******************************************************************************** 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/USF1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr7:27170578-27170598 1.0000 20 chr1:1015675-1015695 1.0000 20 chr11:7535163-7535183 1.0000 20 chr4:37455491-37455511 1.0000 20 chr17:26578408-26578428 1.0000 20 chrX:101975589-101975609 1.0000 20 chr8:142402064-142402084 1.0000 20 chr11:63949186-63949206 1.0000 20 chr22:39637147-39637167 1.0000 20 chr7:6312311-6312331 1.0000 20 chr13:50159708-50159728 1.0000 20 chr5:141392627-141392647 1.0000 20 chr15:40213182-40213202 1.0000 20 chr6:158653183-158653203 1.0000 20 chr16:67184878-67184898 1.0000 20 chr20:443206-443226 1.0000 20 chr15:41913665-41913685 1.0000 20 chr16:1156421-1156441 1.0000 20 chrX:30671289-30671309 1.0000 20 chr17:19552015-19552035 1.0000 20 chrX:100914875-100914895 1.0000 20 chr5:150537371-150537391 1.0000 20 chr3:170626596-170626616 1.0000 20 chr1:226271218-226271238 1.0000 20 chr8:145692282-145692302 1.0000 20 chr17:80455116-80455136 1.0000 20 chr3:148709264-148709284 1.0000 20 chr17:21179153-21179173 1.0000 20 chr18:60742533-60742553 1.0000 20 chrX:100878118-100878138 1.0000 20 chr5:112073511-112073531 1.0000 20 chr1:33896735-33896755 1.0000 20 chr17:42015543-42015563 1.0000 20 chr16:1458291-1458311 1.0000 20 chr16:81773976-81773996 1.0000 20 chr22:41418647-41418667 1.0000 20 chr3:184032299-184032319 1.0000 20 chrX:101914815-101914835 1.0000 20 chr12:121063753-12106377 1.0000 20 chr9:96793024-96793044 1.0000 20 chr12:59314386-59314406 1.0000 20 chr6:31865484-31865504 1.0000 20 chr2:30370752-30370772 1.0000 20 chr17:79439207-79439227 1.0000 20 chr1:220445869-220445889 1.0000 20 chr17:30186245-30186265 1.0000 20 chr11:68606846-68606866 1.0000 20 chr12:54553110-54553130 1.0000 20 chr7:27135690-27135710 1.0000 20 chr10:33269590-33269610 1.0000 20 chrX:149716320-149716340 1.0000 20 chr16:29832581-29832601 1.0000 20 chr20:31407583-31407603 1.0000 20 chrX:117973490-117973510 1.0000 20 chr1:155294218-155294238 1.0000 20 chr1:173446168-173446188 1.0000 20 chrX:102883817-102883837 1.0000 20 chr22:23612110-23612130 1.0000 20 chr5:68628635-68628655 1.0000 20 chr12:42632180-42632200 1.0000 20 chr2:26987126-26987146 1.0000 20 chrX:102470020-102470040 1.0000 20 chr7:140098332-140098352 1.0000 20 chr7:2393702-2393722 1.0000 20 chr7:102073882-102073902 1.0000 20 chr16:84178761-84178781 1.0000 20 chr14:92573063-92573083 1.0000 20 chr18:9914001-9914021 1.0000 20 chr19:5680990-5681010 1.0000 20 chr6:106440476-106440496 1.0000 20 chr22:20850172-20850192 1.0000 20 chr21:37442111-37442131 1.0000 20 chr3:194854402-194854422 1.0000 20 chr9:19127555-19127575 1.0000 20 chr14:35183905-35183925 1.0000 20 chr17:7819262-7819282 1.0000 20 chr1:2487183-2487203 1.0000 20 chr10:70883929-70883949 1.0000 20 chr16:85590859-85590879 1.0000 20 chr20:40321486-40321506 1.0000 20 chr3:33318879-33318899 1.0000 20 