGCCTGCTCAGCTAATCCT 1 chr1:134195643-134196479 ( 522) GCCAAGTGCCTGCTCAGCTAATCCT 1 chr1:134244847-134245778 ( 603) GCCCACATGCTGCCCAGCTGTCCCT 1 chr1:134244752-134245912 ( 698) GCCCACATGCTGCCCAGCTGTCCCT 1 chr1:134244219-134245778 ( 1231) GCCCACATGCTGCCCAGCTGTCCCT 1 chr1:134160156-134160953 ( 245) CCCACATTTCTTCTCAGCCACTCCT 1 chr1:134160159-134162063 ( 242) CCCACATTTCTTCTCAGCCACTCCT 1 chr1:134071265-134073689 ( 1729) CCCCAAAACCTTCCCAGCTACTCAC 1 chrX:166778620-166779781 ( 982) GACACATGACGTCACAGCTATCCAT 1 chr1:170655330-170656359 ( 283) CCCCAGTCCTGGCCCAGCAGCACCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 39971 bayes= 12.182 E= 2.2e-014 -1010 39 133 -1010 -134 171 -1010 -1010 -1010 185 -1010 -1010 124 71 -1010 -1010 166 -3 -1010 -1010 66 -3 52 -1010 66 -1010 -1010 142 -134 -161 52 93 -134 71 11 -39 -1010 171 -1010 -139 -1010 -1010 -48 178 -1010 -1010 133 61 -1010 185 -1010 -1010 -134 71 -1010 93 -1010 185 -1010 -1010 211 -1010 -1010 -1010 -1010 -1010 198 -1010 -1010 185 -1010 -1010 -134 -61 -1010 161 146 -1010 52 -1010 24 39 -1010 61 -134 39 -1010 119 -1010 185 -1010 -1010 -34 156 -1010 -1010 -1010 -161 -1010 193 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 11 E= 2.2e-014 0.000000 0.363636 0.636364 0.000000 0.090909 0.909091 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.545455 0.454545 0.000000 0.000000 0.727273 0.272727 0.000000 0.000000 0.363636 0.272727 0.363636 0.000000 0.363636 0.000000 0.000000 0.636364 0.090909 0.090909 0.363636 0.454545 0.090909 0.454545 0.272727 0.181818 0.000000 0.909091 0.000000 0.090909 0.000000 0.000000 0.181818 0.818182 0.000000 0.000000 0.636364 0.363636 0.000000 1.000000 0.000000 0.000000 0.090909 0.454545 0.000000 0.454545 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.090909 0.181818 0.000000 0.727273 0.636364 0.000000 0.363636 0.000000 0.272727 0.363636 0.000000 0.363636 0.090909 0.363636 0.000000 0.545455 0.000000 1.000000 0.000000 0.000000 0.181818 0.818182 0.000000 0.000000 0.000000 0.090909 0.000000 0.909091 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 regular expression -------------------------------------------------------------------------------- [GC]CC[AC][AC][AGC][TA][TG][CG]CT[GT]C[CT]CAGCT[AG][CTA][TC]CCT -------------------------------------------------------------------------------- Time 424.25 secs. ******************************************************************************** ******************************************************************************** MOTIF 9 width = 21 sites = 39 llr = 407 E-value = 8.7e-013 ******************************************************************************** -------------------------------------------------------------------------------- Motif 9 Description -------------------------------------------------------------------------------- Simplified A ::12123:221:11412:::1 pos.-specific C 16853711321838:4:9271 probability G 13::2238133111:521:2: matrix T 81135:4144516:6:5:818 bits 2.1 1.9 1.7 1.5 Relative 1.3 * * Entropy 1.1 * * * * ** ** * (15.1 bits) 0.8 * * * * ** ** * 0.6 *** * * * ******** 0.4 **** * * *********** 0.2 ********* *********** 0.0 --------------------- Multilevel TCCCTCTGTTTCTCTGTCTCT consensus G TC A CGG C ACA CG sequence G AA G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- chrX:166778620-166779781 632 5.59e-11 CCTCTCTCCC TCCCTCTGTCTCTCTCTCTCT CTCCCTCTCT chr1:134244847-134245778 319 2.54e-09 GGCAGCTGTT TCCCTCGGCTGCCCAGTCTCT GACCCAGCCA chr1:134244752-134245912 414 2.54e-09 GGCAGCTGTT TCCCTCGGCTGCCCAGTCTCT GACCCAGCCA chr1:134244219-134245778 947 2.54e-09 GGCAGCTGTT TCCCTCGGCTGCCCAGTCTCT GACCCAGCCA chr1:134195091-134196873 764 1.73e-07 TCCCCCCAGG TCCCCAAGAAGCTCAGACTCT GAGATGTCTC chr1:134195091-134196479 764 1.73e-07 