******************************************************************************** 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.liftOver.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr10:80940445-80941162 1.0000 717 chr11:6481396-6482367 1.0000 971 chr15:97811911-97812695 1.0000 784 chr1:43136409-43137115 1.0000 706 chr1:134071265-134073689 1.0000 2424 chr1:134160156-134160953 1.0000 797 chr1:134067000-134067680 1.0000 680 chr1:134195091-134196873 1.0000 1782 chr1:170655330-170656359 1.0000 1029 chr1:66921855-66922977 1.0000 1122 chr1:134244847-134245778 1.0000 931 chr6:128258964-128259829 1.0000 865 chr6:72216026-72218866 1.0000 2840 chr7:46352696-46354059 1.0000 1363 chr8:122636472-122637392 1.0000 920 chr8:120265441-120266019 1.0000 578 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.liftOver.fa -maxw 25 -dna -nmotifs 10 -maxsize 200000 -o mm10.Myocyte_specific.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= 18 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= 19496 N= 18 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.242 C 0.268 G 0.251 T 0.238 Background letter frequencies (from dataset with add-one prior applied): A 0.242 C 0.268 G 0.251 T 0.238 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 25 sites = 17 llr = 248 E-value = 5.8e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 7463:145:25:2145:154236:2 pos.-specific C ::::122::4:11511:1::12::: probability G 2646953584196555984665387 matrix T 1::1:21:2:4:1:1:11111:121 bits 2.1 1.9 1.7 * 1.4 * * * Relative 1.2 * * * * * Entropy 1.0 *** * ** * * * (21.0 bits) 0.8 *** * ** * ***** ** 0.6 ***** ** **** ****** *** 0.4 ***** ****************** 0.2 ****** ****************** 0.0 ------------------------- Multilevel AGAGGGAGGCAGGCGAGGAGGGAGG consensus GAGA CGA GT AGAG GA AG A sequence TC A C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chr1:66921855-66922977 722 3.80e-14 AGAGAGAGAA AGAGGGAGGGAGGGAGGGAGGGAGG GAGAGAGAGA chr10:80940445-80941162 582 7.53e-10 TATATAGGAC AAGAGGAAGGAGAGGGGGAGGGAGA ATCTTAGTGA chr6:72216026-72218866 524 7.16e-09 AAAGCAAACA AGGGGGTGGCGGGGGGGGGGGGGTG GATAAAAACC chrX:166803118-166803588 12 8.00e-09 GAGGAGGAAG AGGAGGAGGAGGAGGAGGAGGAAGA AAAGATTTTT chr1:134067000-134067680 413 1.11e-08 CACCTGGAGG AGAGGGCAGCTGGCAAGGGAGCTTG CCTCTGCCAA chr6:128258964-128259829 224 2.08e-08 AAAGGGGGGA AGAGGTGGGAAGAAGGGGGGACAGG ATAGAAAGCC chr8:120265441-120266019 239 4.99e-08 TGGCCCGCCC AAAGGCAGGGAGGCCAGGGAAGTGG CCTTCTGGTC chr7:46352696-46354059 813 5.99e-08 ACCAGGCATG AGAGGTCAGCACTCTGGGAGGAAGG CCAGTTCCAG chr1:134160156-134160953 562 7.84e-08 TGGGGCACTG GGGGGGGGGCTGCCTGGGAAGGAGA GACATCTAAA chr11:6481396-6482367 758 1.11e-07 TGAGCACGAG GAAAGCCATGTGGCAAGGGAGAGGG TTCCTGGGGT chr15:97811911-97812695 107 1.31e-07 GGCTTAGCTC GGGAGCAATCAGGCAGGTAAGCAGG CCCGGTCTGC chr1:134244847-134245778 389 2.50e-07 AATGCTACAC AAAGGACAGCTGGGGCTGAAGGAGG ACAAAGATGG chr1:170655330-170656359 564 3.65e-07 TGTAACCCTG AGGGCTTAGAAGGGGAGGAGACAGT AGACCCCATT chr1:134071265-134073689 384 3.65e-07 CTCGTTTGTG GGATGCAGGGTGGCAAGTGGCAGGG CCAGGTTTCT chr8:122636472-122637392 229 4.54e-07 GGGAATGACC AAATGGGGTGTGGCGGGGTGTGGGG TGCCACTGGC chr1:134195091-134196873 934 7.90e-07 GGACCTCTCA TGAGCTGGGCAGGGGAGAGTGGAGG CCCTGTCCAG chr1:43136409-43137115 22 5.81e-06 CAAAGCCAAA AAAAGGGAGAACAGAAGCAGCAGTA GGTAGACCCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:66921855-66922977 3.8e-14 721_[+1]_376 chr10:80940445-80941162 7.5e-10 581_[+1]_111 chr6:72216026-72218866 7.2e-09 523_[+1]_2292 chrX:166803118-166803588 8e-09 11_[+1]_434 chr1:134067000-134067680 1.1e-08 412_[+1]_243 chr6:128258964-128259829 2.1e-08 223_[+1]_617 chr8:120265441-120266019 5e-08 238_[+1]_315 chr7:46352696-46354059 6e-08 812_[+1]_526 chr1:134160156-134160953 7.8e-08 561_[+1]_211 chr11:6481396-6482367 1.1e-07 757_[+1]_189 chr15:97811911-97812695 1.3e-07 106_[+1]_653 chr1:134244847-134245778 2.5e-07 388_[+1]_518 chr1:170655330-170656359 3.6e-07 563_[+1]_441 chr1:134071265-134073689 3.6e-07 383_[+1]_2016 chr8:122636472-122637392 4.5e-07 228_[+1]_667 chr1:134195091-134196873 7.9e-07 933_[+1]_824 chr1:43136409-43137115 5.8e-06 21_[+1]_660 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=25 seqs=17 chr1:66921855-66922977 ( 722) AGAGGGAGGGAGGGAGGGAGGGAGG 1 chr10:80940445-80941162 ( 582) AAGAGGAAGGAGAGGGGGAGGGAGA 1 chr6:72216026-72218866 ( 524) AGGGGGTGGCGGGGGGGGGGGGGTG 1 chrX:166803118-166803588 ( 12) AGGAGGAGGAGGAGGAGGAGGAAGA 1 chr1:134067000-134067680 ( 413) AGAGGGCAGCTGGCAAGGGAGCTTG 1 chr6:128258964-128259829 ( 224) AGAGGTGGGAAGAAGGGGGGACAGG 1 chr8:120265441-120266019 ( 239) AAAGGCAGGGAGGCCAGGGAAGTGG 1 chr7:46352696-46354059 ( 813) AGAGGTCAGCACTCTGGGAGGAAGG 1 chr1:134160156-134160953 ( 562) GGGGGGGGGCTGCCTGGGAAGGAGA 1 chr11:6481396-6482367 ( 758) GAAAGCCATGTGGCAAGGGAGAGGG 1 chr15:97811911-97812695 ( 107) GGGAGCAATCAGGCAGGTAAGCAGG 1 chr1:134244847-134245778 ( 389) AAAGGACAGCTGGGGCTGAAGGAGG 1 chr1:170655330-170656359 ( 564) AGGGCTTAGAAGGGGAGGAGACAGT 1 chr1:134071265-134073689 ( 384) GGATGCAGGGTGGCAAGTGGCAGGG 1 chr8:122636472-122637392 ( 229) AAATGGGGTGTGGCGGGGTGTGGGG 1 chr1:134195091-134196873 ( 934) TGAGCTGGGCAGGGGAGAGTGGAGG 1 chr1:43136409-43137115 ( 22) AAAAGGGAGAACAGAAGCAGCAGTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 19064 bayes= 10.1994 E= 5.8e-009 154 -1073 -9 -202 54 -1073 137 -1073 142 -1073 49 -1073 28 -1073 123 -102 -1073 -119 181 -1073 -204 -19 91 -2 54 -19 23 -102 96 -1073 108 -1073 -1073 -1073 171 -43 -4 62 49 -1073 113 -1073 -109 57 -1073 -119 181 -1073 -4 -219 137 -202 -204 81 91 -1073 54 -219 91 -102 96 -219 91 -1073 -1073 -1073 191 -202 -204 -219 161 -102 113 -1073 71 -202 54 -1073 123 -202 -46 -119 137 -202 28 -19 91 -1073 128 -1073 23 -102 -1073 -1073 171 -43 -4 -1073 149 -202 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 17 E= 5.8e-009 0.705882 0.000000 0.235294 0.058824 0.352941 0.000000 0.647059 0.000000 0.647059 0.000000 0.352941 0.000000 0.294118 0.000000 0.588235 0.117647 0.000000 0.117647 0.882353 0.000000 0.058824 0.235294 0.470588 0.235294 0.352941 0.235294 0.294118 0.117647 0.470588 0.000000 0.529412 0.000000 0.000000 0.000000 0.823529 0.176471 0.235294 0.411765 0.352941 0.000000 0.529412 0.000000 0.117647 0.352941 0.000000 0.117647 0.882353 0.000000 0.235294 0.058824 0.647059 0.058824 0.058824 0.470588 0.470588 0.000000 0.352941 0.058824 0.470588 0.117647 0.470588 0.058824 0.470588 0.000000 0.000000 0.000000 0.941176 0.058824 0.058824 0.058824 0.764706 0.117647 0.529412 0.000000 0.411765 0.058824 0.352941 0.000000 0.588235 0.058824 0.176471 0.117647 0.647059 0.058824 0.294118 0.235294 0.470588 0.000000 0.588235 0.000000 0.294118 0.117647 0.000000 0.000000 0.823529 0.176471 0.235294 0.000000 0.705882 0.058824 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [AG][GA][AG][GA]G[GCT][AGC][GA]G[CGA][AT]G[GA][CG][GA][AG]GG[AG][GA]G[GAC][AG]G[GA] -------------------------------------------------------------------------------- Time 15.17 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 15 sites = 18 llr = 203 E-value = 4.7e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 112:4:2:41:7:1: pos.