chr19:8305382-8305402 1.0000 20 chr15:44084264-44084284 1.0000 20 chr22:31002799-31002819 1.0000 20 chr12:72148624-72148644 1.0000 20 chr8:10192404-10192424 1.0000 20 chr1:35497363-35497383 1.0000 20 chr22:50541598-50541618 1.0000 20 chrX:55744152-55744172 1.0000 20 chr19:18452217-18452237 1.0000 20 chr13:21635703-21635723 1.0000 20 chr2:241526094-241526114 1.0000 20 chr22:42394694-42394714 1.0000 20 chr11:65245044-65245064 1.0000 20 chr1:44440574-44440594 1.0000 20 chr3:14393719-14393739 1.0000 20 chr10:25305508-25305528 1.0000 20 chr19:5058069-5058089 1.0000 20 chr9:138391735-138391755 1.0000 20 chr21:38936175-38936195 1.0000 20 chr21:35748099-35748119 1.0000 20 chr6:18122892-18122912 1.0000 20 chr8:104033268-104033288 1.0000 20 chr6:36391214-36391234 1.0000 20 chr5:176730726-176730746 1.0000 20 chr9:126030871-126030891 1.0000 20 chr11:61501038-61501058 1.0000 20 chr17:26698395-26698415 1.0000 20 chr6:150326498-150326518 1.0000 20 chr2:42396374-42396394 1.0000 20 chr11:107879640-10787966 1.0000 20 chr19:45504560-45504580 1.0000 20 chr3:197025012-197025032 1.0000 20 chr2:220083844-220083864 1.0000 20 chr1:159750763-159750783 1.0000 20 chr7:105222000-105222020 1.0000 20 chr22:35695858-35695878 1.0000 20 chr12:66582916-66582936 1.0000 20 chr2:160143132-160143152 1.0000 20 chr4:6203594-6203614 1.0000 20 chr3:169899570-169899590 1.0000 20 chr16:68270175-68270195 1.0000 20 chr17:18908144-18908164 1.0000 20 chr8:8751150-8751170 1.0000 20 chr2:208576134-208576154 1.0000 20 chr15:72565010-72565030 1.0000 20 chr14:93799485-93799505 1.0000 20 chr11:33037362-33037382 1.0000 20 chrX:131157719-131157739 1.0000 20 chr3:158519814-158519834 1.0000 20 chr22:39268334-39268354 1.0000 20 chr17:55055480-55055500 1.0000 20 chr12:6644335-6644355 1.0000 20 chr16:9147115-9147135 1.0000 20 chr21:46238026-46238046 1.0000 20 chr7:47513593-47513613 1.0000 20 chr11:777513-777533 1.0000 20 chr5:172410741-172410761 1.0000 20 chr15:89954824-89954844 1.0000 20 chr5:36725329-36725349 1.0000 20 chr3:194207726-194207746 1.0000 20 chr10:44806711-44806731 1.0000 20 chr5:132299353-132299373 1.0000 20 chr15:50979024-50979044 1.0000 20 chr1:42921709-42921729 1.0000 20 chr5:131132830-131132850 1.0000 20 chr22:41047825-41047845 1.0000 20 chr16:88877898-88877918 1.0000 20 chr17:40719053-40719073 1.0000 20 chr12:121342214-12134223 1.0000 20 chr12:112451176-11245119 1.0000 20 chr11:64781521-64781541 1.0000 20 chr11:72463471-72463491 1.0000 20 chr9:132220808-132220828 1.0000 20 chr1:151170912-151170932 1.0000 20 chr5:1799987-1800007 1.0000 20 chr13:50366856-50366876 1.0000 20 chr4:176986956-176986976 1.0000 20 chr1:26232966-26232986 1.0000 20 chr9:34646594-34646614 1.0000 20 chr2:8977720-8977740 1.0000 20 chr9:79008942-79008962 1.0000 20 chr16:4588836-4588856 1.0000 20 chr21:44299190-44299210 1.0000 20 chr19:14477644-14477664 1.0000 20 chr10:93558126-93558146 1.0000 20 chr19:40324865-40324885 1.0000 20 chr1:68962814-68962834 