TCCCCCCAGG TCCCCAAGAAGCTCAGACTCT GAGATGTCTC chr1:134195643-134196479 212 1.73e-07 TCCCCCCAGG TCCCCAAGAAGCTCAGACTCT GAGATGTCTC chr5:125110919-125111688 183 2.24e-07 AGGTGCTGCC TGCCTCAGTATCCCTATCTTT ACAGTGGGGG chr1:134160156-134160953 494 5.31e-07 ACCAGAGGCA TCCTCCTGGGTCTCACACCCT ATCCTCCCCT chr1:134160159-134162063 491 5.31e-07 ACCAGAGGCA TCCTCCTGGGTCTCACACCCT ATCCTCCCCT chr1:134082948-134083616 231 5.98e-07 GCACTATGTG TGATTCTGTTGGTCTCTCTGT GTATCAGTGT chr1:91413901-91414660 535 1.32e-06 GCGCGCGCGC CCCCTCGGAACCCCTGGCTCT GCTCCAGCGT chr1:134322485-134323001 95 1.32e-06 TTGTTTCACT TTCCCCGGTGTCTCTCTGTCC GCTGGCTCCT chr1:135794180-135795780 575 2.03e-06 GAGGGTTGAC TCACTCTGCTAGGCTCTCTCT CCAGTGACAC chr6:72216026-72218866 2256 2.77e-06 CTCGCTCAAG GCTCTGAGTCTCTCTCTCTCT ATTCACACCC chr8:120265441-120266019 18 3.39e-06 TCCAGAATCA TCCTCCTGTTCCCCACTTTCT CCAGCTTCCT chr1:134289319-134290101 51 3.74e-06 AATCCATTTG CCCTTCTGGGTTTCTGTCTTT GCCTCCATGG chr7:127210176-127210781 11 4.55e-06 GCTCTCAATG TCCCTATCCCTTTCTGTCTTT TGAAGCTCCT chr7:46352696-46354059 722 5.01e-06 TTCCTGGGTC TTCTCCGGTTTCTCTAGCTCA GGCCTAGGGC chr15:97811911-97812695 154 5.01e-06 AGTCCCCAAG TTCCTGGGCCTCCCACACCCT CAGCTGCCAC chr8:123894638-123896819 55 6.07e-06 CCACCCTACC TGCTGCTCTGACTCTGGCCCT GGGTGCCGAG chr1:66921855-66922977 276 8.02e-06 TGAAAATATT TGCTTATGCAGCACAGGCTTT TTAAAAGTTA chr1:134071265-134073689 156 8.02e-06 GCCCTTTTTC TGACAGGGCTTGTCACTCTCT GAGCTCAGTC chrX:166805408-166805925 28 9.62e-06 ATGAGAGCCA TGCATAACTTTCTAAGTCTGT CTGCTCTAAA chrX:166803118-166803588 126 1.15e-05 GCCAATTGTC TGACCCAGAGATTCTGGCTCT TTTCAATTCC chr12:112617839-11261859 262 1.26e-05 TCATGTGCAT TGTCTGTGTGGCGGTGTCTCT TGATAACCCA chr12:27390261-27391004 218 1.93e-05 GCCCCAGGAC CCACACAGTTGCTCTCTGTGT AGGAGACCTG chr11:6481396-6482367 609 1.93e-05 AACCCCCATT TCCTGGAGATTCTGTCTCCCC TGAACCTTCC chr8:122636472-122637392 495 2.09e-05 ACAGCCGTCA TCCAGCACCCTCTCTGGCTGC CCACGAGGGG chr1:134067000-134067680 215 2.09e-05 TGCCCTGCCC TCCCTCCTTATCCATCACTGT TTACACACTC chr1:134332668-134333623 442 2.09e-05 TGCACATGCC TCCTGCCTAGTCTCTGTGCCT GCAGCCCCTG chr1:170655330-170656359 840 2.27e-05 TTCACATCTG AGCATCTGCTTCTATGACTGT AAGGGCTATT chr10:80940445-80941162 154 2.90e-05 CAGCCCCCTC TCCTACGGTCACACTCAGTCT CTAGGGCACA chr1:135697928-135699002 757 3.14e-05 AGGTCGTGGG GCCCTGGGAATCCCAGTCACT AACTGGAGTC chr1:43136409-43137115 212 4.61e-05 GTGGCTGGGC TGCAGCTGTGTGGCTGGCTGC AGCTGTGTGG chr7:19409569-19410199 541 4.97e-05 CCAAGAATGG TTTTTCTGCTTCTGTAGCTTT TCCTGTCAAT chr10:81072192-81072934 487 1.24e-04 ACTGATGGAG CCCTTGGGCTGGCCTCTCCCA GTGAGTGGTT chr4:139770981-139771606 250 1.94e-04 GGGCTCTGTT TTCACCACTGCCGCTCTCCCC AGGGACCAGA chr6:128258964-128259829 299 4.59e-04 GTGTTGCCAT CCCAGCCTTGCCACTGGCTGT ATAATGGCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:166778620-166779781 5.6e-11 631_[+9]_509 chr1:134244847-134245778 2.5e-09 318_[+9]_592 chr1:134244752-134245912 2.5e-09 413_[+9]_726 chr1:134244219-134245778 2.5e-09 946_[+9]_592 chr1:134195091-134196873 1.7e-07 763_[+9]_998 chr1:134195091-134196479 1.7e-07 763_[+9]_604 chr1:134195643-134196479 1.7e-07 211_[+9]_604 chr5:125110919-125111688 2.2e-07 182_[+9]_566 chr1:134160156-134160953 5.3e-07 493_[+9]_283 chr1:134160159-134162063 5.3e-07 490_[+9]_1393 chr1:134082948-134083616 6e-07 230_[+9]_417 chr1:91413901-91414660 1.3e-06 534_[+9]_204 chr1:134322485-134323001 1.3e-06 94_[+9]_401 chr1:135794180-135795780 2e-06 574_[+9]_1005 chr6:72216026-72218866 2.8e-06 2255_[+9]_564 chr8:120265441-120266019 3.4e-06 17_[+9]_540 chr1:134289319-134290101 3.7e-06 50_[+9]_711 chr7:127210176-127210781 4.6e-06 10_[+9]_574 chr7:46352696-46354059 5e-06 721_[+9]_621 chr15:97811911-97812695 5e-06 153_[+9]_610 chr8:123894638-123896819 6.1e-06 54_[+9]_2106 