******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** 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 ******************************************************************************** PRIMARY SEQUENCES= ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/CHD2.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr16:90089012-90089032 1.0000 20 chr10:135186908-13518692 1.0000 20 chr16:30412020-30412040 1.0000 20 chr5:139493632-139493652 1.0000 20 chr9:123605270-123605290 1.0000 20 chr12:49351331-49351351 1.0000 20 chr14:100705139-10070515 1.0000 20 chr17:40118668-40118688 1.0000 20 chr11:13484844-13484864 1.0000 20 chr10:51565138-51565158 1.0000 20 chr15:75287783-75287803 1.0000 20 chr1:232941096-232941116 1.0000 20 chr1:231473988-231474008 1.0000 20 chr1:207226318-207226338 1.0000 20 chr6:108279387-108279407 1.0000 20 chr4:144434618-144434638 1.0000 20 chr3:160117021-160117041 1.0000 20 chr6:151711720-151711740 1.0000 20 chr10:75118560-75118580 1.0000 20 chr17:55162364-55162384 1.0000 20 chr19:56905032-56905052 1.0000 20 chr20:25604741-25604761 1.0000 20 chr16:84150476-84150496 1.0000 20 chr1:207224375-207224395 1.0000 20 chr6:47445480-47445500 1.0000 20 chr16:87985101-87985121 1.0000 20 chr8:67940837-67940857 1.0000 20 chr4:140374866-140374886 1.0000 20 chr3:186501970-186501990 1.0000 20 chr11:66035221-66035241 1.0000 20 chr4:57843885-57843905 1.0000 20 chrX:46433642-46433662 1.0000 20 chr19:37341719-37341739 1.0000 20 chrX:70474089-70474109 1.0000 20 chr17:27717296-27717316 1.0000 20 chr12:27091365-27091385 1.0000 20 chr2:170683913-170683933 1.0000 20 chrX:63615397-63615417 1.0000 20 chr9:32550933-32550953 1.0000 20 chr7:134671241-134671261 1.0000 20 chr12:12849183-12849203 1.0000 20 chr19:9434957-9434977 1.0000 20 chr15:48470540-48470560 1.0000 20 chr17:4167281-4167301 1.0000 20 chrX:118740435-118740455 1.0000 20 chr8:42249127-42249147 1.0000 20 chr2:176032893-176032913 1.0000 20 chr11:22851518-22851538 1.0000 20 chr2:74406010-74406030 1.0000 20 chr2:225450249-225450269 1.0000 20 chr6:28863423-28863443 1.0000 20 chr10:15139072-15139092 1.0000 20 chr12:80328964-80328984 1.0000 20 chr15:69452885-69452905 1.0000 20 chr17:53046074-53046094 1.0000 20 chr5:169010740-169010760 1.0000 20 chr5:176449638-176449658 1.0000 20 chr17:38231929-38231949 1.0000 20 chr11:11863461-11863481 1.0000 20 chr5:138940752-138940772 1.0000 20 chr4:15683249-15683269 1.0000 20 chr7:158497502-158497522 1.0000 20 chr3:150421747-150421767 1.0000 20 chr10:7830041-7830061 1.0000 20 chr15:73925760-73925780 1.0000 20 chr5:132387640-132387660 1.0000 20 chr2:219773799-219773819 1.0000 20 chr1:53308484-53308504 1.0000 20 chr2:136743196-136743216 1.0000 20 chr17:34900656-34900676 1.0000 20 chr14:74318619-74318639 1.0000 20 chr5:56469849-56469869 1.0000 20 chr6:43395544-43395564 1.0000 20 chr1:11159894-11159914 1.0000 20 chr20:3748599-3748619 1.0000 20 chr11:107880031-10788005 1.0000 20 chr16:14165148-14165168 1.0000 20 chr3:49131531-49131551 1.0000 20 chr4:26322592-26322612 1.0000 20 chr19:34663269-34663289 1.0000 20 chr15:66649027-66649047 1.0000 20 chr11:95976655-95976675 1.0000 20 chr19:36980469-36980489 1.0000 20 chr15:85197541-85197561 1.0000 20 chr19:18263835-18263855 1.0000 20 chrX:117480032-117480052 1.0000 20 chr19:4124168-4124188 1.0000 20 chr21:47673760-47673780 1.0000 20 chr4:25378831-25378851 1.0000 20 chr15:56657585-56657605 1.0000 20 chr1:6296072-6296092 1.0000 20 chr5:39074498-39074518 1.0000 20 chr6:44355253-44355273 1.0000 20 chr17:7760894-7760914 1.0000 20 chr6:149638637-149638657 1.0000 20 chr3:127771016-127771036 1.0000 20 chr17:78428583-78428603 1.0000 20 chr16:188663-188683 1.0000 20 chr6:71122931-71122951 1.0000 20 chr3:194304671-194304691 1.0000 20 chr17:2415237-2415257 1.0000 20 chr12:57940997-57941017 1.0000 20 chr20:3767430-3767450 1.0000 20 chr10:112064723-11206474 1.0000 20 chr6:116601120-116601140 1.0000 20 chr9:98637864-98637884 1.0000 20 chr19:33182659-33182679 1.0000 20 chr4:26321229-26321249 1.0000 20 chr17:8079750-8079770 1.0000 20 chr2:85843338-85843358 1.0000 20 chr1:104068529-104068549 1.0000 20 chrX:153059810-153059830 1.0000 20 chr6:146285590-146285610 1.0000 20 chr12:125473665-12547368 1.0000 20 chr2:25194950-25194970 1.0000 20 chrX:30907546-30907566 1.0000 20 chr19:51228319-51228339 1.0000 20 chr9:26956309-26956329 1.0000 20 chr17:37607563-37607583 1.0000 20 chr20:30539788-30539808 1.0000 20 chr1:167905781-167905801 1.0000 20 chr4:68411203-68411223 1.0000 20 chr1:59165731-59165751 1.0000 20 chrX:48555125-48555145 1.0000 20 chr5:65439993-65440013 1.0000 20 chr11:75294389-75294409 1.0000 20 chr3:169482931-169482951 1.0000 20 chr11:85376194-85376214 1.0000 20 chr9:72873892-72873912 1.0000 20 chr9:88555928-88555948 1.0000 20 chr1:26146629-26146649 1.0000 20 chr10:102820524-10282054 1.0000 20 chr22:50689744-50689764 1.0000 20 chr12:11324241-11324261 1.0000 20 chr8:104311096-104311116 1.0000 20 chr2:201754479-201754499 1.0000 20 chr16:4524673-4524693 1.0000 20 chr17:73401752-73401772 1.0000 20 chr10:101989364-10198938 1.0000 20 chr1:70820410-70820430 1.0000 20 chr2:120517266-120517286 1.0000 20 chr1:24306865-24306885 1.0000 20 