1.0000 20 chr9:131709921-131709941 1.0000 20 chr11:8615829-8615849 1.0000 20 chr17:6939132-6939152 1.0000 20 chr17:55163541-55163561 1.0000 20 chr11:1785164-1785184 1.0000 20 chr12:57984976-57984996 1.0000 20 chr21:46675435-46675455 1.0000 20 chr1:180471531-180471551 1.0000 20 chr5:126112699-126112719 1.0000 20 chr17:46688424-46688444 1.0000 20 chr22:24823513-24823533 1.0000 20 chr2:176867062-176867082 1.0000 20 chr21:38445505-38445525 1.0000 20 chr7:100435126-100435146 1.0000 20 chr14:91580956-91580976 1.0000 20 chr9:115913210-115913230 1.0000 20 chr9:131451203-131451223 1.0000 20 chr19:46094373-46094393 1.0000 20 chrX:13671181-13671201 1.0000 20 chr3:129147506-129147526 1.0000 20 chr15:73925871-73925891 1.0000 20 chr3:44903324-44903344 1.0000 20 chr3:126076272-126076292 1.0000 20 chr7:155089505-155089525 1.0000 20 chr16:4466817-4466837 1.0000 20 chr2:50201358-50201378 1.0000 20 chr6:43337527-43337547 1.0000 20 chr3:57678861-57678881 1.0000 20 chr20:37590820-37590840 1.0000 20 chr1:154810283-154810303 1.0000 20 chr1:21023531-21023551 1.0000 20 chr17:79791187-79791207 1.0000 20 chr16:81812875-81812895 1.0000 20 chr19:36545298-36545318 1.0000 20 chr17:54991432-54991452 1.0000 20 chr12:76953662-76953682 1.0000 20 chr11:3071298-3071318 1.0000 20 chr17:1106879-1106899 1.0000 20 chr17:79296818-79296838 1.0000 20 chr7:106684998-106685018 1.0000 20 chr6:139350238-139350258 1.0000 20 chr12:51157715-51157735 1.0000 20 chr10:120840346-12084036 1.0000 20 chr20:33413569-33413589 1.0000 20 chr1:15930163-15930183 1.0000 20 chr22:30661929-30661949 1.0000 20 chr9:129467732-129467752 1.0000 20 chr9:140009195-140009215 1.0000 20 chr2:98612677-98612697 1.0000 20 chr22:36461925-36461945 1.0000 20 chr16:69796199-69796219 1.0000 20 chr16:48645808-48645828 1.0000 20 chr12:116715510-11671553 1.0000 20 chr19:49835021-49835041 1.0000 20 chr12:122064280-12206430 1.0000 20 chr14:65569273-65569293 1.0000 20 chr1:53169073-53169093 1.0000 20 chr2:232063299-232063319 1.0000 20 chr2:216946525-216946545 1.0000 20 chr17:8095609-8095629 1.0000 20 chr17:37037932-37037952 1.0000 20 chr12:65153228-65153248 1.0000 20 chr12:90103114-90103134 1.0000 20 chr15:40857383-40857403 1.0000 20 chr19:4007711-4007731 1.0000 20 chr10:43915968-43915988 1.0000 20 chr16:88923455-88923475 1.0000 20 chr8:72760977-72760997 1.0000 20 chr10:82168253-82168273 1.0000 20 chr17:33895060-33895080 1.0000 20 chr20:5485273-5485293 1.0000 20 chr12:46765212-46765232 1.0000 20 chr22:41593611-41593631 1.0000 20 chr8:99129478-99129498 1.0000 20 chr7:2354049-2354069 1.0000 20 chr2:183903234-183903254 1.0000 20 chr3:53230746-53230766 1.0000 20 chr10:77162185-77162205 1.0000 20 chr2:40006406-40006426 1.0000 20 chr18:32621267-32621287 1.0000 20 chr16:58718671-58718691 1.0000 20 chr11:47939634-47939654 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_USF1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/USF1.