chr1:66921855-66922977 8e-06 275_[+9]_826 chr1:134071265-134073689 8e-06 155_[+9]_2248 chrX:166805408-166805925 9.6e-06 27_[+9]_469 chrX:166803118-166803588 1.1e-05 125_[+9]_324 chr12:112617839-11261859 1.3e-05 261_[+9]_472 chr12:27390261-27391004 1.9e-05 217_[+9]_505 chr11:6481396-6482367 1.9e-05 608_[+9]_342 chr8:122636472-122637392 2.1e-05 494_[+9]_405 chr1:134067000-134067680 2.1e-05 214_[+9]_445 chr1:134332668-134333623 2.1e-05 441_[+9]_493 chr1:170655330-170656359 2.3e-05 839_[+9]_169 chr10:80940445-80941162 2.9e-05 153_[+9]_543 chr1:135697928-135699002 3.1e-05 756_[+9]_297 chr1:43136409-43137115 4.6e-05 211_[+9]_474 chr7:19409569-19410199 5e-05 540_[+9]_69 chr10:81072192-81072934 0.00012 486_[+9]_235 chr4:139770981-139771606 0.00019 249_[+9]_355 chr6:128258964-128259829 0.00046 298_[+9]_546 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 9 width=21 seqs=39 chrX:166778620-166779781 ( 632) TCCCTCTGTCTCTCTCTCTCT 1 chr1:134244847-134245778 ( 319) TCCCTCGGCTGCCCAGTCTCT 1 chr1:134244752-134245912 ( 414) TCCCTCGGCTGCCCAGTCTCT 1 chr1:134244219-134245778 ( 947) TCCCTCGGCTGCCCAGTCTCT 1 chr1:134195091-134196873 ( 764) TCCCCAAGAAGCTCAGACTCT 1 chr1:134195091-134196479 ( 764) TCCCCAAGAAGCTCAGACTCT 1 chr1:134195643-134196479 ( 212) TCCCCAAGAAGCTCAGACTCT 1 chr5:125110919-125111688 ( 183) TGCCTCAGTATCCCTATCTTT 1 chr1:134160156-134160953 ( 494) TCCTCCTGGGTCTCACACCCT 1 chr1:134160159-134162063 ( 491) TCCTCCTGGGTCTCACACCCT 1 chr1:134082948-134083616 ( 231) TGATTCTGTTGGTCTCTCTGT 1 chr1:91413901-91414660 ( 535) CCCCTCGGAACCCCTGGCTCT 1 chr1:134322485-134323001 ( 95) TTCCCCGGTGTCTCTCTGTCC 1 chr1:135794180-135795780 ( 575) TCACTCTGCTAGGCTCTCTCT 1 chr6:72216026-72218866 ( 2256) GCTCTGAGTCTCTCTCTCTCT 1 chr8:120265441-120266019 ( 18) TCCTCCTGTTCCCCACTTTCT 1 chr1:134289319-134290101 ( 51) CCCTTCTGGGTTTCTGTCTTT 1 chr7:127210176-127210781 ( 11) TCCCTATCCCTTTCTGTCTTT 1 chr7:46352696-46354059 ( 722) TTCTCCGGTTTCTCTAGCTCA 1 chr15:97811911-97812695 ( 154) TTCCTGGGCCTCCCACACCCT 1 chr8:123894638-123896819 ( 55) TGCTGCTCTGACTCTGGCCCT 1 chr1:66921855-66922977 ( 276) TGCTTATGCAGCACAGGCTTT 1 chr1:134071265-134073689 ( 156) TGACAGGGCTTGTCACTCTCT 1 chrX:166805408-166805925 ( 28) TGCATAACTTTCTAAGTCTGT 1 chrX:166803118-166803588 ( 126) TGACCCAGAGATTCTGGCTCT 1 chr12:112617839-11261859 ( 262) TGTCTGTGTGGCGGTGTCTCT 1 chr12:27390261-27391004 ( 218) CCACACAGTTGCTCTCTGTGT 1 chr11:6481396-6482367 ( 609) TCCTGGAGATTCTGTCTCCCC 1 chr8:122636472-122637392 ( 495) TCCAGCACCCTCTCTGGCTGC 1 chr1:134067000-134067680 ( 215) TCCCTCCTTATCCATCACTGT 1 chr1:134332668-134333623 ( 442) TCCTGCCTAGTCTCTGTGCCT 1 chr1:170655330-170656359 ( 840) AGCATCTGCTTCTATGACTGT 1 chr10:80940445-80941162 ( 154) TCCTACGGTCACACTCAGTCT 1 chr1:135697928-135699002 ( 757) GCCCTGGGAATCCCAGTCACT 1 chr1:43136409-43137115 ( 212) TGCAGCTGTGTGGCTGGCTGC 1 chr7:19409569-19410199 ( 541) TTTTTCTGCTTCTGTAGCTTT 1 chr10:81072192-81072934 ( 487) CCCTTGGGCTGGCCTCTCCCA 1 chr4:139770981-139771606 ( 250) TTCACCACTGCCGCTCTCCCC 1 chr6:128258964-128259829 ( 299) CCCAGCCTTGCCACTGGCTGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 40127 bayes= 10.2293 E= 8.7e-013 -317 -111 -230 174 -1193 115 2 -89 -85 152 -1193 -163 -58 89 -1193 48 -158 -11 -72 111 -58 126 -50 -1193 29 -185 15 59 -1193 -111 165 -163 -17 15 -172 78 -17 -85 15 59 -117 -144 15 111 -1193 152 -98 -163 -158 -11 -130 124 -158 161 -172 -1193 64 -1193 -1193 143 -158 56 102 -1193 0 -1193 -14 118 -1193 165 -130 -321 -317 -44 -1193 169 -1193 126 -31 -89 -217 -111 -1193 178 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 39 E= 8.7e-013 0.025641 0.128205 0.051282 0.794872 0.000000 0.615385 0.256410 0.128205 0.128205 0.794872 0.000000 0.076923 0.153846 0.512821 0.000000 0.333333 0.076923 