chr6:97731151-97731171 1.0000 20 chr3:44727106-44727126 1.0000 20 chr4:54930791-54930811 1.0000 20 chr4:103749212-103749232 1.0000 20 chr13:21750738-21750758 1.0000 20 chr8:63951405-63951425 1.0000 20 chr10:124768343-12476836 1.0000 20 chr2:163200418-163200438 1.0000 20 chr6:3849608-3849628 1.0000 20 chr8:144911537-144911557 1.0000 20 chr6:13574648-13574668 1.0000 20 chr17:4843572-4843592 1.0000 20 chr7:100303636-100303656 1.0000 20 chrX:153607436-153607456 1.0000 20 chr12:29534165-29534185 1.0000 20 chr16:639822-639842 1.0000 20 chr16:31191986-31192006 1.0000 20 chr19:1095519-1095539 1.0000 20 chr10:118608986-11860900 1.0000 20 chr1:1447163-1447183 1.0000 20 chr17:79527832-79527852 1.0000 20 chrX:151999543-151999563 1.0000 20 chr15:22833400-22833420 1.0000 20 chr3:17784316-17784336 1.0000 20 chr5:149840993-149841013 1.0000 20 chr11:93474706-93474726 1.0000 20 chr11:70049341-70049361 1.0000 20 chr6:52285002-52285022 1.0000 20 chr13:115047231-11504725 1.0000 20 chr12:132569508-13256952 1.0000 20 chr8:52811822-52811842 1.0000 20 chr17:7343418-7343438 1.0000 20 chr3:195270139-195270159 1.0000 20 chr1:100315591-100315611 1.0000 20 chrX:118987026-118987046 1.0000 20 chr4:17812532-17812552 1.0000 20 chr8:38089079-38089099 1.0000 20 chr17:47866571-47866591 1.0000 20 chr5:159846219-159846239 1.0000 20 chr6:116575304-116575324 1.0000 20 chr1:116961206-116961226 1.0000 20 chrX:48660166-48660186 1.0000 20 chr19:5828280-5828300 1.0000 20 chr3:137893774-137893794 1.0000 20 chr3:169684543-169684563 1.0000 20 chr10:76871163-76871183 1.0000 20 chr1:41157301-41157321 1.0000 20 chr10:97803241-97803261 1.0000 20 chr16:83841571-83841591 1.0000 20 chr3:126423014-126423034 1.0000 20 chr5:127418786-127418806 1.0000 20 chr6:153323892-153323912 1.0000 20 chr5:180673526-180673546 1.0000 20 chr1:111991947-111991967 1.0000 20 chrX:13752738-13752758 1.0000 20 chr2:160568963-160568983 1.0000 20 chr15:57210811-57210831 1.0000 20 chr17:34901403-34901423 1.0000 20 chr10:101380763-10138078 1.0000 20 chr12:111051898-11105191 1.0000 20 chr1:78148372-78148392 1.0000 20 chr16:4475812-4475832 1.0000 20 chr20:30467939-30467959 1.0000 20 chr7:106810280-106810300 1.0000 20 chr5:175788807-175788827 1.0000 20 chr10:75385800-75385820 1.0000 20 chr16:87526664-87526684 1.0000 20 chr2:27632578-27632598 1.0000 20 chr15:76603820-76603840 1.0000 20 chr16:68119162-68119182 1.0000 20 chr13:31736566-31736586 1.0000 20 chr6:7313589-7313609 1.0000 20 chr12:72057680-72057700 1.0000 20 chr16:75019150-75019170 1.0000 20 chr19:12273867-12273887 1.0000 20 chr20:17663007-17663027 1.0000 20 chr17:34891335-34891355 1.0000 20 chr1:78444877-78444897 1.0000 20 chr19:4342912-4342932 1.0000 20 chr3:139108509-139108529 1.0000 20 chr10:71930457-71930477 1.0000 20 chr14:71787005-71787025 1.0000 20 chr5:86708724-86708744 1.0000 20 chr10:64892874-64892894 1.0000 20 chr2:207630299-207630319 1.0000 20 chr6:136611106-136611126 1.0000 20 chr15:79165120-79165140 1.0000 20 chr16:4818769-4818789 1.0000 20 chr6:33168615-33168635 1.0000 20 chr9:6413147-6413167 1.0000 20 chr1:53019130-53019150 1.0000 20 chr14:64970494-64970514 1.0000 20 chr13:20532766-20532786 1.0000 20 chrX:53711190-53711210 1.0000 20 chr19:38146933-38146953 1.0000 20 chr9:127632686-127632706 1.0000 20 chr13:79980402-79980422 1.0000 20 chr22:21356381-21356401 1.0000 20 chr17:28443798-28443818 1.0000 20 chr2:214149083-214149103 1.0000 20 chr16:67867848-67867868 1.0000 20 chr3:184016776-184016796 1.0000 20 chr16:3507681-3507701 1.0000 20 chr2:190526111-190526131 1.0000 20 chr12:56709882-56709902 1.0000 20 chr5:138629339-138629359 1.0000 20 chr15:78730439-78730459 1.0000 20 chr11:64646277-64646297 1.0000 20 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc ../result/final_prediction/GM12878/inference_raw/MEME/RankLinear0.6_10_CHD2/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/CHD2.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 5000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 5000 norand= no csites= 1000 Letter frequencies in dataset: A 0.173 C 0.328 G 0.324 T 0.175 Background letter frequencies (from file dataset with add-one prior applied): A 0.173 C 0.328 G 0.324 T 0.175 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCTCGCGA MEME-1 width = 8 sites = 74 llr = 578 E-value = 4.4e-084 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 Description -------------------------------------------------------------------------------- Simplified A :1:::1:8 pos.