-specific C 771a146a:5a:293 probability G 2:2::51::4::8:: matrix T :34:611:6::3::7 bits 2.1 1.9 * * * 1.7 * * * 1.4 * * * * Relative 1.2 * * ***** Entropy 1.0 * ** ***** (16.3 bits) 0.8 ** ** ** ***** 0.6 ** *** ******** 0.4 ** ************ 0.2 *************** 0.0 --------------- Multilevel CCTCTGCCTCCAGCT consensus TA AC AG T C sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- chr6:72216026-72218866 1018 1.31e-08 GGCAGGCAGG CCTCTCCCAGCAGCT AATCAAAACC chr1:66921855-66922977 379 2.59e-08 GACTACCACT CTTCTGCCTGCAGCT CCATTTTTGC chr1:170655330-170656359 474 3.22e-07 GCTGCTCTTC CCACTCACTCCAGCT CCCTCGGTAA chr1:134244847-134245778 693 3.64e-07 CACTCTGACC CCTCAGCCTCCACCT GTTCCCCTCG chrX:166803118-166803588 214 4.89e-07 TGGCTGTTCC CCTCTGACAGCTGCT CTCCAGCAGG chr8:120265441-120266019 59 1.25e-06 CACACCCTGC CCCCACCCTCCTGCT CCCCCAGAGG chr11:6481396-6482367 347 1.34e-06 CTCTCATGGG CTTCTGCCAACAGCT GACTCTACAG chr15:97811911-97812695 710 2.50e-06 AAGTTTAGAA ACTCAGCCAGCAGCC TGACACGACC chr1:134160156-134160953 392 3.29e-06 CAAATCCACT CCACACCCTCCTCCT GCATGTTCTT chr1:134195091-134196873 717 3.59e-06 CAGGATGTCT GTGCTGCCTGCAGCC TGGTTGGCAG chr10:80940445-80941162 637 5.00e-06 CTCAGACCCT CTGCTCTCTCCAGCC TGCCTGGCCT chr6:128258964-128259829 79 6.85e-06 GAGTGGTGGG GCACACCCACCACCT GAGCACTGAG chr1:43136409-43137115 516 6.85e-06 TGCAGCTGTG CAGCTGGCTGCAGCT GTGTAGCTAG chr7:46352696-46354059 583 7.95e-06 GGCCAAGTAT CCTCCTCCAGCAGCT GGTCACAAAG chr1:134071265-134073689 1686 8.50e-06 ACCGTCCTCA GCTCACCCTGCTGAT CTCTAAGACA chr1:134067000-134067680 364 9.79e-06 AACTGAATCC CTCCTCGCTCCAGCC AGCAAATAGA chr8:122636472-122637392 646 1.04e-05 GGTGAGCCAG ACACTGTCACCTGCT GCCTAGGACC chrX:166805408-166805925 300 1.52e-05 TACTGGGAGC CCGCAGACACCAGAC ACAGAGGACC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:72216026-72218866 1.3e-08 1017_[+2]_1808 chr1:66921855-66922977 2.6e-08 378_[+2]_729 chr1:170655330-170656359 3.2e-07 473_[+2]_541 chr1:134244847-134245778 3.6e-07 692_[+2]_224 chrX:166803118-166803588 4.9e-07 213_[+2]_242 chr8:120265441-120266019 1.2e-06 58_[+2]_505 chr11:6481396-6482367 1.3e-06 346_[+2]_610 chr15:97811911-97812695 2.5e-06 709_[+2]_60 chr1:134160156-134160953 3.3e-06 391_[+2]_391 chr1:134195091-134196873 3.6e-06 716_[+2]_1051 chr10:80940445-80941162 5e-06 636_[+2]_66 chr6:128258964-128259829 6.8e-06 78_[+2]_772 chr1:43136409-43137115 6.8e-06 515_[+2]_176 chr7:46352696-46354059 8e-06 582_[+2]_766 chr1:134071265-134073689 8.5e-06 1685_[+2]_724 chr1:134067000-134067680 9.8e-06 363_[+2]_302 chr8:122636472-122637392 1e-05 645_[+2]_260 chrX:166805408-166805925 1.5e-05 299_[+2]_203 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=15 seqs=18 chr6:72216026-72218866 ( 1018) CCTCTCCCAGCAGCT 1 chr1:66921855-66922977 ( 379) CTTCTGCCTGCAGCT 1 chr1:170655330-170656359 ( 474) CCACTCACTCCAGCT 1 chr1:134244847-134245778 ( 693) CCTCAGCCTCCACCT 1 chrX:166803118-166803588 ( 214) CCTCTGACAGCTGCT 1 chr8:120265441-120266019 ( 59) CCCCACCCTCCTGCT 1 chr11:6481396-6482367 ( 347) CTTCTGCCAACAGCT 1 chr15:97811911-97812695 ( 710) ACTCAGCCAGCAGCC 1 chr1:134160156-134160953 ( 392) CCACACCCTCCTCCT 1 chr1:134195091-134196873 ( 717) GTGCTGCCTGCAGCC 1 chr10:80940445-80941162 ( 637) CTGCTCTCTCCAGCC 1 chr6:128258964-128259829 ( 79) GCACACCCACCACCT 1 chr1:43136409-43137115 ( 516) CAGCTGGCTGCAGCT 1 chr7:46352696-46354059 ( 583) CCTCCTCCAGCAGCT 1 chr1:134071265-134073689 ( 1686) GCTCACCCTGCTGAT 1 chr1:134067000-134067680 ( 364) CTCCTCGCTCCAGCC 1 chr8:122636472-122637392 ( 646) ACACTGTCACCTGCT 1 chrX:166805408-166805925 ( 300) CCGCAGACACCAGAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 19244 bayes= 10.0608 E= 4.7e-007 -112 143 -59 -1081 -212 131 -1081 22 -12 -127 -18 90 -1081 190 -1081 -1081 68 -227 -1081 122 -1081 73 99 -210 -54 119 -118 -110 -1081 190 -1081 -1081 88 -1081 -1081 122 -212 90 82 -1081 -1081 190 -1081 -1081 158 -1081 -1081 22 -1081 -69 173 -1081 -112 173 -1081 -1081 -1081 5 -1081 160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 18 E= 4.7e-007 0.111111 0.722222 0.166667 0.000000 0.055556 0.666667 0.000000 0.277778 0.222222 0.111111 0.222222 0.444444 0.000000 1.000000 0.000000 0.000000 0.388889 0.055556 0.000000 0.555556 0.000000 0.444444 0.500000 0.055556 0.166667 0.611111 0.111111 0.111111 0.000000 1.000000 0.000000 0.000000 0.444444 0.000000 0.000000 0.555556 0.055556 0.500000 0.444444 0.000000 0.000000 1.000000 0.000000 0.000000 0.722222 0.000000 0.000000 0.277778 0.000000 0.166667 0.833333 0.000000 0.111111 0.888889 0.000000 0.000000 0.000000 0.277778 0.000000 0.722222 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- C[CT][TAG]C[TA][GC]CC[TA][CG]C[AT]GC[TC] -------------------------------------------------------------------------------- Time 29.90 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 8 sites = 18 llr = 164 E-value = 6.0e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::9::::: pos.-specific C 8a::a::2 probability G 2:1a::a2 matrix T 1::::a:7 bits 2.1 * ** 1.9 * **** 1.7 * **** 1.4 ****** Relative 1.2 ****** Entropy 1.0 ******* (13.1 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CCAGCTGT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:166803118-166803588 260 1.66e-05 AACCTCAGTC CCAGCTGT CTGCAGGACA chrX:166805408-166805925 281 1.66e-05 GATTCAGTTT CCAGCTGT ATACTGGGAG chr1:134244847-134245778 616 1.66e-05 CACATGCTGC CCAGCTGT CCCTGTCCCT chr1:170655330-170656359 396 1.66e-05 GCCTGCTCCA CCAGCTGT GGTCAGAGGG chr1:134160156-134160953 424 1.66e-05 CTTGCCATTC CCAGCTGT CTTCCAGACC chr1:134071265-134073689 197 1.66e-05 CAGCCTCTCC CCAGCTGT CCTTAGTCAT chr15:97811911-97812695 334 1.66e-05 CCTACGCCAG CCAGCTGT GGGCCTGGTC chr11:6481396-6482367 416 1.66e-05 TCGGCTGAAG CCAGCTGT TGTGTCCACA chr6:72216026-72218866 705 5.29e-05 TGCCTCCAAA CCAGCTGC TCGCGCTGTT chr1:66921855-66922977 344 5.29e-05 TGTTGTTTCG CCAGCTGG TGGGGATTTG chr1:134195091-134196873 141 5.29e-05 GACCCAGAGG CCAGCTGC TGTCCCTGTT chr1:134067000-134067680 520 5.29e-05 TTGGTATCCA CCAGCTGC CCAGAACTGA chr8:120265441-120266019 288 6.84e-05 GTCACCCTCT GCAGCTGT CCTCCTTGGC chr1:43136409-43137115 137 6.84e-05 TGGCTGGGCT GCAGCTGT GTAGCTAGGC chr8:122636472-122637392 628 8.57e-05 CCTGCCTGAC CCGGCTGT GGTGAGCCAG chr7:46352696-46354059 705 1.00e-04 GCGCCCAGAG TCAGCTGT TCCTGGGTCT chr6:128258964-128259829 403 1.34e-04 GAGATCCTGA GCAGCTGG AGATTGCAAT chr10:80940445-80941162 324 1.72e-04 GCCAGCACAC CCGGCTGG CCTGCTCGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:166803118-166803588 