0.256410 0.153846 0.512821 0.153846 0.666667 0.179487 0.000000 0.282051 0.076923 0.282051 0.358974 0.000000 0.128205 0.794872 0.076923 0.205128 0.307692 0.076923 0.410256 0.205128 0.153846 0.282051 0.358974 0.102564 0.102564 0.282051 0.512821 0.000000 0.794872 0.128205 0.076923 0.076923 0.256410 0.102564 0.564103 0.076923 0.846154 0.076923 0.000000 0.358974 0.000000 0.000000 0.641026 0.076923 0.410256 0.512821 0.000000 0.230769 0.000000 0.230769 0.538462 0.000000 0.871795 0.102564 0.025641 0.025641 0.205128 0.000000 0.769231 0.000000 0.666667 0.205128 0.128205 0.051282 0.128205 0.000000 0.820513 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 regular expression -------------------------------------------------------------------------------- T[CG]C[CT][TC]C[TAG]G[TCA][TGA][TG]C[TC]C[TA][GC][TAG]C[TC][CG]T -------------------------------------------------------------------------------- Time 474.34 secs. ******************************************************************************** ******************************************************************************** MOTIF 10 width = 15 sites = 39 llr = 372 E-value = 2.6e-011 ******************************************************************************** -------------------------------------------------------------------------------- Motif 10 Description -------------------------------------------------------------------------------- Simplified A 4:2153243825842 pos.-specific C ::371:::2:12111 probability G 1962:7864273167 matrix T 51::4:::1:::::: bits 2.1 1.9 1.7 * 1.5 * * Relative 1.3 * * * * Entropy 1.1 * ** * * (13.8 bits) 0.8 ** ***** ** *** 0.6 ** ***** ** *** 0.4 ******** ****** 0.2 *************** 0.0 --------------- Multilevel TGGCAGGGGAGAAGG consensus A CGTAAAA G AA sequence C C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- chr1:134195091-134196873 856 4.48e-09 AAAATTCCTC TGGCAGGAGAGAAGG GGATTTCCTG chr1:134195091-134196479 856 4.48e-09 AAAATTCCTC TGGCAGGAGAGAAGG GGATTTCCTG chr1:134195643-134196479 304 4.48e-09 AAAATTCCTC TGGCAGGAGAGAAGG GGATTTCCTG chr1:135794180-135795780 269 6.69e-08 AGGTTTCGGT TGGCTGGGGAGGAAG CACAGTGGCT chr1:134160156-134160953 84 9.10e-07 CTACACCTTC TGGCTGGGAGGAAAG CCCACTCTGC chr1:134160159-134162063 81 9.10e-07 CTACACCTTC TGGCTGGGAGGAAAG CCCACTCTGC chr6:128258964-128259829 358 1.38e-06 TGAGCTCAGA AGCCAAGGAAGCAGG AAGCCACCCT chr11:6481396-6482367 768 1.57e-06 GAAAGCCATG TGGCAAGGGAGAGGG TTCCTGGGGT chr1:134244847-134245778 813 2.92e-06 CCACCTGCCT AGGGTGGGTAGGAAG GCTCGGCTGA chr1:134244752-134245912 908 2.92e-06 CCACCTGCCT AGGGTGGGTAGGAAG GCTCGGCTGA chr1:134244219-134245778 1441 2.92e-06 CCACCTGCCT AGGGTGGGTAGGAAG GCTCGGCTGA chr7:19409569-19410199 94 3.30e-06 GGCACCTCCC AGGCAGAAGAGGAAA CTTCCACAGT chr6:72216026-72218866 1912 3.30e-06 CTCCTCAGCA AGGCAGAAAGGAAGG TATGATGTTC chr12:112617839-11261859 100 7.22e-06 GCACTTCACC TGCCTGGGGAGGACG GAGAGCACTG chr15:97811911-97812695 117 8.01e-06 GGGAGCAATC AGGCAGGTAAGCAGG CCCGGTCTGC chr10:81072192-81072934 604 9.81e-06 GGAGGGCCTT TGCCAAAGCAGCAGG GTCCCTTAGC chr1:134289319-134290101 333 1.09e-05 CATGGAGGAG AGAGTAGGCAGGAGG CCCGGGTAGG chr1:134332668-134333623 614 1.20e-05 GACCTGAAGG TGGAAGGAAAGGAAA TGGGGTATCT chr1:134067000-134067680 336 1.60e-05 CGGCTGCCAT TGGCTAAGGAGAAAC CAGAACTGAA chr1:170655330-170656359 126 1.76e-05 AGCCCATAGC TGCCAGGACATAAGG GAGCATATGG chr1:134322485-134323001 404 1.76e-05 TGTCCCCTCC TGACAGGACGGAAGA CCCTGAGGTC chr4:139770981-139771606 388 2.30e-05 AAAGGCAGAA TGGCTGGAGAGCACA CAAGGCACAC chrX:166778620-166779781 796 2.74e-05 CTCTCCATTT AGCCTGGAAACAAAA AGTTAAGGGA chr1:43136409-43137115 25 2.74e-05 AGCCAAAAAA AGGGAGAACAGAAGC AGCAGTAGGT chr10:80940445-80941162 488 2.74e-05 CAGGACCTGG GGGAAAGGGAGGAGG GTTGCTTCAT chr1:134082948-134083616 