-specific C :92a:9:: probability G ::2:a:a2 matrix T 9:6::::: bits 2.5 2.3 2.0 * 1.8 * Relative 1.5 * ** ** Entropy 1.3 ** ** ** (11.3 bits) 1.0 ** ***** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TCTCGCGA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr5:138629339-138629359 12 1.96e-05 GGGCGAGCTC TCTCGCGA G chr10:64892874-64892894 10 1.96e-05 ACTAACGCT TCTCGCGA GAG chr3:139108509-139108529 1 1.96e-05 . TCTCGCGA TAGTCAGAGG chr3:169684543-169684563 3 1.96e-05 GT TCTCGCGA GGTTTCCACC chrX:118987026-118987046 12 1.96e-05 CCTGCCAAGC TCTCGCGA G chr1:100315591-100315611 10 1.96e-05 TGCCCACGC TCTCGCGA GAC chr13:21750738-21750758 2 1.96e-05 C TCTCGCGA GAGCCGAAGT chr2:120517266-120517286 13 1.96e-05 TGGCCTCGCC TCTCGCGA chr10:101989364-10198938 6 1.96e-05 TTTGT TCTCGCGA GAATGAA chr2:201754479-201754499 6 1.96e-05 gtaaa tctcgcga tattgtg chr10:102820524-10282054 9 1.96e-05 GTTCTGAT TCTCGCGA CAGT chr9:88555928-88555948 9 1.96e-05 GTCTCTAA TCTCGCGA GAAG chrX:48555125-48555145 5 1.96e-05 CTCT TCTCGCGA GGCCGGCT chr1:104068529-104068549 12 1.96e-05 GTGGCGCAGT TCTCGCGA G chr4:26321229-26321249 4 1.96e-05 CGT TCTCGCGA GGTTTAGGA chr15:66649027-66649047 6 1.96e-05 GCGCT TCTCGCGA TACTCGG chr17:53046074-53046094 1 1.96e-05 . TCTCGCGA GATCTGGGTT chr2:74406010-74406030 12 1.96e-05 ACCAACAAAA TCTCGCGA G chr4:57843885-57843905 2 1.96e-05 T TCTCGCGA TTTAAGCTCT chr3:186501970-186501990 4 1.96e-05 AGC TCTCGCGA GACGCTCCG chr8:67940837-67940857 13 1.96e-05 TCACGAGAAA TCTCGCGA chr1:207226318-207226338 10 1.96e-05 ATAGTCTAC TCTCGCGA GAG chr10:51565138-51565158 9 1.96e-05 AGCGGAGA TCTCGCGA GACT chr19:38146933-38146953 10 3.00e-05 AAACCCCAG TATCGCGA GCC chr22:50689744-50689764 9 3.00e-05 CCGGTCGC TATCGCGA GCTC chr2:219773799-219773819 1 3.00e-05 . TATCGCGA GATCGGTGGG chr2:170683913-170683933 3 3.00e-05 GG TATCGCGA GAGTTGGGCG chr5:175788807-175788827 12 6.63e-05 CCGCGGGATC TCGCGCGA G chr1:116961206-116961226 6 6.63e-05 GGAGC TCGCGCGA CAGCCTG chr8:38089079-38089099 1 6.63e-05 . TCGCGCGA CTCCCCCCAC chr20:30539788-30539808 4 6.63e-05 CTC TCGCGCGA CCCCGGGAT chr19:51228319-51228339 4 6.63e-05 CTC TCGCGCGA CTTCGAAGC chrX:118740435-118740455 8 6.63e-05 CAGAATC TCGCGCGA CGTAC chr6:7313589-7313609 3 1.13e-04 GC TCCCGCGA GAGTCCGCCT chr2:27632578-27632598 12 1.13e-04 CAACGGCCGC TCCCGCGA G chr20:30467939-30467959 3 1.13e-04 AG TCCCGCGA GCCCGGCCAG chr4:15683249-15683269 13 1.13e-04 GAGGCGGAAA TCCCGCGA chr19:37341719-37341739 10 1.13e-04 AGGGCACTC TCCCGCGA TAA chr20:25604741-25604761 13 1.13e-04 AAAAGTGAGA TCCCGCGA chr3:160117021-160117041 6 1.13e-04 CCTCT TCCCGCGA TACTTCT chr6:136611106-136611126 1 1.50e-04 . TCTCGCGG GAAGATGTGA chr4:17812532-17812552 3 1.50e-04 AG TCTCGCGG GATTTCCCCC chr1:26146629-26146649 8 1.50e-04 CGCGAGT TCTCGCGG GAGCC chr2:85843338-85843358 5 1.50e-04 GGAG TCTCGCGG TTCCACTC chr6:71122931-71122951 10 1.50e-04 ACCTCCCGT TCTCGCGG GAA chr6:149638637-149638657 5 1.50e-04 CAGA TCTCGCGG TGTTTGCC chr15:56657585-56657605 12 1.50e-04 ATGTGGAAAC TCTCGCGG G chr1:53308484-53308504 6 1.50e-04 TTGGT TCTCGCGG GATCCGG chr5:169010740-169010760 1 1.50e-04 . TCTCGCGG GAACTGCATT chr1:231473988-231474008 2 1.50e-04 C TCTCGCGG GATTGACGGG chr2:207630299-207630319 5 1.61e-04 AAGA TCTCGTGA GAAGCGCA chr8:52811822-52811842 13 2.00e-04 GTAGGGGAGA TCACGCGA chr10:124768343-12476836 7 2.00e-04 CTCAAG TCTCGCGT GAGCAG chr11:107880031-10788005 8 2.00e-04 CACGAAT TCTCGCGT CGTCT chr6:52285002-52285022 2 2.44e-04 T TACCGCGA GAACGCGGAG chr19:36980469-36980489 11 2.44e-04 GAAGCTGAAT TACCGCGA GA chr6:43395544-43395564 10 2.44e-04 TACCCTTGG TACCGCGA GAA chr9:6413147-6413167 2 2.63e-04 C TCGCGAGA TCCGGCTTGG chr12:132569508-13256952 3 2.63e-04 CC TCGCGAGA CCGCTGTCTA chr5:176449638-176449658 6 2.63e-04 AAACC TCGCGAGA TTTGTTG chr12:80328964-80328984 13 2.63e-04 TAACGTAACT TCGCGAGA chr9:72873892-72873912 5 3.70e-04 CAGT TCGCGCGG GAGCGGGG chr10:75385800-75385820 7 4.69e-04 AGAGAC TCTCGCAA GAAAGT chr19:18263835-18263855 13 4.69e-04 AGTCCACCAG TCCCGCGG chr6:13574648-13574668 13 5.05e-04 CCTGCCGCGG GCTCGCGA chr8:63951405-63951425 4 5.30e-04 CAC TCGCGTGA GACTCGGGT chr12:111051898-11105191 6 5.50e-04 CCCCT TCCCGTGA TGCCCCG chr10:75118560-75118580 9 5.69e-04 ATTCCAAG ACTCGCGA TAAC chr12:27091365-27091385 7 6.09e-04 CCACAG TAACGCGA GGAAAG chr11:75294389-75294409 10 7.04e-04 CCGGCCCGA TCCCGCGT CCC chr7:134671241-134671261 2 9.23e-04 C TCGCGAGG GCGGACCCGT chr16:90089012-90089032 2 9.23e-04 C TCGCGAGG ATCTTGTGAC chr2:163200418-163200438 4 1.07e-03 AGA GCGCGCGA GAACCTGAG chr3:17784316-17784336 1 1.17e-03 . GCCCGCGA GGCGCGAGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:138629339-138629359 2e-05 11_[+1]_1 chr10:64892874-64892894 2e-05 9_[+1]_3 chr3:139108509-139108529 2e-05 [+1]_12 chr3:169684543-169684563 2e-05 2_[+1]_10 chrX:118987026-118987046 2e-05 11_[+1]_1 chr1:100315591-100315611 2e-05 9_[+1]_3 chr13:21750738-21750758 2e-05 1_[+1]_11 chr2:120517266-120517286 2e-05 12_[+1] chr10:101989364-10198938 2e-05 5_[+1]_7 chr2:201754479-201754499 2e-05 5_[+1]_7 chr10:102820524-10282054 2e-05 8_[+1]_4 chr9:88555928-88555948 2e-05 8_[+1]_4 chrX:48555125-48555145 2e-05 4_[+1]_8 chr1:104068529-104068549 2e-05 11_[+1]_1 chr4:26321229-26321249 2e-05 3_[+1]_9 chr15:66649027-66649047 2e-05 5_[+1]_7 chr17:53046074-53046094 2e-05 [+1]_12 chr2:74406010-74406030 2e-05 11_[+1]_1 chr4:57843885-57843905 2e-05 1_[+1]_11 chr3:186501970-186501990 2e-05 3_[+1]_9 chr8:67940837-67940857 2e-05 12_[+1] chr1:207226318-207226338 2e-05 9_[+1]_3 chr10:51565138-51565158 2e-05 8_[+1]_4 chr19:38146933-38146953 3e-05 9_[+1]_3 chr22:50689744-50689764 3e-05 8_[+1]_4 chr2:219773799-219773819 3e-05 [+1]_12 chr2:170683913-170683933 3e-05 2_[+1]_10 chr5:175788807-175788827 6.6e-05 11_[+1]_1 chr1:116961206-116961226 6.6e-05 5_[+1]_7 chr8:38089079-38089099 6.6e-05 [+1]_12 chr20:30539788-30539808 6.6e-05 3_[+1]_9 chr19:51228319-51228339 6.6e-05 