1.7e-05 259_[+3]_203 chrX:166805408-166805925 1.7e-05 280_[+3]_229 chr1:134244847-134245778 1.7e-05 615_[+3]_308 chr1:170655330-170656359 1.7e-05 395_[+3]_626 chr1:134160156-134160953 1.7e-05 423_[+3]_366 chr1:134071265-134073689 1.7e-05 196_[+3]_2220 chr15:97811911-97812695 1.7e-05 333_[+3]_443 chr11:6481396-6482367 1.7e-05 415_[+3]_548 chr6:72216026-72218866 5.3e-05 704_[+3]_2128 chr1:66921855-66922977 5.3e-05 343_[+3]_771 chr1:134195091-134196873 5.3e-05 140_[+3]_1634 chr1:134067000-134067680 5.3e-05 519_[+3]_153 chr8:120265441-120266019 6.8e-05 287_[+3]_283 chr1:43136409-43137115 6.8e-05 136_[+3]_562 chr8:122636472-122637392 8.6e-05 627_[+3]_285 chr7:46352696-46354059 0.0001 704_[+3]_651 chr6:128258964-128259829 0.00013 402_[+3]_455 chr10:80940445-80941162 0.00017 323_[+3]_386 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=8 seqs=18 chrX:166803118-166803588 ( 260) CCAGCTGT 1 chrX:166805408-166805925 ( 281) CCAGCTGT 1 chr1:134244847-134245778 ( 616) CCAGCTGT 1 chr1:170655330-170656359 ( 396) CCAGCTGT 1 chr1:134160156-134160953 ( 424) CCAGCTGT 1 chr1:134071265-134073689 ( 197) CCAGCTGT 1 chr15:97811911-97812695 ( 334) CCAGCTGT 1 chr11:6481396-6482367 ( 416) CCAGCTGT 1 chr6:72216026-72218866 ( 705) CCAGCTGC 1 chr1:66921855-66922977 ( 344) CCAGCTGG 1 chr1:134195091-134196873 ( 141) CCAGCTGC 1 chr1:134067000-134067680 ( 520) CCAGCTGC 1 chr8:120265441-120266019 ( 288) GCAGCTGT 1 chr1:43136409-43137115 ( 137) GCAGCTGT 1 chr8:122636472-122637392 ( 628) CCGGCTGT 1 chr7:46352696-46354059 ( 705) TCAGCTGT 1 chr6:128258964-128259829 ( 403) GCAGCTGG 1 chr10:80940445-80941162 ( 324) CCGGCTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 19370 bayes= 10.2047 E= 6.0e-004 -1081 153 -59 -210 -1081 190 -1081 -1081 188 -1081 -118 -1081 -1081 -1081 199 -1081 -1081 190 -1081 -1081 -1081 -1081 -1081 207 -1081 -1081 199 -1081 -1081 -69 -59 148 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 6.0e-004 0.000000 0.777778 0.166667 0.055556 0.000000 1.000000 0.000000 0.000000 0.888889 0.000000 0.111111 0.000000 0.000000 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 0.166667 0.166667 0.666667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- CCAGCTGT -------------------------------------------------------------------------------- Time 44.39 secs. ******************************************************************************** ******************************************************************************** MOTIF 4 width = 24 sites = 9 llr = 164 E-value = 3.0e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 4 Description -------------------------------------------------------------------------------- Simplified A :31229:8:61927:9:41739:9 pos.-specific C 92148162a39:819:6:41118: probability G ::::::2::::::21::612:::1 matrix T 1483::2::1:1:::14:3:6:2: bits 2.1 1.9 * 1.7 * 1.4 * * * ** ** * * Relative 1.2 * ** ** *** ** *** Entropy 1.0 * * ** ** *** **** *** (26.3 bits) 0.8 * * ** ** ******** * *** 0.6 * * ************** ***** 0.4 ****************** ***** 0.2 ************************ 0.0 ------------------------ Multilevel CTTCCACACACACACACGCATACA consensus A TA GC C AG TATGA T sequence C A T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------ chr8:120265441-120266019 529 6.12e-13 CACACACACT CTTTCATACACACACACACATACA CTCACATACA chr1:134195091-134196873 682 1.12e-12 TAGCACCCCC CCTCCACACACACACACGTAAACA GCAGGATGTC chr6:72216026-72218866 85 6.03e-11 TCCAGACACA CATCCAGACACACGCACACGTACA CAAGGACAAA chr1:134067000-134067680 617 8.29e-10 CACACACAGA CACACAGACACACACACACACACA CAGACACACA chr1:170655330-170656359 595 1.09e-09 CAGTAGACCC CATTCACCCCAACACATGTGTACA ATACTGTTGC chr1:66921855-66922977 876 1.71e-08 AAGGCACGCA CTACCACACCCAAGCTTGAAAACA TGATTTAAGT chr1:134071265-134073689 1478 2.06e-08 CTTGGGAAAC TTTAAATCCACACCCACACATATA TCTGTTCTCT chrX:166803118-166803588 427 4.32e-08 AATCACCCTG CTTCAACACTCACAGATGGCTACG CGTCAAGGCT chr1:134244847-134245778 173 7.96e-08 GCTTTTTGGC CCTTCCCACCCTAACATGTAACTA ATGGCAGGTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr8:120265441-120266019 6.1e-13 528_[+4]_26 chr1:134195091-134196873 1.1e-12 681_[+4]_1077 chr6:72216026-72218866 6e-11 84_[+4]_2732 chr1:134067000-134067680 8.3e-10 616_[+4]_40 chr1:170655330-170656359 1.1e-09 594_[+4]_411 chr1:66921855-66922977 1.7e-08 875_[+4]_223 chr1:134071265-134073689 2.1e-08 1477_[+4]_923 chrX:166803118-166803588 4.3e-08 426_[+4]_20 chr1:134244847-134245778 8e-08 172_[+4]_735 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 4 width=24 seqs=9 chr8:120265441-120266019 ( 529) CTTTCATACACACACACACATACA 1 chr1:134195091-134196873 ( 682) CCTCCACACACACACACGTAAACA 1 chr6:72216026-72218866 ( 85) CATCCAGACACACGCACACGTACA 1 chr1:134067000-134067680 ( 617) CACACAGACACACACACACACACA 1 chr1:170655330-170656359 ( 595) CATTCACCCCAACACATGTGTACA 1 chr1:66921855-66922977 ( 876) CTACCACACCCAAGCTTGAAAACA 1 chr1:134071265-134073689 ( 1478) TTTAAATCCACACCCACACATATA 1 chrX:166803118-166803588 ( 427) CTTCAACACTCACAGATGGCTACG 1 chr1:134244847-134245778 ( 173) CCTTCCCACCCTAACATGTAACTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 24 n= 19082 bayes= 11.8976 E= 3.0e-001 -982 173 -982 -110 46 -27 -982 90 -112 -127 -982 170 -12 73 -982 48 -12 153 -982 -982 188 -127 -982 -982 -982 105 -18 -10 168 -27 -982 -982 -982 190 -982 -982 120 31 -982 -110 -112 173 -982 -982 188 -982 -982 -110 -12 153 -982 -982 146 -127 -18 -982 -982 173 -117 -982 188 -982 -982 -110 -982 105 -982 90 88 -982 114 -982 -112 73 -117 48 146 -127 -18 -982 46 -127 -982 122 188 -127 -982 -982 -982 153 -982 -10 188 -982 -117 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 24 nsites= 9 E= 3.0e-001 0.000000 0.888889 0.000000 0.111111 0.333333 0.222222 0.000000 0.444444 0.111111 0.111111 0.000000 0.777778 0.222222 0.444444 0.000000 0.333333 0.222222 0.777778 0.000000 0.000000 0.888889 0.111111 0.000000 0.000000 0.000000 0.555556 0.222222 0.222222 0.777778 0.222222 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.555556 0.333333 0.000000 0.111111 0.111111 0.888889 0.000000 0.000000 0.888889 0.000000 0.000000 0.111111 0.222222 0.777778 0.000000 0.000000 0.666667 0.111111 0.222222 0.000000 0.000000 0.888889 0.111111 0.000000 0.888889 0.000000 0.000000 0.111111 0.000000 0.555556 0.000000 0.444444 0.444444 0.000000 0.555556 0.000000 0.111111 0.444444 0.111111 0.333333 0.666667 0.111111 0.222222 0.000000 0.333333 0.111111 0.000000 0.555556 0.888889 0.111111 0.000000 0.000000 0.000000 0.777778 0.000000 0.222222 0.888889 0.000000 0.111111 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 regular expression -------------------------------------------------------------------------------- C[TAC]T[CTA][CA]A[CGT][AC]C[AC]CA[CA][AG]CA[CT][GA][CT][AG][TA]A[CT]A -------------------------------------------------------------------------------- Time 58.78 secs. ******************************************************************************** ******************************************************************************** MOTIF 5 width = 15 sites = 15 llr = 178 E-value = 4.3e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 5 Description -------------------------------------------------------------------------------- Simplified A 5:::::13:3313:: pos.