257 2.99e-05 TCTGTGTATC AGTGTGGGCAGGAGG GTGGTATTTA chr1:66921855-66922977 712 3.25e-05 TACTTTTTTG AGAGAGAGAAAGAGG GAGGGAGGGA chr1:135697928-135699002 432 3.84e-05 GCTGTGGCAT TTCCAGGGTAAAAGG GCTCTGTCAA chr7:46352696-46354059 423 4.17e-05 ACCTGTCAGG TGGGTGAAAGGAAGA AACATAAACG chr8:123894638-123896819 1381 4.52e-05 TGTCTCAATT TGGGCAGGGAGAGGG ATAAGAAAGC chr5:125110919-125111688 492 4.89e-05 GAACAACTGC AGCCTGGGCAGCCAG GTGCCCCCAC chr1:134071265-134073689 1444 4.89e-05 GGGATGGTTT AGACTAAGAACAAGG ACAGGGGCAC chr8:120265441-120266019 241 5.28e-05 GCCCGCCCAA AGGCAGGGAGGCCAG GGAAGTGGCC chr1:91413901-91414660 591 5.28e-05 GCTGCTTTAG AGCCAGGACAAGGAG CCAGCTCCTA chrX:166805408-166805925 438 6.64e-05 CACAAGGAGG AGCCAAGAGACCAGA TCCCACTAAA chr8:122636472-122637392 163 1.17e-04 GTGCCCACAG TTACCAGGCAGAAAG TGGAGAGGCG chr7:127210176-127210781 386 1.33e-04 TGGGCCCCAG TGCCCAGAAAAGAAA ATGTCTTAGT chrX:166803118-166803588 54 1.83e-04 TTTTGACATA GGACAGGGGAACAGC TGACATTTCA chr12:27390261-27391004 572 2.19e-04 GGTAGCCAAG GTGCAGGAGAAAGGG TGATAACTGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:134195091-134196873 4.5e-09 855_[+10]_912 chr1:134195091-134196479 4.5e-09 855_[+10]_518 chr1:134195643-134196479 4.5e-09 303_[+10]_518 chr1:135794180-135795780 6.7e-08 268_[+10]_1317 chr1:134160156-134160953 9.1e-07 83_[+10]_699 chr1:134160159-134162063 9.1e-07 80_[+10]_1809 chr6:128258964-128259829 1.4e-06 357_[+10]_493 chr11:6481396-6482367 1.6e-06 767_[+10]_189 chr1:134244847-134245778 2.9e-06 812_[+10]_104 chr1:134244752-134245912 2.9e-06 907_[+10]_238 chr1:134244219-134245778 2.9e-06 1440_[+10]_104 chr7:19409569-19410199 3.3e-06 93_[+10]_522 chr6:72216026-72218866 3.3e-06 1911_[+10]_914 chr12:112617839-11261859 7.2e-06 99_[+10]_640 chr15:97811911-97812695 8e-06 116_[+10]_653 chr10:81072192-81072934 9.8e-06 603_[+10]_124 chr1:134289319-134290101 1.1e-05 332_[+10]_435 chr1:134332668-134333623 1.2e-05 613_[+10]_327 chr1:134067000-134067680 1.6e-05 335_[+10]_330 chr1:170655330-170656359 1.8e-05 125_[+10]_889 chr1:134322485-134323001 1.8e-05 403_[+10]_98 chr4:139770981-139771606 2.3e-05 387_[+10]_223 chrX:166778620-166779781 2.7e-05 795_[+10]_351 chr1:43136409-43137115 2.7e-05 24_[+10]_667 chr10:80940445-80941162 2.7e-05 487_[+10]_215 chr1:134082948-134083616 3e-05 256_[+10]_397 chr1:66921855-66922977 3.3e-05 711_[+10]_396 chr1:135697928-135699002 3.8e-05 431_[+10]_628 chr7:46352696-46354059 4.2e-05 422_[+10]_926 chr8:123894638-123896819 4.5e-05 1380_[+10]_786 chr5:125110919-125111688 4.9e-05 491_[+10]_263 chr1:134071265-134073689 4.9e-05 1443_[+10]_966 chr8:120265441-120266019 5.3e-05 240_[+10]_323 chr1:91413901-91414660 5.3e-05 590_[+10]_154 chrX:166805408-166805925 6.6e-05 437_[+10]_65 chr8:122636472-122637392 0.00012 162_[+10]_743 chr7:127210176-127210781 0.00013 385_[+10]_205 chrX:166803118-166803588 0.00018 53_[+10]_402 chr12:27390261-27391004 0.00022 571_[+10]_157 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 10 width=15 seqs=39 chr1:134195091-134196873 ( 856) TGGCAGGAGAGAAGG 1 chr1:134195091-134196479 ( 856) TGGCAGGAGAGAAGG 1 chr1:134195643-134196479 ( 304) TGGCAGGAGAGAAGG 1 chr1:135794180-135795780 ( 269) TGGCTGGGGAGGAAG 1 chr1:134160156-134160953 ( 84) TGGCTGGGAGGAAAG 1 chr1:134160159-134162063 ( 81) TGGCTGGGAGGAAAG 1 chr6:128258964-128259829 ( 358) AGCCAAGGAAGCAGG 1 chr11:6481396-6482367 ( 768) TGGCAAGGGAGAGGG 1 chr1:134244847-134245778 ( 813) AGGGTGGGTAGGAAG 1 chr1:134244752-134245912 ( 908) AGGGTGGGTAGGAAG 1 chr1:134244219-134245778 ( 1441) AGGGTGGGTAGGAAG 1 chr7:19409569-19410199 ( 94) AGGCAGAAGAGGAAA 1 chr6:72216026-72218866 ( 1912) AGGCAGAAAGGAAGG 1 chr12:112617839-11261859 ( 100) TGCCTGGGGAGGACG 1 chr15:97811911-97812695 ( 117) AGGCAGGTAAGCAGG 1 