3_[+1]_9 chrX:118740435-118740455 6.6e-05 7_[+1]_5 chr6:7313589-7313609 0.00011 2_[+1]_10 chr2:27632578-27632598 0.00011 11_[+1]_1 chr20:30467939-30467959 0.00011 2_[+1]_10 chr4:15683249-15683269 0.00011 12_[+1] chr19:37341719-37341739 0.00011 9_[+1]_3 chr20:25604741-25604761 0.00011 12_[+1] chr3:160117021-160117041 0.00011 5_[+1]_7 chr6:136611106-136611126 0.00015 [+1]_12 chr4:17812532-17812552 0.00015 2_[+1]_10 chr1:26146629-26146649 0.00015 7_[+1]_5 chr2:85843338-85843358 0.00015 4_[+1]_8 chr6:71122931-71122951 0.00015 9_[+1]_3 chr6:149638637-149638657 0.00015 4_[+1]_8 chr15:56657585-56657605 0.00015 11_[+1]_1 chr1:53308484-53308504 0.00015 5_[+1]_7 chr5:169010740-169010760 0.00015 [+1]_12 chr1:231473988-231474008 0.00015 1_[+1]_11 chr2:207630299-207630319 0.00016 4_[+1]_8 chr8:52811822-52811842 0.0002 12_[+1] chr10:124768343-12476836 0.0002 6_[+1]_6 chr11:107880031-10788005 0.0002 7_[+1]_5 chr6:52285002-52285022 0.00024 1_[+1]_11 chr19:36980469-36980489 0.00024 10_[+1]_2 chr6:43395544-43395564 0.00024 9_[+1]_3 chr9:6413147-6413167 0.00026 1_[+1]_11 chr12:132569508-13256952 0.00026 2_[+1]_10 chr5:176449638-176449658 0.00026 5_[+1]_7 chr12:80328964-80328984 0.00026 12_[+1] chr9:72873892-72873912 0.00037 4_[+1]_8 chr10:75385800-75385820 0.00047 6_[+1]_6 chr19:18263835-18263855 0.00047 12_[+1] chr6:13574648-13574668 0.00051 12_[+1] chr8:63951405-63951425 0.00053 3_[+1]_9 chr12:111051898-11105191 0.00055 5_[+1]_7 chr10:75118560-75118580 0.00057 8_[+1]_4 chr12:27091365-27091385 0.00061 6_[+1]_6 chr11:75294389-75294409 0.0007 9_[+1]_3 chr7:134671241-134671261 0.00092 1_[+1]_11 chr16:90089012-90089032 0.00092 1_[+1]_11 chr2:163200418-163200438 0.0011 3_[+1]_9 chr3:17784316-17784336 0.0012 [+1]_12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCTCGCGA width=8 seqs=74 chr5:138629339-138629359 ( 12) TCTCGCGA 1 chr10:64892874-64892894 ( 10) TCTCGCGA 1 chr3:139108509-139108529 ( 1) TCTCGCGA 1 chr3:169684543-169684563 ( 3) TCTCGCGA 1 chrX:118987026-118987046 ( 12) TCTCGCGA 1 chr1:100315591-100315611 ( 10) TCTCGCGA 1 chr13:21750738-21750758 ( 2) TCTCGCGA 1 chr2:120517266-120517286 ( 13) TCTCGCGA 1 chr10:101989364-10198938 ( 6) TCTCGCGA 1 chr2:201754479-201754499 ( 6) TCTCGCGA 1 chr10:102820524-10282054 ( 9) TCTCGCGA 1 chr9:88555928-88555948 ( 9) TCTCGCGA 1 chrX:48555125-48555145 ( 5) TCTCGCGA 1 chr1:104068529-104068549 ( 12) TCTCGCGA 1 chr4:26321229-26321249 ( 4) TCTCGCGA 1 chr15:66649027-66649047 ( 6) TCTCGCGA 1 chr17:53046074-53046094 ( 1) TCTCGCGA 1 chr2:74406010-74406030 ( 12) TCTCGCGA 1 chr4:57843885-57843905 ( 2) TCTCGCGA 1 chr3:186501970-186501990 ( 4) TCTCGCGA 1 chr8:67940837-67940857 ( 13) TCTCGCGA 1 chr1:207226318-207226338 ( 10) TCTCGCGA 1 chr10:51565138-51565158 ( 9) TCTCGCGA 1 chr19:38146933-38146953 ( 10) TATCGCGA 1 chr22:50689744-50689764 ( 9) TATCGCGA 1 chr2:219773799-219773819 ( 1) TATCGCGA 1 chr2:170683913-170683933 ( 3) TATCGCGA 1 chr5:175788807-175788827 ( 12) TCGCGCGA 1 chr1:116961206-116961226 ( 6) TCGCGCGA 1 chr8:38089079-38089099 ( 1) TCGCGCGA 1 chr20:30539788-30539808 ( 4) TCGCGCGA 1 chr19:51228319-51228339 ( 4) TCGCGCGA 1 chrX:118740435-118740455 ( 8) TCGCGCGA 1 chr6:7313589-7313609 ( 3) TCCCGCGA 1 chr2:27632578-27632598 ( 12) TCCCGCGA 1 chr20:30467939-30467959 ( 3) TCCCGCGA 1 chr4:15683249-15683269 ( 13) TCCCGCGA 1 chr19:37341719-37341739 ( 10) TCCCGCGA 1 chr20:25604741-25604761 ( 13) TCCCGCGA 1 chr3:160117021-160117041 ( 6) TCCCGCGA 1 chr6:136611106-136611126 ( 1) TCTCGCGG 1 chr4:17812532-17812552 ( 3) TCTCGCGG 1 chr1:26146629-26146649 ( 8) TCTCGCGG 1 chr2:85843338-85843358 ( 5) TCTCGCGG 1 chr6:71122931-71122951 ( 10) TCTCGCGG 1 chr6:149638637-149638657 ( 5) TCTCGCGG 1 chr15:56657585-56657605 ( 12) TCTCGCGG 1 chr1:53308484-53308504 ( 6) TCTCGCGG 1 chr5:169010740-169010760 ( 1) TCTCGCGG 1 chr1:231473988-231474008 ( 2) TCTCGCGG 1 chr2:207630299-207630319 ( 5) TCTCGTGA 1 chr8:52811822-52811842 ( 13) TCACGCGA 1 chr10:124768343-12476836 ( 7) TCTCGCGT 1 chr11:107880031-10788005 ( 8) TCTCGCGT 1 chr6:52285002-52285022 ( 2) TACCGCGA 1 chr19:36980469-36980489 ( 11) TACCGCGA 1 chr6:43395544-43395564 ( 10) TACCGCGA 1 chr9:6413147-6413167 ( 2) TCGCGAGA 1 chr12:132569508-13256952 ( 3) TCGCGAGA 1 chr5:176449638-176449658 ( 6) TCGCGAGA 1 chr12:80328964-80328984 ( 13) TCGCGAGA 1 chr9:72873892-72873912 ( 5) TCGCGCGG 1 chr10:75385800-75385820 ( 7) TCTCGCAA 1 chr19:18263835-18263855 ( 13) TCCCGCGG 1 chr6:13574648-13574668 ( 13) GCTCGCGA 1 chr8:63951405-63951425 ( 4) TCGCGTGA 1 chr12:111051898-11105191 ( 6) TCCCGTGA 1 chr10:75118560-75118580 ( 9) ACTCGCGA 1 chr12:27091365-27091385 ( 7) TAACGCGA 1 chr11:75294389-75294409 ( 10) TCCCGCGT 1 chr7:134671241-134671261 ( 2) TCGCGAGG 1 chr16:90089012-90089032 ( 2) TCGCGAGG 1 chr2:163200418-163200438 ( 4) GCGCGCGA 1 chr3:17784316-17784336 ( 1) GCCCGCGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.86732 E= 4.4e-084 -368 -1285 -300 243 -68 144 -1285 -1285 -268 -79 -67 173 -1285 161 -1285 -1285 -1285 -1285 163 -1285 -110 142 -1285 -211 -368 -1285 161 -1285 215 -1285 -77 -211 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 74 E= 4.4e-084 0.013514 0.000000 0.040541 0.945946 0.108108 0.891892 0.000000 