-specific C :37:::::11::1:1 probability G 361:a9979538697 matrix T 112a:1:1:151:11 bits 2.1 ** 1.9 ** 1.7 ** * * 1.4 **** * * Relative 1.2 **** * * Entropy 1.0 **** * * * (17.1 bits) 0.8 ******** **** 0.6 ********* **** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel AGCTGGGGGGTGGGG consensus GCT A AA A sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- chr6:72216026-72218866 1319 3.68e-09 ATAGCGTGCT GGCTGGGGGGTGGGG GTGGGGGGGC chr8:122636472-122637392 369 7.38e-08 AATCCAGACT TCCTGGGGGGTGGGG GGAGGCAAAA chr7:46352696-46354059 661 7.38e-08 CAACACAGCC AGTTGGGGGAAGGGG ACAGCCGCCT chr15:97811911-97812695 519 1.01e-07 GATGCAGAGA TGCTGGGAGGTGGGG CTGCTTCAGG chr1:134244847-134245778 512 1.16e-07 CTCTTGCCAC AGCTGTGGGGAGGGG GCTGTCCTCT chr1:134067000-134067680 473 2.11e-07 AGGGGTATAG AGCTGGGGGAGGGGC CCAGTGCTTA chr10:80940445-80941162 482 4.67e-07 GCCAGCCAGG ACCTGGGGGAAAGGG AGGAGGGTTG chr8:120265441-120266019 303 2.20e-06 TGTCCTCCTT GGCTGGGGGCGGGGT GGCCTGTGTT chrX:166803118-166803588 78 4.14e-06 CTGACATTTC ACTTGGGGCATGAGG CATGATATTC chr1:134160156-134160953 85 5.91e-06 TACACCTTCT GGCTGGGAGGAAAGC CCACTCTGCG chr6:128258964-128259829 453 7.24e-06 CCTAGAGAGG ACCTGGGAGGGGCTG GGAAGGACAT chr1:170655330-170656359 337 7.24e-06 GCAGCTGTTT AGTTGGGGGAGGATT TGGAGCAGCA chr1:134195091-134196873 1419 8.22e-06 CCCCTAGCAG GCCTGGAGGTTGAGG CTTGAGTCAG chr1:43136409-43137115 490 8.75e-06 GGCTGGCTGC AGCTGTGTGGTTGGG CTGCAGCTGT chr11:6481396-6482367 284 8.75e-06 GAAGAGACAG GTGTGGGAGGTGAGG GGAAGGGTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:72216026-72218866 3.7e-09 1318_[+5]_1507 chr8:122636472-122637392 7.4e-08 368_[+5]_537 chr7:46352696-46354059 7.4e-08 660_[+5]_688 chr15:97811911-97812695 1e-07 518_[+5]_251 chr1:134244847-134245778 1.2e-07 511_[+5]_405 chr1:134067000-134067680 2.1e-07 472_[+5]_193 chr10:80940445-80941162 4.7e-07 481_[+5]_221 chr8:120265441-120266019 2.2e-06 302_[+5]_261 chrX:166803118-166803588 4.1e-06 77_[+5]_378 chr1:134160156-134160953 5.9e-06 84_[+5]_698 chr6:128258964-128259829 7.2e-06 452_[+5]_398 chr1:170655330-170656359 7.2e-06 336_[+5]_678 chr1:134195091-134196873 8.2e-06 1418_[+5]_349 chr1:43136409-43137115 8.8e-06 489_[+5]_202 chr11:6481396-6482367 8.8e-06 283_[+5]_673 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 5 width=15 seqs=15 chr6:72216026-72218866 ( 1319) GGCTGGGGGGTGGGG 1 chr8:122636472-122637392 ( 369) TCCTGGGGGGTGGGG 1 chr7:46352696-46354059 ( 661) AGTTGGGGGAAGGGG 1 chr15:97811911-97812695 ( 519) TGCTGGGAGGTGGGG 1 chr1:134244847-134245778 ( 512) AGCTGTGGGGAGGGG 1 chr1:134067000-134067680 ( 473) AGCTGGGGGAGGGGC 1 chr10:80940445-80941162 ( 482) ACCTGGGGGAAAGGG 1 chr8:120265441-120266019 ( 303) GGCTGGGGGCGGGGT 1 chrX:166803118-166803588 ( 78) ACTTGGGGCATGAGG 1 chr1:134160156-134160953 ( 85) GGCTGGGAGGAAAGC 1 chr6:128258964-128259829 ( 453) ACCTGGGAGGGGCTG 1 chr1:170655330-170656359 ( 337) AGTTGGGGGAGGATT 1 chr1:134195091-134196873 ( 1419) GCCTGGAGGTTGAGG 1 chr1:43136409-43137115 ( 490) AGCTGTGTGGTTGGG 1 chr11:6481396-6482367 ( 284) GTGTGGGAGGTGAGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 19244 bayes= 10.9988 E= 4.3e-002 114 -1055 41 -84 -1055 31 126 -184 -1055 145 -191 -25 -1055 -1055 -1055 207 -1055 -1055 199 -1055 -1055 -1055 179 -84 -186 -1055 189 -1055 14 -1055 141 -184 -1055 -201 189 -1055 46 -201 109 -184 14 -1055 9 97 -86 -1055 167 -184 46 -201 126 -1055 -1055 -1055 179 -84 -1055 -101 155 -84 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 15 E= 4.3e-002 0.533333 0.000000 0.333333 0.133333 0.000000 0.333333 0.600000 0.066667 0.000000 0.733333 0.066667 0.200000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.866667 0.133333 0.066667 0.000000 0.933333 0.000000 0.266667 0.000000 0.666667 0.066667 0.000000 0.066667 0.933333 0.000000 0.333333 0.066667 0.533333 0.066667 0.266667 0.000000 0.266667 0.466667 0.133333 0.000000 0.800000 0.066667 0.333333 0.066667 0.600000 0.000000 0.000000 0.000000 0.866667 0.133333 0.000000 0.133333 0.733333 0.133333 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 regular expression -------------------------------------------------------------------------------- [AG][GC][CT]TGGG[GA]G[GA][TAG]G[GA]GG -------------------------------------------------------------------------------- Time 72.70 secs. ******************************************************************************** ******************************************************************************** MOTIF 6 width = 11 sites = 17 llr = 164 E-value = 4.5e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 6 Description -------------------------------------------------------------------------------- Simplified A ::12::1:111 pos.-specific C 11:1:112:2: probability G :::61858:3: matrix T 999:914:949 bits 2.1 1.9 1.7 * * * * 1.4 *** * * * Relative 1.2 *** ** ** * Entropy 1.0 *** ** ** * (14.0 bits) 0.8 ****** ** * 0.6 ****** ** * 0.4 ********* * 0.2 *********** 0.0 ----------- Multilevel TTTGTGGGTTT consensus A T G sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------- chrX:166803118-166803588 296 3.34e-07 CTTGAAGCTC TTTGTGTGTTT CAGTGTGCAC chr1:134195091-134196873 1369 1.06e-06 AGAGCAGACG TTTGTGTGTCT GCTTTCACTT chr1:66921855-66922977 686 1.39e-06 TACACTGACC TTTATGTGTTT GAAAATACTT chrX:166805408-166805925 260 1.91e-06 AGACACATTC TTTGTGGCTTT GATTCAGTTT chr7:46352696-46354059 520 2.27e-06 TTTGGGGGCA TTTATGGGTCT TCCTATAAAC chr6:72216026-72218866 1829 3.54e-06 AACTTGTCAT TTTGTGGCTGT ACATTCAGAG chr1:43136409-43137115 695 4.59e-06 TTGTGCTGGT TTTGTCTGTTT G chr1:170655330-170656359 156 6.33e-06 TATGGCTTGG TTTGGGGGTGT CTGAGGCTTC chr1:134071265-134073689 716 1.60e-05 CCCCACCCAC TTTGTGTGTGA ATTAGCACGT chr1:134244847-134245778 71 2.00e-05 TATCGACTTT TCTATGTGTGT GGCTGGGAGG chr11:6481396-6482367 508 2.00e-05 CTATAGGTCA CTTGTGGGTCT TCTGCAGAGC chr8:122636472-122637392 814 2.62e-05 GGGACGGCCA TCTCTGGGTTT CCGCAGAGTG chr8:120265441-120266019 128 3.88e-05 CAGCCAAGCC TTTGTGGCATT TGGGCCCGTC chr1:134160156-134160953 19 4.56e-05 CACTGTGCCT TTTCTGAGTCT TTTCCCATGT chr10:80940445-80941162 102 6.03e-05 GAGTCAGAGT TTAGTCTGTTT CCAAAAGACC chr1:134067000-134067680 460 6.47e-05 AGAAGAAAGG TTTAGGGGTAT AGAGCTGGGG chr15:97811911-97812695 767 7.30e-05 TTGTGGTGCG TTTGTTCGTGT AACAAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:166803118-166803588 3.3e-07 295_[+6]_164 chr1:134195091-134196873 