chr10:81072192-81072934 ( 604) TGCCAAAGCAGCAGG 1 chr1:134289319-134290101 ( 333) AGAGTAGGCAGGAGG 1 chr1:134332668-134333623 ( 614) TGGAAGGAAAGGAAA 1 chr1:134067000-134067680 ( 336) TGGCTAAGGAGAAAC 1 chr1:170655330-170656359 ( 126) TGCCAGGACATAAGG 1 chr1:134322485-134323001 ( 404) TGACAGGACGGAAGA 1 chr4:139770981-139771606 ( 388) TGGCTGGAGAGCACA 1 chrX:166778620-166779781 ( 796) AGCCTGGAAACAAAA 1 chr1:43136409-43137115 ( 25) AGGGAGAACAGAAGC 1 chr10:80940445-80941162 ( 488) GGGAAAGGGAGGAGG 1 chr1:134082948-134083616 ( 257) AGTGTGGGCAGGAGG 1 chr1:66921855-66922977 ( 712) AGAGAGAGAAAGAGG 1 chr1:135697928-135699002 ( 432) TTCCAGGGTAAAAGG 1 chr7:46352696-46354059 ( 423) TGGGTGAAAGGAAGA 1 chr8:123894638-123896819 ( 1381) TGGGCAGGGAGAGGG 1 chr5:125110919-125111688 ( 492) AGCCTGGGCAGCCAG 1 chr1:134071265-134073689 ( 1444) AGACTAAGAACAAGG 1 chr8:120265441-120266019 ( 241) AGGCAGGGAGGCCAG 1 chr1:91413901-91414660 ( 591) AGCCAGGACAAGGAG 1 chrX:166805408-166805925 ( 438) AGCCAAGAGACCAGA 1 chr8:122636472-122637392 ( 163) TTACCAGGCAGAAAG 1 chr7:127210176-127210781 ( 386) TGCCCAGAAAAGAAA 1 chrX:166803118-166803588 ( 54) GGACAGGGGAACAGC 1 chr12:27390261-27391004 ( 572) GTGCAGGAGAAAGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 40361 bayes= 10.0139 E= 2.6e-011 92 -1193 -172 103 -1193 -1193 186 -163 -58 -11 115 -321 -217 137 -14 -1193 122 -185 -1193 69 29 -1193 150 -1193 -17 -1193 165 -1193 83 -1193 115 -321 42 -27 50 -122 187 -1193 -72 -1193 -58 -185 155 -321 100 -44 40 -1193 187 -244 -130 -1193 74 -244 115 -1193 -17 -185 150 -1193 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 39 E= 2.6e-011 0.435897 0.000000 0.076923 0.487179 0.000000 0.000000 0.923077 0.076923 0.153846 0.256410 0.564103 0.025641 0.051282 0.717949 0.230769 0.000000 0.538462 0.076923 0.000000 0.384615 0.282051 0.000000 0.717949 0.000000 0.205128 0.000000 0.794872 0.000000 0.410256 0.000000 0.564103 0.025641 0.307692 0.230769 0.358974 0.102564 0.846154 0.000000 0.153846 0.000000 0.153846 0.076923 0.743590 0.025641 0.461538 0.205128 0.333333 0.000000 0.846154 0.051282 0.102564 0.000000 0.384615 0.051282 0.564103 0.000000 0.205128 0.076923 0.717949 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 regular expression -------------------------------------------------------------------------------- [TA]G[GC][CG][AT][GA][GA][GA][GAC]AG[AGC]A[GA][GA] -------------------------------------------------------------------------------- Time 523.84 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:80940445-80941162 2.57e-12 34_[+1(2.54e-05)]_94_[+9(2.90e-05)]_44_[+3(4.29e-07)]_14_[+5(5.23e-07)]_205_[+10(2.74e-05)]_49_[+6(6.71e-06)]_11_[+1(2.60e-07)]_20_[+2(3.65e-06)]_30_[+1(8.80e-05)]_20 chr10:81072192-81072934 2.80e-07 25_[+2(5.79e-05)]_83_[+2(2.65e-06)]_21_[+1(1.03e-05)]_1_[+5(8.58e-05)]_13_[+6(2.98e-05)]_10_[+4(2.19e-06)]_334_[+10(9.81e-06)]_43_[+6(8.02e-05)]_66 chr11:6481396-6482367 2.72e-08 255_[+1(3.77e-07)]_3_[+6(1.22e-05)]_116_[+4(5.02e-06)]_31_[+4(5.32e-06)]_141_[+9(1.93e-05)]_50_[+2(2.21e-05)]_68_[+10(1.57e-06)]_189 chr12:112617839-11261859 2.37e-09 99_[+10(7.22e-06)]_7_[+2(7.11e-07)]_52_[+8(6.37e-05)]_43_[+9(1.26e-05)]_123_[+4(5.39e-05)]_33_[+6(5.60e-07)]_33_[+4(5.32e-06)]_148_[+7(8.77e-05)]_73 chr12:27390261-27391004 1.38e-06 50_[+7(3.50e-08)]_[+4(1.12e-05)]_12_[+1(1.90e-05)]_94_[+9(1.93e-05)]_158_[+6(7.47e-05)]_43_[+4(1.90e-05)]_278 chr15:97811911-97812695 1.83e-11 116_[+10(8.01e-06)]_22_[+9(5.01e-06)]_11_[+7(4.76e-08)]_11_[+5(6.95e-05)]_86_[+4(3.92e-05)]_1_[+6(8.02e-05)]_13_[+2(1.72e-05)]_100_[+10(6.64e-05)]_19_[+1(1.60e-06)]_45_[+2(1.90e-06)]_94_[+7(5.39e-05)]_49 chr1:43136409-43137115 1.49e-03 