0.000000 0.027027 0.189189 0.202703 0.581081 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.081081 0.878378 0.000000 0.040541 0.013514 0.000000 0.986486 0.000000 0.770270 0.000000 0.189189 0.040541 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 regular expression -------------------------------------------------------------------------------- TC[TG]CGCGA -------------------------------------------------------------------------------- Time 1.94 secs. ******************************************************************************** ******************************************************************************** MOTIF AGATCTCG MEME-2 width = 8 sites = 18 llr = 146 E-value = 1.1e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 Description -------------------------------------------------------------------------------- Simplified A 938::::1 pos.-specific C 1:138:a: probability G 16:::::9 matrix T :1172a:: bits 2.5 * 2.3 * 2.0 * 1.8 * * Relative 1.5 * ** ** Entropy 1.3 * ** *** (11.7 bits) 1.0 * ****** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel AGATCTCG consensus A CT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3:137893774-137893794 13 1.04e-05 TCCGGTTTCC AGATCTCG chr17:37607563-37607583 12 1.59e-05 CAGGGCATCG AAATCTCG C chrX:117480032-117480052 11 1.59e-05 CGCCCCTCCG AAATCTCG CG chr17:27717296-27717316 11 1.59e-05 GTCAGGCGGA AAATCTCG CG chr9:98637864-98637884 8 2.14e-05 GAAAGGA AGATTTCG TTCTC chr14:74318619-74318639 1 2.14e-05 . AGATTTCG TTCACCCGGG chr6:116601120-116601140 5 3.55e-05 CTGG AGATCTCA CGGTATCG chr5:180673526-180673546 11 5.49e-05 ACCCAGACCG AGACCTCG GG chr5:39074498-39074518 9 7.12e-05 AACACCGG AAACCTCG CCCA chr4:103749212-103749232 13 8.16e-05 AAAATGCATA AGTTCTCG chr16:188663-188683 3 1.01e-04 CG AGACTTCG GCGACACCGT chr6:108279387-108279407 12 1.36e-04 cgccgtcgcc AGCTCTCG C chr10:15139072-15139092 10 1.46e-04 TCGCGATAC ATACCTCG CGC chr10:112064723-11206474 11 1.60e-04 GAGAAATACA AACTCTCG CG chr19:12273867-12273887 11 1.76e-04 CGGGATTTTC ATTTCTCG CG chr5:56469849-56469869 11 2.49e-04 CCACTGTGCA CGATCTCG CG chr15:69452885-69452905 13 2.49e-04 GCCGTGGCTG GGATCTCG chr1:24306865-24306885 2 3.22e-04 G AGACTTCA CTCCCGCCTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3:137893774-137893794 1e-05 12_[+2] chr17:37607563-37607583 1.6e-05 11_[+2]_1 chrX:117480032-117480052 1.6e-05 10_[+2]_2 chr17:27717296-27717316 1.6e-05 10_[+2]_2 chr9:98637864-98637884 2.1e-05 7_[+2]_5 chr14:74318619-74318639 2.1e-05 [+2]_12 chr6:116601120-116601140 3.5e-05 4_[+2]_8 chr5:180673526-180673546 5.5e-05 10_[+2]_2 chr5:39074498-39074518 7.1e-05 8_[+2]_4 chr4:103749212-103749232 8.2e-05 12_[+2] chr16:188663-188683 0.0001 2_[+2]_10 chr6:108279387-108279407 0.00014 11_[+2]_1 chr10:15139072-15139092 0.00015 9_[+2]_3 chr10:112064723-11206474 0.00016 10_[+2]_2 chr19:12273867-12273887 0.00018 10_[+2]_2 chr5:56469849-56469869 0.00025 10_[+2]_2 chr15:69452885-69452905 0.00025 12_[+2] chr1:24306865-24306885 0.00032 1_[+2]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGATCTCG width=8 seqs=18 chr3:137893774-137893794 ( 13) AGATCTCG 1 chr17:37607563-37607583 ( 12) AAATCTCG 1 chrX:117480032-117480052 ( 11) AAATCTCG 1 chr17:27717296-27717316 ( 11) AAATCTCG 1 chr9:98637864-98637884 ( 8) AGATTTCG 1 chr14:74318619-74318639 ( 1) AGATTTCG 1 chr6:116601120-116601140 ( 5) AGATCTCA 1 chr5:180673526-180673546 ( 11) AGACCTCG 1 chr5:39074498-39074518 ( 9) AAACCTCG 1 chr4:103749212-103749232 ( 13) AGTTCTCG 1 chr16:188663-188683 ( 3) AGACTTCG 1 chr6:108279387-108279407 ( 12) AGCTCTCG 1 chr10:15139072-15139092 ( 10) ATACCTCG 1 chr10:112064723-11206474 ( 11) AACTCTCG 1 chr19:12273867-12273887 ( 11) ATTTCTCG 1 chr5:56469849-56469869 ( 11) CGATCTCG 1 chr15:69452885-69452905 ( 13) GGATCTCG 1 chr1:24306865-24306885 ( 2) AGACTTCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.89767 E= 1.1e-002 236 -256 -254 -1081 68 -1081 92 -66 217 -156 -1081 -66 -1081 -24 -1081 204 -1081 125 -1081 34 -1081 -1081 -1081 251 -1081 161 -1081 -1081 -64 -1081 146 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 1.1e-002 0.888889 0.055556 0.055556 0.000000 0.277778 0.000000 0.611111 0.111111 0.777778 0.111111 0.000000 0.111111 0.000000 0.277778 0.000000 0.722222 0.000000 0.777778 0.000000 0.222222 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.111111 0.000000 0.888889 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGATCTCG MEME-2 regular expression -------------------------------------------------------------------------------- A[GA]A[TC][CT]TCG -------------------------------------------------------------------------------- Time 2.65 secs. ******************************************************************************** ******************************************************************************** MOTIF AGAAAGAA MEME-3 width = 8 sites = 2 llr = 26 E-value = 1.8e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 Description -------------------------------------------------------------------------------- Simplified A a:aaa:aa pos.