1.1e-06 1368_[+6]_403 chr1:66921855-66922977 1.4e-06 685_[+6]_426 chrX:166805408-166805925 1.9e-06 259_[+6]_247 chr7:46352696-46354059 2.3e-06 519_[+6]_833 chr6:72216026-72218866 3.5e-06 1828_[+6]_1001 chr1:43136409-43137115 4.6e-06 694_[+6]_1 chr1:170655330-170656359 6.3e-06 155_[+6]_863 chr1:134071265-134073689 1.6e-05 715_[+6]_1698 chr1:134244847-134245778 2e-05 70_[+6]_850 chr11:6481396-6482367 2e-05 507_[+6]_453 chr8:122636472-122637392 2.6e-05 813_[+6]_96 chr8:120265441-120266019 3.9e-05 127_[+6]_440 chr1:134160156-134160953 4.6e-05 18_[+6]_768 chr10:80940445-80941162 6e-05 101_[+6]_605 chr1:134067000-134067680 6.5e-05 459_[+6]_210 chr15:97811911-97812695 7.3e-05 766_[+6]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 6 width=11 seqs=17 chrX:166803118-166803588 ( 296) TTTGTGTGTTT 1 chr1:134195091-134196873 ( 1369) TTTGTGTGTCT 1 chr1:66921855-66922977 ( 686) TTTATGTGTTT 1 chrX:166805408-166805925 ( 260) TTTGTGGCTTT 1 chr7:46352696-46354059 ( 520) TTTATGGGTCT 1 chr6:72216026-72218866 ( 1829) TTTGTGGCTGT 1 chr1:43136409-43137115 ( 695) TTTGTCTGTTT 1 chr1:170655330-170656359 ( 156) TTTGGGGGTGT 1 chr1:134071265-134073689 ( 716) TTTGTGTGTGA 1 chr1:134244847-134245778 ( 71) TCTATGTGTGT 1 chr11:6481396-6482367 ( 508) CTTGTGGGTCT 1 chr8:122636472-122637392 ( 814) TCTCTGGGTTT 1 chr8:120265441-120266019 ( 128) TTTGTGGCATT 1 chr1:134160156-134160953 ( 19) TTTCTGAGTCT 1 chr10:80940445-80941162 ( 102) TTAGTCTGTTT 1 chr1:134067000-134067680 ( 460) TTTAGGGGTAT 1 chr15:97811911-97812695 ( 767) TTTGTTCGTGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 19316 bayes= 10.2184 E= 4.5e-001 -1073 -219 -1073 198 -1073 -119 -1073 189 -204 -1073 -1073 198 -4 -119 137 -1073 -1073 -1073 -109 189 -1073 -119 171 -202 -204 -219 91 79 -1073 -60 171 -1073 -204 -1073 -1073 198 -204 -19 23 79 -204 -1073 -1073 198 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 17 E= 4.5e-001 0.000000 0.058824 0.000000 0.941176 0.000000 0.117647 0.000000 0.882353 0.058824 0.000000 0.000000 0.941176 0.235294 0.117647 0.647059 0.000000 0.000000 0.000000 0.117647 0.882353 0.000000 0.117647 0.823529 0.058824 0.058824 0.058824 0.470588 0.411765 0.000000 0.176471 0.823529 0.000000 0.058824 0.000000 0.000000 0.941176 0.058824 0.235294 0.294118 0.411765 0.058824 0.000000 0.000000 0.941176 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 regular expression -------------------------------------------------------------------------------- TTT[GA]TG[GT]GT[TGC]T -------------------------------------------------------------------------------- Time 86.16 secs. ******************************************************************************** ******************************************************************************** MOTIF 7 width = 8 sites = 18 llr = 153 E-value = 4.0e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 7 Description -------------------------------------------------------------------------------- Simplified A :a::3:1: pos.-specific C a:2a::93 probability G ::8::8:: matrix T ::::72:7 bits 2.1 * 1.9 ** * 1.7 ** * * 1.4 ** * ** Relative 1.2 ******* Entropy 1.0 ******** (12.2 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CAGCTGCT consensus C A C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr8:120265441-120266019 368 1.66e-05 CTGGGGAGGT CAGCTGCT CCAGAAAGAC chr1:134244847-134245778 360 1.66e-05 AAGGCTGGCA CAGCTGCT GGGGTGGCCC chr1:170655330-170656359 452 1.66e-05 TCAGGAGCAT CAGCTGCT CCCAGCTGCT chr1:134195091-134196873 1220 1.66e-05 ACAGGAATGG CAGCTGCT GCAGCTTCCA chr1:134067000-134067680 270 1.66e-05 TGTCAAGAGG CAGCTGCT GTTTGTGGTC chr1:134071265-134073689 1837 1.66e-05 TCAGGCGCAC CAGCTGCT GGTGCTGCCC chr6:72216026-72218866 2499 3.35e-05 AGAGAAGAAA CAGCAGCT GAGAGGAGGC chr1:43136409-43137115 284 3.35e-05 GTGTGACTGG CAGCAGCT GTGTGGCTGG chr15:97811911-97812695 175 5.22e-05 CCCACACCCT CAGCTGCC ACTCTCTCCC chr11:6481396-6482367 390 5.22e-05 CGTAGACTCC CAGCTGCC AGCCAGCCTC chr1:66921855-66922977 403 7.00e-05 TCCATTTTTG CACCTGCT GTTACTTGAG chr7:46352696-46354059 250 1.05e-04 AGGCATTTCC CAGCAGCC ACTGCTTCAG chr6:128258964-128259829 678 1.23e-04 CCCACAAAGC CACCAGCT AACAGGCAGA chr8:122636472-122637392 616 1.43e-04 TGGGAATTAG CACCTGCC TGACCCGGCT chrX:166805408-166805925 236 1.59e-04 AGAGCCTCCC CAGCATCT AACGTAAGAC chrX:166803118-166803588 397 1.77e-04 TCTACACCGA CAGCTTCC AGGGCTGAGC chr1:134160156-134160953 77 2.29e-04 TCTGCTTCTA CACCTTCT GGCTGGGAGG chr10:80940445-80941162 374 3.62e-04 GCTGACTCCA CAGCAGAC AACACTCTAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr8:120265441-120266019 1.7e-05 367_[+7]_203 chr1:134244847-134245778 1.7e-05 359_[+7]_564 chr1:170655330-170656359 1.7e-05 451_[+7]_570 chr1:134195091-134196873 1.7e-05 1219_[+7]_555 chr1:134067000-134067680 1.7e-05 269_[+7]_403 chr1:134071265-134073689 1.7e-05 1836_[+7]_580 chr6:72216026-72218866 3.4e-05 2498_[+7]_334 chr1:43136409-43137115 3.4e-05 283_[+7]_415 chr15:97811911-97812695 5.2e-05 174_[+7]_602 chr11:6481396-6482367 5.2e-05 389_[+7]_574 chr1:66921855-66922977 7e-05 402_[+7]_712 chr7:46352696-46354059 0.0001 249_[+7]_1106 chr6:128258964-128259829 0.00012 677_[+7]_180 chr8:122636472-122637392 0.00014 615_[+7]_297 chrX:166805408-166805925 0.00016 235_[+7]_274 chrX:166803118-166803588 0.00018 396_[+7]_66 chr1:134160156-134160953 0.00023 76_[+7]_713 chr10:80940445-80941162 0.00036 373_[+7]_336 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 7 width=8 seqs=18 chr8:120265441-120266019 ( 368) CAGCTGCT 1 chr1:134244847-134245778 ( 360) CAGCTGCT 1 chr1:170655330-170656359 ( 452) CAGCTGCT 1 chr1:134195091-134196873 ( 1220) CAGCTGCT 1 chr1:134067000-134067680 ( 270) CAGCTGCT 1 chr1:134071265-134073689 ( 1837) CAGCTGCT 1 chr6:72216026-72218866 ( 2499) CAGCAGCT 1 chr1:43136409-43137115 ( 284) CAGCAGCT 1 chr15:97811911-97812695 ( 175) CAGCTGCC 1 chr11:6481396-6482367 ( 390) CAGCTGCC 1 chr1:66921855-66922977 ( 403) CACCTGCT 1 chr7:46352696-46354059 ( 250) CAGCAGCC 1 chr6:128258964-128259829 ( 678) CACCAGCT 1 chr8:122636472-122637392 ( 616) CACCTGCC 1 chrX:166805408-166805925 ( 236) CAGCATCT 1 chrX:166803118-166803588 ( 397) CAGCTTCC 1 chr1:134160156-134160953 ( 77) CACCTTCT 1 chr10:80940445-80941162 ( 374) CAGCAGAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 19370 bayes= 10.9189 E= 4.0e+001 -1081 190 -1081 -1081 205 -1081 -1081 -1081 -1081 -27 163 -1081 -1081 190 -1081 -1081 46 -1081 -1081 148 -1081 -1081 173 -52 -212 181 -1081 -1081 -1081 31 -1081 148 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 4.0e+001 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.222222 0.777778 0.000000 0.000000 1.000000 0.000000 0.000000 0.333333 0.000000 0.000000 0.666667 0.000000 0.000000 0.833333 0.166667 0.055556 0.944444 0.000000 0.000000 0.000000 0.333333 0.000000 0.666667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 regular expression -------------------------------------------------------------------------------- CA[GC]C[TA]GC[TC] -------------------------------------------------------------------------------- Time 99.56 secs. ******************************************************************************** ******************************************************************************** MOTIF 8 width = 15 sites = 17 llr = 181 E-value = 1.0e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 8 Description -------------------------------------------------------------------------------- Simplified A 122::::111:8121 pos.