24_[+10(2.74e-05)]_93_[+4(1.42e-05)]_8_[+4(1.42e-05)]_8_[+4(1.42e-05)]_8_[+4(1.42e-05)]_8_[+4(1.42e-05)]_7_[+4(1.42e-05)]_7_[+4(1.42e-05)]_8_[+4(1.42e-05)]_7_[+4(1.57e-06)]_7_[+4(1.42e-05)]_8_[+4(1.42e-05)]_7_[+4(1.42e-05)]_8_[+4(1.42e-05)]_8_[+4(1.42e-05)]_7_[+4(1.57e-06)]_11_[+9(4.61e-05)]_12_[+4(1.42e-05)]_7_[+4(1.42e-05)]_7_[+4(1.42e-05)]_8_[+4(1.42e-05)]_7_[+4(1.42e-05)]_8_[+4(1.42e-05)]_156 chr1:134160159-134162063 1.73e-30 80_[+10(9.10e-07)]_23_[+3(5.89e-09)]_98_[+8(1.71e-10)]_13_[+6(4.36e-06)]_[+5(1.53e-10)]_96_[+7(8.52e-11)]_50_[+9(5.31e-07)]_49_[+1(2.60e-08)]_45_[+2(4.00e-08)]_30_[+6(5.59e-05)]_105_[+2(3.16e-05)]_524_[+5(1.69e-05)]_191_[+4(4.85e-05)]_130_[+10(2.30e-05)]_188 chr1:134322485-134323001 1.32e-05 94_[+9(1.32e-06)]_263_[+2(1.51e-05)]_5_[+10(1.76e-05)]_19_[+6(2.31e-05)]_64 chr1:134071265-134073689 1.39e-16 54_[+3(6.19e-10)]_76_[+9(8.02e-06)]_7_[+8(4.61e-05)]_174_[+1(1.32e-05)]_242_[+1(5.40e-05)]_745_[+6(3.51e-05)]_9_[+10(4.89e-05)]_23_[+3(5.41e-05)]_32_[+2(1.07e-07)]_128_[+7(1.31e-08)]_17_[+8(1.43e-09)]_9_[+3(4.57e-05)]_47_[+4(2.67e-05)]_579 chr1:134160156-134160953 1.10e-32 83_[+10(9.10e-07)]_23_[+3(5.89e-09)]_98_[+8(1.71e-10)]_13_[+6(4.36e-06)]_[+5(1.53e-10)]_96_[+7(8.52e-11)]_50_[+9(5.31e-07)]_49_[+1(2.60e-08)]_45_[+2(4.00e-08)]_30_[+6(5.59e-05)]_99 chr1:134332668-134333623 8.07e-11 291_[+10(8.27e-05)]_43_[+1(4.10e-08)]_67_[+9(2.09e-05)]_1_[+2(1.23e-06)]_130_[+10(1.20e-05)]_99_[+2(9.79e-09)]_52_[+6(2.72e-06)]_141 chr1:91413901-91414660 9.72e-09 126_[+8(2.36e-05)]_[+2(2.08e-05)]_18_[+2(1.21e-07)]_91_[+4(8.84e-06)]_171_[+6(7.47e-05)]_1_[+6(7.47e-05)]_21_[+9(1.32e-06)]_35_[+10(5.28e-05)]_154 chr1:134067000-134067680 1.15e-18 90_[+6(2.31e-05)]_42_[+1(7.27e-05)]_14_[+5(1.78e-09)]_3_[+9(2.09e-05)]_32_[+4(2.91e-07)]_57_[+10(1.60e-05)]_57_[+1(3.43e-06)]_16_[+1(8.80e-05)]_86_[+2(1.90e-06)]_39_[+3(2.17e-10)]_11_[+3(7.70e-10)]_1 chr1:135697928-135699002 1.02e-06 334_[+6(1.47e-05)]_82_[+10(3.84e-05)]_35_[+8(2.30e-05)]_76_[+4(8.01e-06)]_27_[+4(4.22e-05)]_99_[+1(1.73e-06)]_1_[+9(3.14e-05)]_46_[+2(1.09e-05)]_231 chr1:135794180-135795780 9.75e-14 268_[+10(6.69e-08)]_40_[+3(1.51e-07)]_226_[+9(2.03e-06)]_74_[+2(8.85e-06)]_57_[+1(2.14e-07)]_39_[+6(1.50e-07)]_79_[+6(8.02e-05)]_201_[+2(6.47e-07)]_6_[+5(4.47e-05)]_129_[+1(7.63e-05)]_275 chr1:134195643-134196479 1.74e-51 129_[+3(1.72e-13)]_57_[+9(1.73e-07)]_71_[+10(4.48e-09)]_4_[+10(7.22e-06)]_1_[+1(9.95e-09)]_21_[+6(1.47e-06)]_17_[+8(1.31e-05)]_13_[+5(3.09e-15)]_6_[+7(2.30e-12)]_11_[+8(6.36e-14)]_87_[+2(4.83e-07)]_12_[+4(2.91e-07)]_160 chr1:134195091-134196479 2.22e-49 139_[+4(9.32e-07)]_177_[+2(4.68e-05)]_6_[+1(3.95e-05)]_303_[+3(1.72e-13)]_57_[+9(1.73e-07)]_71_[+10(4.48e-09)]_4_[+10(7.22e-06)]_1_[+1(9.95e-09)]_21_[+6(1.47e-06)]_17_[+8(1.31e-05)]_13_[+5(3.09e-15)]_6_[+7(2.30e-12)]_11_[+8(6.36e-14)]_87_[+2(4.83e-07)]_12_[+4(2.91e-07)]_160 chr1:134195091-134196873 2.38e-48 139_[+4(9.32e-07)]_177_[+2(4.68e-05)]_6_[+1(3.95e-05)]_303_[+3(1.72e-13)]_57_[+9(1.73e-07)]_71_[+10(4.48e-09)]_4_[+10(7.22e-06)]_1_[+1(9.95e-09)]_21_[+6(1.47e-06)]_17_[+8(1.31e-05)]_13_[+5(3.09e-15)]_6_[+7(2.30e-12)]_11_[+8(6.36e-14)]_87_[+2(4.83e-07)]_12_[+4(2.91e-07)]_554 chr1:134244219-134245778 8.98e-40 102_[+10(7.22e-06)]_133_[+4(7.13e-05)]_444_[+6(9.10e-08)]_80_[+3(2.36e-09)]_69_[+8(2.08e-05)]_27_[+9(2.54e-09)]_18_[+4(5.02e-06)]_23_[+1(5.24e-09)]_32_[+7(1.46e-11)]_2_[+5(1.77e-11)]_8_[+4(8.06e-05)]_50_[+2(3.61e-09)]_13_[+8(1.96e-11)]_1_[+9(5.76e-05)]_51_[+9(3.06e-06)]_91_[+10(2.92e-06)]_104 chr1:170655330-170656359 6.59e-14 125_[+10(1.76e-05)]_142_[+8(7.13e-09)]_15_[+4(3.66e-06)]_21_[+4(3.23e-05)]_53_[+5(4.47e-05)]_118_[+1(1.41e-05)]_8_[+3(2.66e-08)]_174_[+2(1.61e-05)]_26_[+9(2.27e-05)]_118_[+6(2.74e-05)]_36 chr1:134289319-134290101 6.89e-16 50_[+9(3.74e-06)]_20_[+3(1.31e-10)]_93_[+1(2.40e-05)]_98_[+10(1.09e-05)]_48_[+2(1.90e-06)]_2_[+6(7.43e-06)]_56_[+6(4.80e-05)]_8_[+1(1.13e-08)]_131_[+4(7.50e-06)]_104 