-specific C :::::::: probability G :a:::a:: matrix T :::::::: bits 2.5 * *** ** 2.3 * *** ** 2.0 * *** ** 1.8 * *** ** Relative 1.5 ******** Entropy 1.3 ******** (18.4 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel AGAAAGAA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:78444877-78444897 4 2.81e-06 CTG AGAAAGAA CGACAGGAA chr17:2415237-2415257 6 2.81e-06 CTTGA AGAAAGAA GAAACCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:78444877-78444897 2.8e-06 3_[+3]_9 chr17:2415237-2415257 2.8e-06 5_[+3]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGAAAGAA width=8 seqs=2 chr1:78444877-78444897 ( 4) AGAAAGAA 1 chr17:2415237-2415257 ( 6) AGAAAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 1.8e+002 252 -765 -765 -765 -765 -765 162 -765 252 -765 -765 -765 252 -765 -765 -765 252 -765 -765 -765 -765 -765 162 -765 252 -765 -765 -765 252 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.8e+002 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAAAGAA MEME-3 regular expression -------------------------------------------------------------------------------- AGAAAGAA -------------------------------------------------------------------------------- Time 5.69 secs. ******************************************************************************** ******************************************************************************** MOTIF CGCGAGAR MEME-4 width = 8 sites = 9 llr = 81 E-value = 4.0e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 Description -------------------------------------------------------------------------------- Simplified A :1::a:a4 pos.-specific C a:a::::1 probability G :9:a:9:4 matrix T :::::1:: bits 2.5 * * 2.3 * * 2.0 * * 1.8 * * Relative 1.5 * *** * Entropy 1.3 ******* (13.0 bits) 1.0 ******* 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CGCGAGAA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr5:159846219-159846239 2 1.89e-05 A CGCGAGAA CTCTAGCTGC chr3:17784316-17784336 11 1.89e-05 GCCCGCGAGG CGCGAGAA GC chr1:207224375-207224395 1 1.89e-05 . CGCGAGAA GTTGCGGGTG chr4:68411203-68411223 9 5.44e-05 GCGACTGC CGCGAGAG CTGC chr2:136743196-136743216 1 5.44e-05 . CGCGAGAG CTGCGGCTAT chr6:151711720-151711740 1 5.44e-05 . CGCGAGAG CCGGAGACAG chr8:67940837-67940857 4 7.48e-05 GCT CACGAGAA ATCTCGCGA chr10:71930457-71930477 2 1.11e-04 G CGCGAGAC GTGGCAGCGC chr16:68119162-68119182 2 1.49e-04 A CGCGATAG GCCTGTGAGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:159846219-159846239 1.9e-05 1_[+4]_11 chr3:17784316-17784336 1.9e-05 10_[+4]_2 chr1:207224375-207224395 1.9e-05 [+4]_12 chr4:68411203-68411223 5.4e-05 8_[+4]_4 chr2:136743196-136743216 5.4e-05 [+4]_12 chr6:151711720-151711740 5.4e-05 [+4]_12 chr8:67940837-67940857 7.5e-05 3_[+4]_9 chr10:71930457-71930477 0.00011 1_[+4]_11 chr16:68119162-68119182 0.00015 1_[+4]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGCGAGAR width=8 seqs=9 chr5:159846219-159846239 ( 2) CGCGAGAA 1 chr3:17784316-17784336 ( 11) CGCGAGAA 1 chr1:207224375-207224395 ( 1) CGCGAGAA 1 chr4:68411203-68411223 ( 9) CGCGAGAG 1 chr2:136743196-136743216 ( 1) CGCGAGAG 1 chr6:151711720-151711740 ( 1) CGCGAGAG 1 chr8:67940837-67940857 ( 4) CACGAGAA 1 chr10:71930457-71930477 ( 2) CGCGAGAC 1 chr16:68119162-68119182 ( 2) CGCGATAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.34207 E= 4.0e+002 -982 161 -982 -982 -64 -982 146 -982 -982 161 -982 -982 -982 -982 163 -982 253 -982 -982 -982 -982 -982 146 -66 253 -982 -982 -982 136 -156 46 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 4.0e+002 0.000000 1.000000 0.000000 0.000000 0.111111 0.000000 0.888889 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.888889 0.111111 1.000000 0.000000 0.000000 0.000000 0.444444 0.111111 0.444444 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAR MEME-4 regular expression -------------------------------------------------------------------------------- CGCGAGA[AG] -------------------------------------------------------------------------------- Time 8.53 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGATAAG MEME-5 width = 8 sites = 2 llr = 24 E-value = 1.0e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :a:a:aa: pos.-specific C :::::::: probability G a:a::::a matrix T ::::a::: bits 2.5 * **** 2.3 * **** 2.0 * **** 1.8 * **** Relative 1.5 ******** Entropy 1.3 ******** (17.5 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GAGATAAG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr15:76603820-76603840 10 5.33e-06 CGCGCGAAC GAGATAAG ACG chr6:153323892-153323912 8 5.33e-06 GAATTTG GAGATAAG GGTGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr15:76603820-76603840 5.3e-06 9_[+5]_3 chr6:153323892-153323912 5.3e-06 7_[+5]_5 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGATAAG width=8 seqs=2 chr15:76603820-76603840 ( 10) GAGATAAG 1 chr6:153323892-153323912 ( 8) GAGATAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 1.0e+003 -765 -765 162 -765 252 -765 -765 -765 -765 -765 162 -765 252 -765 -765 -765 -765 -765 -765 250 252 -765 -765 -765 252 -765 -765 -765 -765 -765 162 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.0e+003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGATAAG MEME-5 regular expression -------------------------------------------------------------------------------- GAGATAAG -------------------------------------------------------------------------------- Time 11.25 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr16:90089012-90089032 4.20e-03 20 chr10:135186908-13518692 9.28e-01 20 chr16:30412020-30412040 6.59e-01 20 chr5:139493632-139493652 8.51e-01 20 chr9:123605270-123605290 4.53e-01 20 chr12:49351331-49351351 5.32e-01 20 chr14:100705139-10070515 2.81e-01 20 chr17:40118668-40118688 4.85e-01 20 chr11:13484844-13484864 5.60e-01 20 chr10:51565138-51565158 9.22e-08 5_[+2(1.04e-05)]_7 chr15:75287783-75287803 4.76e-02 20 chr1:232941096-232941116 6.03e-01 20 chr1:231473988-231474008 1.29e-02 20 chr1:207226318-207226338 4.18e-05 9_[+1(1.96e-05)]_3 chr6:108279387-108279407 1.15e-01 20 chr4:144434618-144434638 7.16e-01 20 chr3:160117021-160117041 1.47e-04 20 chr6:151711720-151711740 3.02e-03 [+4(5.44e-05)]_12 chr10:75118560-75118580 5.37e-05 11_[+4(7.48e-05)]_1 chr17:55162364-55162384 7.84e-03 20 chr19:56905032-56905052 5.45e-01 20 chr20:25604741-25604761 5.99e-04 20 chr16:84150476-84150496 8.99e-01 20 chr1:207224375-207224395 5.88e-04 [+4(1.89e-05)]_12 chr6:47445480-47445500 4.04e-01 20 chr16:87985101-87985121 4.99e-01 20 chr8:67940837-67940857 1.61e-08 9_[+2(1.59e-05)]_3 chr4:140374866-140374886 9.94e-01 20 chr3:186501970-186501990 1.11e-06 3_[+1(1.96e-05)]_9 chr11:66035221-66035241 9.92e-01 20 chr4:57843885-57843905 1.63e-04 1_[+1(1.96e-05)]_11 chrX:46433642-46433662 6.99e-01 20 chr19:37341719-37341739 3.81e-04 12_[+4(7.48e-05)] chrX:70474089-70474109 8.60e-01 20 chr17:27717296-27717316 1.79e-03 10_[+2(1.59e-05)]_2 chr12:27091365-27091385 1.33e-03 20 chr2:170683913-170683933 2.99e-05 2_[+1(3.00e-05)]_10 chrX:63615397-63615417 6.03e-01 20 chr9:32550933-32550953 2.24e-01 20 chr7:134671241-134671261 4.05e-02 20 chr12:12849183-12849203 9.89e-01 20 chr19:9434957-9434977 5.02e-01 20 chr15:48470540-48470560 2.18e-01 20 chr17:4167281-4167301 9.73e-01 20 chrX:118740435-118740455 1.50e-04 7_[+1(6.63e-05)]_5 chr8:42249127-42249147 9.59e-01 20 chr2:176032893-176032913 9.51e-01 20 chr11:22851518-22851538 7.43e-01 20 chr2:74406010-74406030 4.91e-07 8_[+2(1.59e-05)]_4 chr2:225450249-225450269 5.40e-01 20 chr6:28863423-28863443 2.61e-02 20 chr10:15139072-15139092 8.54e-05 20 chr12:80328964-80328984 1.02e-02 20 chr15:69452885-69452905 1.18e-01 20 chr17:53046074-53046094 5.12e-06 [+1(1.96e-05)]_12 chr5:169010740-169010760 3.03e-03 20 chr5:176449638-176449658 2.48e-06 [+2(7.12e-05)]_12 chr17:38231929-38231949 9.99e-01 20 chr11:11863461-11863481 4.18e-01 20 chr5:138940752-138940772 8.68e-01 20 chr4:15683249-15683269 1.50e-03 20 chr7:158497502-158497522 4.34e-01 20 chr3:150421747-150421767 5.82e-01 20 chr10:7830041-7830061 8.84e-01 20 chr15:73925760-73925780 7.23e-01 20 chr5:132387640-132387660 6.69e-01 20 chr2:219773799-219773819 6.64e-05 [+1(3.00e-05)]_12 chr1:53308484-53308504 7.94e-04 20 chr2:136743196-136743216 3.04e-02 [+4(5.44e-05)]_12 chr17:34900656-34900676 7.53e-01 20 chr14:74318619-74318639 2.46e-02 [+2(2.14e-05)]_12 chr5:56469849-56469869 1.06e-01 20 chr6:43395544-43395564 1.10e-04 12_[+4(1.89e-05)] chr1:11159894-11159914 8.06e-01 20 chr20:3748599-3748619 3.05e-01 20 chr11:107880031-10788005 2.28e-03 4_[+2(9.02e-05)]_8 chr16:14165148-14165168 2.87e-01 20 chr3:49131531-49131551 8.32e-01 20 chr4:26322592-26322612 7.36e-01 20 chr19:34663269-34663289 7.07e-01 20 chr15:66649027-66649047 5.88e-05 5_[+1(1.96e-05)]_7 chr11:95976655-95976675 6.16e-01 20 chr19:36980469-36980489 4.90e-02 20 chr15:85197541-85197561 3.61e-01 20 chr19:18263835-18263855 1.38e-01 20 chrX:117480032-117480052 1.86e-02 10_[+2(1.59e-05)]_2 chr19:4124168-4124188 2.39e-01 20 chr21:47673760-47673780 9.73e-01 20 chr4:25378831-25378851 3.69e-01 20 chr15:56657585-56657605 1.44e-03 20 chr1:6296072-6296092 7.44e-01 20 chr5:39074498-39074518 2.61e-02 8_[+2(7.12e-05)]_4 chr6:44355253-44355273 9.81e-01 20 chr17:7760894-7760914 9.95e-01 20 chr6:149638637-149638657 2.51e-04 1_[+2(1.04e-05)]_11 chr3:127771016-127771036 8.22e-01 20 chr17:78428583-78428603 7.47e-01 20 chr16:188663-188683 3.94e-02 20 chr6:71122931-71122951 3.74e-04 20 chr3:194304671-194304691 3.77e-01 20 chr17:2415237-2415257 4.72e-04 5_[+3(2.81e-06)]_7 chr12:57940997-57941017 2.67e-01 20 chr20:3767430-3767450 7.84e-01 20 chr10:112064723-11206474 9.57e-04 20 chr6:116601120-116601140 1.74e-03 4_[+2(3.55e-05)]_8 chr9:98637864-98637884 2.52e-03 7_[+2(2.14e-05)]_5 chr19:33182659-33182679 3.14e-01 20 chr4:26321229-26321249 3.80e-04 3_[+1(1.96e-05)]_9 chr17:8079750-8079770 9.78e-01 20 chr2:85843338-85843358 2.56e-02 20 chr1:104068529-104068549 1.34e-04 11_[+1(1.96e-05)]_1 chrX:153059810-153059830 1.31e-01 20 chr6:146285590-146285610 6.14e-01 20 chr12:125473665-12547368 9.22e-01 20 chr2:25194950-25194970 2.65e-01 20 chrX:30907546-30907566 9.89e-01 20 chr19:51228319-51228339 4.38e-04 3_[+1(6.63e-05)]_9 chr9:26956309-26956329 6.29e-01 20 chr17:37607563-37607583 1.00e-02 11_[+2(1.59e-05)]_1 chr20:30539788-30539808 5.71e-03 3_[+1(6.63e-05)]_9 chr1:167905781-167905801 9.69e-01 20 chr4:68411203-68411223 6.74e-03 8_[+4(5.44e-05)]_4 chr1:59165731-59165751 9.15e-01 20 chrX:48555125-48555145 3.60e-03 4_[+1(1.96e-05)]_8 chr5:65439993-65440013 