-specific C 45589:489491579 probability G 512:::5:::::5:: matrix T :2121a21:611:11 bits 2.1 * 1.9 * 1.7 ** * * 1.4 ** * * Relative 1.2 *** * ** * Entropy 1.0 *** * ** * (15.3 bits) 0.8 *** ***** ** 0.6 * *** ******** 0.4 ** ************ 0.2 *************** 0.0 --------------- Multilevel GCCCCTGCCTCACCC consensus CTA C C G sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- chr7:46352696-46354059 972 2.23e-08 CGACACTAGG GTCCCTGCCTCACCC GCACAGACTT chr6:72216026-72218866 2624 2.62e-07 ACTTTCCCAC CCACCTCCCCCACCC CCTTTCCCCA chr1:170655330-170656359 790 2.62e-07 CCTTTCTTTC CAGCCTGCCTCAGCC ATACCATCCA chr1:134160156-134160953 114 8.72e-07 TCTGCGTCCA GAGCCTGCCTCAGAC AAAAAAAAAA chr1:134071265-134073689 699 1.14e-06 CTATTGGAGA ACCCCTTCCCCACCC ACTTTGTGTG chrX:166803118-166803588 349 1.39e-06 CCCACCCCCA CCCCCTCTCCCACCC TGCAGTTGTT chr1:134067000-134067680 563 2.61e-06 AGTGATGCTG CCCCCTGCCCTACCC CCACCCGACA chr11:6481396-6482367 552 3.74e-06 ATCTGCTCTG GCTCCTCACTCACCC GGAGAGGCCC chr1:134244847-134245778 334 4.92e-06 CGGCTGCCCA GTCTCTGACCCAGCC AAAGGCTGGC chr6:128258964-128259829 792 6.31e-06 GGACAGTCAG CCATCTTCCTCAGAC TGCCAGGCCC chr10:80940445-80941162 619 6.31e-06 CTTAGTGAAG GTGCCTCTCTCAGAC CCTCTGCTCT chr8:120265441-120266019 83 8.81e-06 TCCCCCAGAG GCCCCTCCCCCCACC CAGCAAGGCT chr8:122636472-122637392 61 1.11e-05 TATGTTGCCA CTCCCTGCCTCAGTT TCCCAACCCT chr1:134195091-134196873 1543 1.11e-05 GTCGGGTGCA GAACCTGCCTCCCTC CAGGGGGAGA chr15:97811911-97812695 159 1.21e-05 CCAAGTTCCT GGGCCTCCCACACCC TCAGCTGCCA chr1:66921855-66922977 831 2.00e-05 ACTCAGAGAT ACATCTGCCTCTGCC TTTCAAGTGC chrX:166805408-166805925 403 1.26e-04 CAGGAGTGAA GCCCTTTCATCAGCA GCACATGCTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:46352696-46354059 2.2e-08 971_[+8]_377 chr6:72216026-72218866 2.6e-07 2623_[+8]_202 chr1:170655330-170656359 2.6e-07 789_[+8]_225 chr1:134160156-134160953 8.7e-07 113_[+8]_669 chr1:134071265-134073689 1.1e-06 698_[+8]_1711 chrX:166803118-166803588 1.4e-06 348_[+8]_107 chr1:134067000-134067680 2.6e-06 562_[+8]_103 chr11:6481396-6482367 3.7e-06 551_[+8]_405 chr1:134244847-134245778 4.9e-06 333_[+8]_583 chr6:128258964-128259829 6.3e-06 791_[+8]_59 chr10:80940445-80941162 6.3e-06 618_[+8]_84 chr8:120265441-120266019 8.8e-06 82_[+8]_481 chr8:122636472-122637392 1.1e-05 60_[+8]_845 chr1:134195091-134196873 1.1e-05 1542_[+8]_225 chr15:97811911-97812695 1.2e-05 158_[+8]_611 chr1:66921855-66922977 2e-05 830_[+8]_277 chrX:166805408-166805925 0.00013 402_[+8]_100 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 8 width=15 seqs=17 chr7:46352696-46354059 ( 972) GTCCCTGCCTCACCC 1 chr6:72216026-72218866 ( 2624) CCACCTCCCCCACCC 1 chr1:170655330-170656359 ( 790) CAGCCTGCCTCAGCC 1 chr1:134160156-134160953 ( 114) GAGCCTGCCTCAGAC 1 chr1:134071265-134073689 ( 699) ACCCCTTCCCCACCC 1 chrX:166803118-166803588 ( 349) CCCCCTCTCCCACCC 1 chr1:134067000-134067680 ( 563) CCCCCTGCCCTACCC 1 chr11:6481396-6482367 ( 552) GCTCCTCACTCACCC 1 chr1:134244847-134245778 ( 334) GTCTCTGACCCAGCC 1 chr6:128258964-128259829 ( 792) CCATCTTCCTCAGAC 1 chr10:80940445-80941162 ( 619) GTGCCTCTCTCAGAC 1 chr8:120265441-120266019 ( 83) GCCCCTCCCCCCACC 1 chr8:122636472-122637392 ( 61) CTCCCTGCCTCAGTT 1 chr1:134195091-134196873 ( 1543) GAACCTGCCTCCCTC 1 chr15:97811911-97812695 ( 159) GGGCCTCCCACACCC 1 chr1:66921855-66922977 ( 831) ACATCTGCCTCTGCC 1 chrX:166805408-166805925 ( 403) GCCCTTTCATCAGCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 19244 bayes= 10.213 E= 1.0e+001 -104 39 108 -1073 -46 98 -209 -2 -4 81 -9 -202 -1073 162 -1073 -43 -1073 181 -1073 -202 -1073 -1073 -1073 207 -1073 39 91 -43 -104 151 -1073 -102 -204 181 -1073 -1073 -204 39 -1073 130 -1073 181 -1073 -202 177 -119 -1073 -202 -204 81 91 -1073 -46 139 -1073 -102 -204 172 -1073 -202 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 17 E= 1.0e+001 0.117647 0.352941 0.529412 0.000000 0.176471 0.529412 0.058824 0.235294 0.235294 0.470588 0.235294 0.058824 0.000000 0.823529 0.000000 0.176471 0.000000 0.941176 0.000000 0.058824 0.000000 0.000000 0.000000 1.000000 0.000000 0.352941 0.470588 0.176471 0.117647 0.764706 0.000000 0.117647 0.058824 0.941176 0.000000 0.000000 0.058824 0.352941 0.000000 0.588235 0.000000 0.941176 0.000000 0.058824 0.823529 0.117647 0.000000 0.058824 0.058824 0.470588 0.470588 0.000000 0.176471 0.705882 0.000000 0.117647 0.058824 0.882353 0.000000 0.058824 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 regular expression -------------------------------------------------------------------------------- [GC][CT][CAG]CCT[GC]CC[TC]CA[CG]CC -------------------------------------------------------------------------------- Time 112.47 secs. ******************************************************************************** ******************************************************************************** MOTIF 9 width = 15 sites = 12 llr = 151 E-value = 2.0e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 9 Description -------------------------------------------------------------------------------- Simplified A 463187887978a93 pos.-specific C :1::::::::3:::: probability G 63:7:31331:1:18 matrix T ::832:1:1:11::: bits 2.1 * 1.9 * 1.7 * ** 1.4 * * ** Relative 1.2 * * ** * **** Entropy 1.0 * * **** * **** (18.2 bits) 0.8 *************** 0.6 *************** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel GATGAAAAAAAAAAG consensus AGAT G GG C A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- chr1:66921855-66922977 621 4.38e-09 GTACACCACA GATTAAAAAAAAAAG AGTCCTTTAT chr11:6481396-6482367 198 6.97e-09 CATATTTGTT GAAGAAAAAAAAAAG CTGAAACTTC chr1:134195091-134196873 56 1.01e-08 TCCTGACTCT AATGAAAAGAAAAAG AGGCTGTATA chr1:134160156-134160953 144 2.16e-07 AAAAAAAAAA AAAAAAAAAAAAAAG ACTTCTCTTA chr6:128258964-128259829 202 5.41e-07 CCTTCCACCA AAAGAGAGAAAAAAA GGGGGGAAGA chr6:72216026-72218866 405 7.72e-07 ACAGCTTTGA GCTTTAAAAAAAAAG TTGTCAATAT chr8:122636472-122637392 108 1.05e-06 CATCATAAGT AGTTAGAAAGAAAAG CCCCAAGCTG chr1:43136409-43137115 2 1.34e-06 A GGTGAATGAACAAAG CCAAAAAAAG chrX:166805408-166805925 1 2.56e-06 . GGTGAAAAGATTAAG GAATGAGAGC chr1:134071265-134073689 579 2.74e-06 GCAAAGAAAT