chr1:66921855-66922977 1.76e-08 275_[+9(8.02e-06)]_46_[+4(2.15e-05)]_358_[+10(3.25e-05)]_1_[+1(3.51e-09)]_123_[+3(1.89e-07)]_222 chr1:134244752-134245912 5.57e-41 172_[+6(9.10e-08)]_80_[+3(2.36e-09)]_69_[+8(2.08e-05)]_27_[+9(2.54e-09)]_18_[+4(5.02e-06)]_23_[+1(5.24e-09)]_32_[+7(1.46e-11)]_2_[+5(1.77e-11)]_8_[+4(8.06e-05)]_50_[+2(3.61e-09)]_13_[+8(1.96e-11)]_1_[+9(5.76e-05)]_51_[+9(3.06e-06)]_91_[+10(2.92e-06)]_238 chr1:134082948-134083616 3.33e-08 230_[+9(5.98e-07)]_5_[+10(2.99e-05)]_52_[+1(3.19e-06)]_52_[+6(3.89e-06)]_4_[+6(1.61e-05)]_102_[+2(1.03e-06)]_112 chr1:134244847-134245778 6.96e-42 77_[+6(9.10e-08)]_80_[+3(2.36e-09)]_69_[+8(2.08e-05)]_27_[+9(2.54e-09)]_18_[+4(5.02e-06)]_23_[+1(5.24e-09)]_32_[+7(1.46e-11)]_2_[+5(1.77e-11)]_8_[+4(8.06e-05)]_50_[+2(3.61e-09)]_13_[+8(1.96e-11)]_1_[+9(5.76e-05)]_51_[+9(3.06e-06)]_91_[+10(2.92e-06)]_104 chr4:139770981-139771606 1.80e-10 178_[+2(2.44e-06)]_189_[+10(2.30e-05)]_29_[+1(3.51e-09)]_96_[+6(1.77e-05)]_58 chr5:125110919-125111688 1.42e-19 34_[+5(2.67e-09)]_59_[+7(3.85e-05)]_39_[+9(2.24e-07)]_5_[+1(6.94e-12)]_82_[+9(7.16e-05)]_48_[+4(6.10e-06)]_96_[+10(4.89e-05)]_11_[+2(7.11e-07)]_29_[+2(6.10e-05)]_183 chr6:128258964-128259829 4.22e-17 79_[+2(2.65e-05)]_93_[+3(3.19e-07)]_4_[+1(8.78e-09)]_24_[+10(8.87e-06)]_72_[+10(1.38e-06)]_26_[+4(5.39e-05)]_49_[+6(3.60e-08)]_98_[+10(1.60e-05)]_223_[+7(3.50e-08)]_31 chr6:72216026-72218866 1.38e-19 86_[+3(2.60e-09)]_376_[+10(2.30e-05)]_23_[+1(4.59e-09)]_217_[+6(3.07e-06)]_164_[+1(1.37e-06)]_47_[+7(2.14e-05)]_28_[+4(1.12e-05)]_245_[+6(3.60e-08)]_40_[+3(7.13e-05)]_504_[+10(3.30e-06)]_148_[+10(9.52e-05)]_44_[+8(1.55e-05)]_97_[+9(2.77e-06)]_137_[+8(4.96e-05)]_67_[+1(4.88e-05)]_97_[+2(3.19e-11)]_144_[+4(8.06e-05)]_38 chr7:127210176-127210781 6.13e-09 10_[+9(4.55e-06)]_90_[+2(8.25e-06)]_157_[+6(5.19e-05)]_7_[+4(5.09e-05)]_90_[+1(2.60e-08)]_159 chr7:19409569-19410199 9.39e-09 31_[+1(4.91e-06)]_37_[+10(3.30e-06)]_246_[+2(3.95e-07)]_3_[+2(4.43e-05)]_84_[+6(1.00e-05)]_44_[+9(4.97e-05)]_69 chr7:46352696-46354059 2.14e-09 235_[+8(3.36e-05)]_9_[+6(3.80e-05)]_138_[+10(4.17e-05)]_34_[+7(1.39e-08)]_91_[+4(8.84e-06)]_123_[+9(5.01e-06)]_233_[+2(9.48e-06)]_13_[+9(5.76e-05)]_143_[+1(2.75e-06)]_166 chr8:122636472-122637392 1.56e-07 178_[+1(2.85e-07)]_291_[+9(2.09e-05)]_135_[+4(8.43e-05)]_134_[+6(1.29e-06)]_43_[+2(7.69e-06)]_47 chr8:123894638-123896819 2.67e-12 30_[+2(4.00e-08)]_4_[+9(6.07e-06)]_180_[+5(1.30e-06)]_505_[+1(9.95e-09)]_50_[+7(7.61e-05)]_22_[+6(7.47e-05)]_1_[+6(7.47e-05)]_394_[+6(1.34e-05)]_33_[+10(4.52e-05)]_146_[+4(5.39e-05)]_391_[+4(1.42e-05)]_137_[+8(2.14e-06)]_11_[+2(1.61e-05)]_34 chr8:120265441-120266019 4.93e-13 17_[+9(3.39e-06)]_16_[+2(3.95e-07)]_89_[+6(4.36e-06)]_62_[+10(5.28e-05)]_24_[+2(1.33e-05)]_9_[+1(3.55e-05)]_41_[+3(7.97e-06)]_33_[+3(8.82e-07)]_21_[+3(8.53e-06)]_29_[+3(1.60e-09)]_21 chrX:166778620-166779781 5.11e-15 263_[+1(1.24e-05)]_231_[+2(3.95e-07)]_13_[+9(1.33e-07)]_9_[+9(7.16e-05)]_[+9(1.18e-06)]_7_[+9(5.59e-11)]_11_[+9(7.16e-05)]_[+9(1.18e-06)]_7_[+9(3.70e-07)]_[+2(7.50e-08)]_14_[+2(2.61e-07)]_8_[+10(2.74e-05)]_8_[+6(7.47e-05)]_148_[+8(5.20e-09)]_14_[+4(5.32e-06)]_130 chrX:166805408-166805925 2.65e-05 27_[+9(9.62e-06)]_108_[+7(3.14e-08)]_181_[+4(5.39e-05)]_64_[+10(6.64e-05)]_65 chrX:166803118-166803588 1.16e-14 7_[+1(7.84e-08)]_93_[+9(1.15e-05)]_21_[+6(2.43e-06)]_47_[+4(8.06e-05)]_14_[+7(7.30e-08)]_14_[+9(9.47e-05)]_26_[+2(5.87e-08)]_[+4(4.54e-05)]_99 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 10 reached. ******************************************************************************** CPU: pongo ********************************************************************************