5.98e-01 20 chr11:75294389-75294409 7.60e-02 20 chr3:169482931-169482951 9.42e-02 20 chr11:85376194-85376214 3.91e-01 20 chr9:72873892-72873912 4.45e-03 20 chr9:88555928-88555948 1.92e-07 11_[+4(1.89e-05)]_1 chr1:26146629-26146649 1.07e-04 4_[+2(8.16e-05)]_8 chr10:102820524-10282054 6.15e-05 8_[+1(1.96e-05)]_4 chr22:50689744-50689764 4.64e-03 8_[+1(3.00e-05)]_4 chr12:11324241-11324261 7.80e-01 20 chr8:104311096-104311116 1.96e-01 20 chr2:201754479-201754499 1.27e-06 2_[+2(1.59e-05)]_10 chr16:4524673-4524693 9.64e-01 20 chr17:73401752-73401772 9.71e-01 20 chr10:101989364-10198938 1.73e-08 8_[+4(1.89e-05)]_4 chr1:70820410-70820430 5.91e-01 20 chr2:120517266-120517286 2.48e-02 12_[+1(1.96e-05)] chr1:24306865-24306885 5.22e-02 20 chr6:97731151-97731171 8.90e-01 20 chr3:44727106-44727126 7.53e-01 20 chr4:54930791-54930811 4.39e-01 20 chr4:103749212-103749232 4.08e-03 12_[+2(8.16e-05)] chr13:21750738-21750758 3.00e-05 1_[+1(1.96e-05)]_11 chr8:63951405-63951425 4.46e-03 20 chr10:124768343-12476836 5.57e-04 20 chr2:163200418-163200438 7.85e-05 6_[+4(1.89e-05)]_6 chr6:3849608-3849628 9.41e-01 20 chr8:144911537-144911557 9.49e-01 20 chr6:13574648-13574668 1.38e-01 20 chr17:4843572-4843592 6.47e-01 20 chr7:100303636-100303656 4.83e-01 20 chrX:153607436-153607456 1.47e-01 20 chr12:29534165-29534185 1.45e-02 20 chr16:639822-639842 7.02e-01 20 chr16:31191986-31192006 7.64e-01 20 chr19:1095519-1095539 2.68e-01 20 chr10:118608986-11860900 1.53e-01 20 chr1:1447163-1447183 9.77e-01 20 chr17:79527832-79527852 9.99e-01 20 chrX:151999543-151999563 3.96e-01 20 chr15:22833400-22833420 2.26e-02 20 chr3:17784316-17784336 8.32e-05 10_[+4(1.89e-05)]_2 chr5:149840993-149841013 8.89e-01 20 chr11:93474706-93474726 4.39e-02 20 chr11:70049341-70049361 5.10e-01 20 chr6:52285002-52285022 3.70e-05 4_[+4(1.89e-05)]_8 chr13:115047231-11504725 7.66e-01 20 chr12:132569508-13256952 1.55e-03 20 chr8:52811822-52811842 5.91e-04 20 chr17:7343418-7343438 9.04e-01 20 chr3:195270139-195270159 6.52e-01 20 chr1:100315591-100315611 2.19e-05 9_[+1(1.96e-05)]_3 chrX:118987026-118987046 1.38e-04 11_[+1(1.96e-05)]_1 chr4:17812532-17812552 8.21e-03 20 chr8:38089079-38089099 1.65e-02 [+1(6.63e-05)]_12 chr17:47866571-47866591 2.41e-03 20 chr5:159846219-159846239 5.74e-05 1_[+4(1.89e-05)]_11 chr6:116575304-116575324 5.41e-01 20 chr1:116961206-116961226 4.51e-04 5_[+1(6.63e-05)]_7 chrX:48660166-48660186 1.32e-01 20 chr19:5828280-5828300 2.44e-01 20 chr3:137893774-137893794 1.84e-02 12_[+2(1.04e-05)] chr3:169684543-169684563 4.58e-03 2_[+1(1.96e-05)]_10 chr10:76871163-76871183 4.88e-01 20 chr1:41157301-41157321 9.87e-01 20 chr10:97803241-97803261 8.46e-01 20 chr16:83841571-83841591 3.08e-01 20 chr3:126423014-126423034 7.72e-01 20 chr5:127418786-127418806 9.14e-01 20 chr6:153323892-153323912 1.55e-04 7_[+5(5.33e-06)]_5 chr5:180673526-180673546 1.20e-03 10_[+2(5.49e-05)]_2 chr1:111991947-111991967 9.23e-01 20 chrX:13752738-13752758 6.96e-01 20 chr2:160568963-160568983 7.85e-01 20 chr15:57210811-57210831 9.51e-01 20 chr17:34901403-34901423 8.66e-01 20 chr10:101380763-10138078 2.72e-01 20 chr12:111051898-11105191 1.47e-01 20 chr1:78148372-78148392 6.28e-02 20 chr16:4475812-4475832 5.46e-01 20 chr20:30467939-30467959 1.13e-02 20 chr7:106810280-106810300 3.43e-02 20 chr5:175788807-175788827 1.35e-04 11_[+1(6.63e-05)]_1 chr10:75385800-75385820 2.37e-05 20 chr16:87526664-87526684 1.00e+00 20 chr2:27632578-27632598 2.27e-02 20 chr15:76603820-76603840 2.05e-05 9_[+5(5.33e-06)]_3 chr16:68119162-68119182 1.03e-02 20 chr13:31736566-31736586 9.97e-01 20 chr6:7313589-7313609 4.34e-04 5_[+4(5.44e-05)]_7 chr12:72057680-72057700 5.74e-02 20 chr16:75019150-75019170 9.46e-01 20 chr19:12273867-12273887 1.66e-01 20 chr20:17663007-17663027 7.78e-01 20 chr17:34891335-34891355 6.44e-01 20 chr1:78444877-78444897 4.26e-04 3_[+3(2.81e-06)]_9 chr19:4342912-4342932 2.30e-01 20 chr3:139108509-139108529 4.93e-05 [+1(1.96e-05)]_12 chr10:71930457-71930477 2.87e-03 20 chr14:71787005-71787025 9.93e-01 20 chr5:86708724-86708744 9.80e-01 20 chr10:64892874-64892894 7.03e-05 9_[+1(1.96e-05)]_3 chr2:207630299-207630319 1.34e-07 1_[+2(1.04e-05)]_11 chr6:136611106-136611126 4.42e-04 20 chr15:79165120-79165140 9.91e-01 20 chr16:4818769-4818789 6.76e-01 20 chr6:33168615-33168635 2.18e-01 20 chr9:6413147-6413167 2.82e-04 20 chr1:53019130-53019150 5.28e-02 20 chr14:64970494-64970514 7.60e-01 20 chr13:20532766-20532786 4.55e-01 20 chrX:53711190-53711210 7.05e-01 20 chr19:38146933-38146953 1.55e-03 9_[+1(3.00e-05)]_3 chr9:127632686-127632706 8.97e-01 20 chr13:79980402-79980422 7.41e-01 20 chr22:21356381-21356401 9.90e-01 20 chr17:28443798-28443818 3.69e-01 20 chr2:214149083-214149103 8.85e-02 20 chr16:67867848-67867868 9.55e-01 20 chr3:184016776-184016796 1.86e-01 20 chr16:3507681-3507701 9.24e-01 20 chr2:190526111-190526131 3.33e-01 20 chr12:56709882-56709902 3.88e-01 20 chr5:138629339-138629359 9.18e-04 11_[+1(1.96e-05)]_1 chr15:78730439-78730459 9.97e-01 20 chr11:64646277-64646297 9.25e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n09.farnam.hpc.yale.internal ********************************************************************************