AATGTGGAAACAAAG CCCGAGAGCC chr7:46352696-46354059 425 3.13e-06 CTGTCAGGTG GGTGAAAGGAAGAAA CATAAACGTG chr15:97811911-97812695 572 6.84e-06 GAAGGGAAAG GATGAGAATACAAGA GAGGGGGGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:66921855-66922977 4.4e-09 620_[+9]_487 chr11:6481396-6482367 7e-09 197_[+9]_759 chr1:134195091-134196873 1e-08 55_[+9]_1712 chr1:134160156-134160953 2.2e-07 143_[+9]_639 chr6:128258964-128259829 5.4e-07 201_[+9]_649 chr6:72216026-72218866 7.7e-07 404_[+9]_2421 chr8:122636472-122637392 1.1e-06 107_[+9]_798 chr1:43136409-43137115 1.3e-06 1_[+9]_690 chrX:166805408-166805925 2.6e-06 [+9]_502 chr1:134071265-134073689 2.7e-06 578_[+9]_1831 chr7:46352696-46354059 3.1e-06 424_[+9]_924 chr15:97811911-97812695 6.8e-06 571_[+9]_198 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 9 width=15 seqs=12 chr1:66921855-66922977 ( 621) GATTAAAAAAAAAAG 1 chr11:6481396-6482367 ( 198) GAAGAAAAAAAAAAG 1 chr1:134195091-134196873 ( 56) AATGAAAAGAAAAAG 1 chr1:134160156-134160953 ( 144) AAAAAAAAAAAAAAG 1 chr6:128258964-128259829 ( 202) AAAGAGAGAAAAAAA 1 chr6:72216026-72218866 ( 405) GCTTTAAAAAAAAAG 1 chr8:122636472-122637392 ( 108) AGTTAGAAAGAAAAG 1 chr1:43136409-43137115 ( 2) GGTGAATGAACAAAG 1 chrX:166805408-166805925 ( 1) GGTGAAAAGATTAAG 1 chr1:134071265-134073689 ( 579) AATGTGGAAACAAAG 1 chr7:46352696-46354059 ( 425) GGTGAAAGGAAGAAA 1 chr15:97811911-97812695 ( 572) GATGAGAATACAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 19244 bayes= 11.094 E= 2.0e+001 78 -1023 122 -1023 127 -169 41 -1023 5 -1023 -1023 165 -154 -1023 141 7 178 -1023 -1023 -52 146 -1023 41 -1023 178 -1023 -159 -151 163 -1023 -1 -1023 146 -1023 -1 -151 192 -1023 -159 -1023 146 -10 -1023 -151 178 -1023 -159 -151 205 -1023 -1023 -1023 192 -1023 -159 -1023 5 -1023 158 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 12 E= 2.0e+001 0.416667 0.000000 0.583333 0.000000 0.583333 0.083333 0.333333 0.000000 0.250000 0.000000 0.000000 0.750000 0.083333 0.000000 0.666667 0.250000 0.833333 0.000000 0.000000 0.166667 0.666667 0.000000 0.333333 0.000000 0.833333 0.000000 0.083333 0.083333 0.750000 0.000000 0.250000 0.000000 0.666667 0.000000 0.250000 0.083333 0.916667 0.000000 0.083333 0.000000 0.666667 0.250000 0.000000 0.083333 0.833333 0.000000 0.083333 0.083333 1.000000 0.000000 0.000000 0.000000 0.916667 0.000000 0.083333 0.000000 0.250000 0.000000 0.750000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 regular expression -------------------------------------------------------------------------------- [GA][AG][TA][GT]A[AG]A[AG][AG]A[AC]AAA[GA] -------------------------------------------------------------------------------- Time 125.22 secs. ******************************************************************************** ******************************************************************************** MOTIF 10 width = 25 sites = 17 llr = 218 E-value = 9.4e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 10 Description -------------------------------------------------------------------------------- Simplified A :1822::1:4422::4221:::1:5 pos.-specific C 97:1284:75461:211227::262 probability G ::1642:23:2116625552:7842 matrix T 12212:68:21154242121a3::: bits 2.1 * 1.9 * 1.7 * 1.4 * * Relative 1.2 * ** Entropy 1.0 * * **** * **** (18.5 bits) 0.8 *** **** * ***** 0.6 *** **** ** ****** 0.4 **** ***** **** ****** 0.2 **** ******************** 0.0 ------------------------- Multilevel CCAGGCTTCCCCTGGTGGGCTGGCA consensus CGC GAA ATTATC T GC sequence T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------- chrX:166803118-166803588 155 6.37e-13 CTTTTCAATT CCAGCCTTCACCTGTTGGGCTGGCA GTGCCTGTGT chr11:6481396-6482367 575 2.88e-09 CCGGAGAGGC CCAGTCCTCCCCTTGTCCACTGGCA ACCCCCATTT chr1:134244847-134245778 288 3.84e-09 GCTCTTCCAC CCAGTCTACAACAGGAGGGGTGGCA GCTGTTTCCC chr1:43136409-43137115 149 6.29e-08 AGCTGTGTAG CTAGGCTGCAGCTGTGTGGCTGGGC TGCAGCTGTG chr10:80940445-80941162 22 9.79e-08 GAGCATGCCA CCAGGCTTCCTTCTGAGGGCTTGGG AGAGGCAGGA chr6:72216026-72218866 2404 1.09e-07 GGAAAGCCGG CCAGAGCTCACCTGGGAGGCTTCCC AGCTAATGAT chr1:134071265-134073689 603 1.84e-07 GCCCGAGAGC CCAGGCTTGCCCTTCTCAGCTTCCC CATTCATTTG chr15:97811911-97812695 633 2.03e-07 TCACAGAGCA CCACAGCTCTCCATGGGGTCTGGCA CCAACAGGGA chr7:46352696-46354059 920 1.25e-06 AAAGGAAGGG CATGACTTCCAGTGCAACTCTGGGA GAAAGTGAGT chr1:134067000-134067680 78 1.25e-06 TGGTCAAGGT CCTTCCTTGCAGGGGTGGGGTGGGG GAGATTTGCC chr1:134195091-134196873 1625 1.36e-06 AAGGCAAATC CCAGCCTGGCAAGGTTGAGGTGCCA AGGGAGTGCC chr6:128258964-128259829 20 2.51e-06 AGAGAGATGC CAAAGCCTGTCAAGGAGCCTTGGCA AGAAGAAACC chr1:170655330-170656359 88 2.51e-06 GGTATAGGAG TCAGCCTTCCATCTGTTGGCTTACG AACAGCCCAT chr1:134160156-134160953 512 2.51e-06 GGTCTCACAC CCTATCCTCCCCTTCATTCCTTGGC AACCAAACTC chr8:120265441-120266019 339 4.42e-06 TGGGAGGAAC CCACTGTGCAGCTGGCTCACTGGGG AGGTCAGCTG chr8:122636472-122637392 332 6.95e-06 AGTGTCCTAA CTGAGGCTGTGCAGGTGACCTGGCA GCAATCCAGA chr1:66921855-66922977 171 7.86e-06 TTTTATGTGC TTATGCTTCAAATGTAATTTTGGGA CAAAAAAAGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:166803118-166803588 6.4e-13 154_[+10]_291 chr11:6481396-6482367 2.9e-09 574_[+10]_372 chr1:134244847-134245778 3.8e-09 287_[+10]_619 chr1:43136409-43137115 6.3e-08 148_[+10]_533 chr10:80940445-80941162 9.8e-08 21_[+10]_671 chr6:72216026-72218866 1.1e-07 2403_[+10]_412 chr1:134071265-134073689 1.8e-07 602_[+10]_1797 chr15:97811911-97812695 2e-07 632_[+10]_127 chr7:46352696-46354059 1.2e-06 919_[+10]_419 chr1:134067000-134067680 1.2e-06 77_[+10]_578 chr1:134195091-134196873 1.4e-06 1624_[+10]_133 chr6:128258964-128259829 2.5e-06 19_[+10]_821 chr1:170655330-170656359 2.5e-06 87_[+10]_917 chr1:134160156-134160953 2.5e-06 511_[+10]_261 chr8:120265441-120266019 4.4e-06 338_[+10]_215 chr8:122636472-122637392 7e-06 331_[+10]_564 chr1:66921855-66922977 7.9e-06 170_[+10]_927 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 10 width=25 seqs=17 chrX:166803118-166803588 ( 155) CCAGCCTTCACCTGTTGGGCTGGCA 1 chr11:6481396-6482367 ( 575) CCAGTCCTCCCCTTGTCCACTGGCA 1 chr1:134244847-134245778 ( 288) CCAGTCTACAACAGGAGGGGTGGCA 1 chr1:43136409-43137115 ( 149) CTAGGCTGCAGCTGTGTGGCTGGGC 1 chr10:80940445-80941162 ( 22) CCAGGCTTCCTTCTGAGGGCTTGGG 1 chr6:72216026-72218866 ( 2404) CCAGAGCTCACCTGGGAGGCTTCCC 1 chr1:134071265-134073689 ( 603) CCAGGCTTGCCCTTCTCAGCTTCCC 1 chr15:97811911-97812695 ( 633) CCACAGCTCTCCATGGGGTCTGGCA 1 chr7:46352696-46354059 ( 920) CATGACTTCCAGTGCAACTCTGGGA 1 chr1:134067000-134067680 ( 78) CCTTCCTTGCAGGGGTGGGGTGGGG 1 chr1:134195091-134196873 ( 1625) CCAGCCTGGCAAGGTTGAGGTGCCA 1 chr6:128258964-128259829 ( 20) CAAAGCCTGTCAAGGAGCCTTGGCA 1 chr1:170655330-170656359 ( 88) TCAGCCTTCCATCTGTTGGCTTACG 1 chr1:134160156-134160953 ( 512) CCTATCCTCCCCTTCATTCCTTGGC 1 chr8:120265441-120266019 ( 339) CCACTGTGCAGCTGGCTCACTGGGG 1 chr8:122636472-122637392 ( 332) CTGAGGCTGTGCAGGTGACCTGGCA 1 chr1:66921855-66922977 ( 171) TTATGCTTCAAATGTAATTTTGGGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 25 n= 19064 bayes= 10.1994 E= 9.4e+001 -1073 172 -1073 -102 -104 139 -1073 -43 166 -1073 -209 -43 -46 -119 123 -102 -46 -19 49 -2 -1073 151 -9 -1073 -1073 39 -1073 144 -204 -1073 -51 168 -1073 139 23 -1073 54 81 -1073 -43 54 62 -51 -202 -46 113 -109 -102 -4 -119 -109 115 -1073 -1073 137 57 -1073 -60 123 -2 54 -219 -51 79 -46 -119 91 -2 -46 -19 91 -102 -104 -60 108 -43 -1073 139 -51 -102 -1073 -1073 -1073 207 -1073 -1073 149 30 -204 -60 161 -1073 -1073 113 71 -1073 113 -19 -9 -1073 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 25 nsites= 17 E= 9.4e+001 0.000000 0.882353 0.000000 0.117647 0.117647 0.705882 0.000000 0.176471 0.764706 0.000000 0.058824 0.176471 0.176471 0.117647 0.588235 0.117647 0.176471 0.235294 0.352941 0.235294 0.000000 0.764706 0.235294 0.000000 0.000000 0.352941 0.000000 0.647059 0.058824 0.000000 0.176471 0.764706 0.000000 0.705882 0.294118 0.000000 0.352941 0.470588 0.000000 0.176471 0.352941 0.411765 0.176471 0.058824 0.176471 0.588235 0.117647 0.117647 0.235294 0.117647 0.117647 0.529412 0.000000 0.000000 0.647059 0.352941 0.000000 0.176471 0.588235 0.235294 0.352941 0.058824 0.176471 0.411765 0.176471 0.117647 0.470588 0.235294 0.176471 0.235294 0.470588 0.117647 0.117647 0.176471 0.529412 0.176471 0.000000 0.705882 0.176471 0.117647 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.705882 0.294118 0.058824 0.176471 0.764706 0.000000 0.000000 0.588235 0.411765 0.000000 0.529412 0.235294 0.235294 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 regular expression -------------------------------------------------------------------------------- CCAG[GCT][CG][TC]T[CG][CA][CA]C[TA][GT][GT][TA][GT][GC]GCT[GT]G[CG][ACG] -------------------------------------------------------------------------------- Time 138.11 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 2.43e-13 21_[+10(9.79e-08)]_55_[+6(6.03e-05)]_170_[+5(3.25e-05)]_184_[+5(4.67e-07)]_46_[+1(2.08e-05)]_14_[+1(7.53e-10)]_12_[+8(6.31e-06)]_3_[+2(5.00e-06)]_19_[+10(9.58e-05)]_22 chr11:6481396-6482367 3.29e-17 197_[+9(6.97e-09)]_69_[+1(4.10e-06)]_40_[+2(1.34e-06)]_28_[+7(5.22e-05)]_18_[+3(1.66e-05)]_34_[+3(1.66e-05)]_42_[+6(2.00e-05)]_33_[+8(3.74e-06)]_8_[+10(2.88e-09)]_158_[+1(1.11e-07)]_189 chr15:97811911-97812695 4.28e-15 106_[+1(1.31e-07)]_27_[+8(1.21e-05)]_1_[+7(5.22e-05)]_151_[+3(1.66e-05)]_28_[+7(5.22e-05)]_105_[+3(5.29e-05)]_1_[+1(8.11e-05)]_2_[+5(1.01e-07)]_38_[+9(6.84e-06)]_46_[+10(2.03e-07)]_52_[+2(2.50e-06)]_42_[+6(7.30e-05)]_7 chr1:43136409-43137115 4.51e-11 1_[+9(1.34e-06)]_5_[+1(5.81e-06)]_90_[+3(6.84e-05)]_4_[+10(6.29e-08)]_1_[+3(6.84e-05)]_4_[+10(1.06e-06)]_1_[+3(6.84e-05)]_10_[+3(6.84e-05)]_10_[+3(6.84e-05)]_11_[+3(6.84e-05)]_8_[+7(3.35e-05)]_12_[+3(6.84e-05)]_11_[+3(6.84e-05)]_3_[+10(5.68e-05)]_1_[+3(6.84e-05)]_11_[+3(6.84e-05)]_8_[+7(3.35e-05)]_13_[+3(6.84e-05)]_28_[+3(6.84e-05)]_10_[+3(6.84e-05)]_12_[+5(8.75e-06)]_2_[+3(6.84e-05)]_1_[+2(6.85e-06)]_6_[+10(6.29e-08)]_133_[+6(4.59e-06)]_1 chr1:134071265-134073689 1.90e-12 24_[+10(3.73e-05)]_5_[+4(8.20e-06)]_118_[+3(1.66e-05)]_89_[+3(1.66e-05)]_82_[+1(3.65e-07)]_109_[+1(7.37e-05)]_36_[+9(2.74e-06)]_9_[+10(1.84e-07)]_71_[+8(1.14e-06)]_2_[+6(1.60e-05)]_549_[+10(9.02e-05)]_177_[+4(2.06e-08)]_29_[+8(4.09e-05)]_85_[+8(4.09e-05)]_40_[+2(8.50e-06)]_136_[+7(1.66e-05)]_580 chr1:134160156-134160953 5.46e-14 18_[+6(4.56e-05)]_55_[+5(5.91e-06)]_14_[+8(8.72e-07)]_[+9(6.55e-07)]_[+9(2.16e-07)]_233_[+2(3.29e-06)]_17_[+3(1.66e-05)]_80_[+10(2.51e-06)]_25_[+1(7.84e-08)]_211 chr1:134067000-134067680 2.21e-18 1_[+5(5.44e-05)]_61_[+10(1.25e-06)]_167_[+7(1.66e-05)]_86_[+2(9.79e-06)]_34_[+1(1.11e-08)]_22_[+6(6.47e-05)]_2_[+5(2.11e-07)]_33_[+7(5.22e-05)]_34_[+8(2.61e-06)]_13_[+4(8.29e-10)]_2_[+4(8.29e-10)]_12_[+4(2.74e-09)]_4 chr1:134195091-134196873 1.14e-19 55_[+9(1.01e-08)]_71_[+7(1.66e-05)]_44_[+8(6.15e-05)]_473_[+4(1.12e-12)]_11_[+2(3.59e-06)]_202_[+1(7.90e-07)]_46_[+10(4.21e-05)]_190_[+7(1.66e-05)]_141_[+6(1.06e-06)]_39_[+5(8.22e-06)]_109_[+8(1.11e-05)]_67_[+10(1.36e-06)]_133 chr1:170655330-170656359 3.54e-17 87_[+10(2.51e-06)]_43_[+6(6.33e-06)]_135_[+8(2.00e-05)]_8_[+7(3.35e-05)]_4_[+5(7.24e-06)]_5_[+7(3.35e-05)]_31_[+3(1.66e-05)]_51_[+2(8.98e-07)]_4_[+2(3.22e-07)]_51_[+7(7.00e-05)]_16_[+1(3.65e-07)]_6_[+4(1.09e-09)]_124_[+7(1.66e-05)]_39_[+8(2.62e-07)]_162_[+2(2.59e-05)]_48 chr1:66921855-66922977 1.71e-23 170_[+10(7.86e-06)]_54_[+9(7.38e-05)]_79_[+3(5.29e-05)]_27_[+2(2.59e-08)]_9_[+7(7.00e-05)]_181_[+9(2.52e-05)]_14_[+9(4.38e-09)]_50_[+6(1.39e-06)]_25_[+1(3.80e-14)]_1_[+9(6.72e-05)]_3_[+6(5.50e-05)]_54_[+8(2.00e-05)]_30_[+4(1.71e-08)]_45_[+9(5.24e-05)]_163 chr1:134244847-134245778 2.55e-18 70_[+6(2.00e-05)]_91_[+4(7.96e-08)]_91_[+10(3.84e-09)]_21_[+8(4.92e-06)]_11_[+7(1.66e-05)]_21_[+1(2.50e-07)]_34_[+2(9.49e-05)]_49_[+5(1.16e-07)]_39_[+8(9.92e-05)]_35_[+3(1.66e-05)]_69_[+2(3.64e-07)]_224 chr6:128258964-128259829 2.78e-11 19_[+10(2.51e-06)]_34_[+2(6.85e-06)]_108_[+9(5.41e-07)]_7_[+1(2.08e-08)]_99_[+1(7.38e-07)]_80_[+5(7.24e-06)]_110_[+1(8.64e-05)]_189_[+8(6.31e-06)]_59 chr6:72216026-72218866 1.58e-23 84_[+4(6.03e-11)]_17_[+8(7.25e-05)]_88_[+6(2.40e-05)]_165_[+9(7.72e-07)]_104_[+1(7.16e-09)]_157_[+7(1.66e-05)]_234_[+1(2.70e-07)]_45_[+2(1.31e-08)]_40_[+3(5.29e-05)]_37_[+10(2.89e-05)]_176_[+5(3.68e-09)]_495_[+6(3.54e-06)]_265_[+1(8.91e-05)]_274_[+10(1.09e-07)]_70_[+7(3.35e-05)]_117_[+8(2.62e-07)]_202 chr7:46352696-46354059 5.82e-15 424_[+9(3.13e-06)]_80_[+6(2.27e-06)]_52_[+2(7.95e-06)]_63_[+5(7.38e-08)]_137_[+1(5.99e-08)]_82_[+10(1.25e-06)]_27_[+8(2.23e-08)]_213_[+10(8.35e-06)]_139 chr8:122636472-122637392 6.43e-12 60_[+8(1.11e-05)]_32_[+9(1.05e-06)]_106_[+1(4.54e-07)]_7_[+5(7.65e-07)]_56_[+10(6.95e-06)]_12_[+5(7.38e-08)]_244_[+3(8.57e-05)]_10_[+2(1.04e-05)]_153_[+6(2.62e-05)]_96 chr8:120265441-120266019 6.79e-20 29_[+2(5.47e-06)]_14_[+2(1.25e-06)]_9_[+8(8.81e-06)]_30_[+6(3.88e-05)]_100_[+1(4.99e-08)]_24_[+3(6.84e-05)]_7_[+5(2.20e-06)]_21_[+10(4.42e-06)]_4_[+7(1.66e-05)]_9_[+4(6.20e-05)]_24_[+4(2.06e-08)]_8_[+4(7.61e-07)]_40_[+4(6.12e-13)]_[+4(1.54e-09)]_2 chrX:166805408-166805925 2.67e-06 [+9(2.56e-06)]_244_[+6(1.91e-06)]_10_[+3(1.66e-05)]_11_[+2(1.52e-05)]_52_[+3(6.84e-05)]_143 chrX:166803118-166803588 2.68e-27 11_[+1(8.00e-09)]_41_[+5(4.14e-06)]_62_[+10(6.37e-13)]_34_[+2(4.89e-07)]_31_[+3(1.66e-05)]_28_[+6(3.34e-07)]_17_[+2(2.72e-05)]_10_[+8(1.39e-06)]_63_[+4(4.32e-08)]_20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 10 reached. ******************************************************************************** CPU: pongo ********************************************************************************