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 0.138 C 0.358 G 0.369 T 0.134 Background letter frequencies (from file dataset with add-one prior applied): A 0.138 C 0.358 G 0.369 T 0.134 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GTCACGTG MEME-1 width = 8 sites = 90 llr = 774 E-value = 4.9e-145 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1::a:::: pos.-specific C 13a:a::: probability G 81:::a:a matrix T :7::::a: bits 2.9 * 2.6 * * 2.3 * * 2.0 * * Relative 1.7 * * Entropy 1.4 ** ** (12.4 bits) 1.2 ******* 0.9 ******* 0.6 ******** 0.3 ******** 0.0 -------- Multilevel GTCACGTG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:40006406-40006426 4 1.60e-05 CGG GTCACGTG GCCTCGGGC chr22:36461925-36461945 13 1.60e-05 GCAGAACGCG GTCACGTG chr7:106684998-106685018 13 1.60e-05 GTTTCCGGGG GTCACGTG chr1:21023531-21023551 5 1.60e-05 GCCC GTCACGTG CAGCGCCC chr3:57678861-57678881 13 1.60e-05 GGGGCTGCGG GTCACGTG chr3:44903324-44903344 12 1.60e-05 GGAGCGTCGC GTCACGTG A chr15:73925871-73925891 3 1.60e-05 AG GTCACGTG CCGAGGGCGC chr7:100435126-100435146 9 1.60e-05 GGCCGTCA GTCACGTG GGCA chr5:126112699-126112719 5 1.60e-05 GGTA GTCACGTG GAGGCGCC chr17:6939132-6939152 9 1.60e-05 GTCCCCGC GTCACGTG GGGC chr10:93558126-93558146 8 1.60e-05 GGACGAC GTCACGTG CGCTC chr5:1799987-1800007 13 1.60e-05 GGGGGGGGGG GTCACGTG chr9:132220808-132220828 13 1.60e-05 GCCTGAGAGC GTCACGTG chr17:40719053-40719073 13 1.60e-05 GCGGGCGCGG GTCACGTG chr15:89954824-89954844 9 1.60e-05 GTCGCAGG GTCACGTG CACG chr5:172410741-172410761 4 1.60e-05 CGG GTCACGTG GGGGCGCGG chr11:777513-777533 12 1.60e-05 GAGTTCGCGG GTCACGTG C chr21:46238026-46238046 8 1.60e-05 CACGGGG GTCACGTG GCTGC chr16:9147115-9147135 9 1.60e-05 caaatcca gtcacgtg ccca chr12:6644335-6644355 12 1.60e-05 GCTCTGCGGG GTCACGTG T chr22:39268334-39268354 1 1.60e-05 . GTCACGTG ATCCTCGCGG chr3:158519814-158519834 12 1.60e-05 CTGCCGGGGC GTCACGTG A chr12:66582916-66582936 6 1.60e-05 CTTGC GTCACGTG GGCACCG chr11:107879640-10787966 2 1.60e-05 C GTCACGTG ACGTGGCCGC chr6:150326498-150326518 2 1.60e-05 C GTCACGTG ACAGCGGCCC chr6:36391214-36391234 5 1.60e-05 AGAG GTCACGTG GGCCAGCT chr19:5058069-5058089 6 1.60e-05 accca gtcacgtg gccacac chr2:241526094-241526114 3 1.60e-05 CT GTCACGTG ACCCGAGACC chrX:55744152-55744172 3 1.60e-05 CA GTCACGTG ACAGACTCCG chr10:70883929-70883949 8 1.60e-05 GCCCGAG GTCACGTG ACGGA chr14:35183905-35183925 11 1.60e-05 GGGCGGGGCG GTCACGTG GG chr6:106440476-106440496 6 1.60e-05 GCCCG GTCACGTG ACGCGCG chrX:149716320-149716340 3 1.60e-05 CG GTCACGTG CGCGGCCGCC chr12:54553110-54553130 5 1.60e-05 GAGG GTCACGTG GCTCGGCC chr1:33896735-33896755 6 1.60e-05 CGCGC GTCACGTG GCCGCTC chr17:80455116-80455136 12 1.60e-05 GCCGCCGGCC GTCACGTG G chr1:226271218-226271238 10 1.60e-05 TCGGTCGTT GTCACGTG ACG chrX:100914875-100914895 13 1.60e-05 TCAGCTCCTG GTCACGTG chr13:50159708-50159728 9 1.60e-05 CCCGCCGG GTCACGTG GCCC chr22:39637147-39637167 4 1.60e-05 CGC GTCACGTG ACAGTGGGA chr11:63949186-63949206 3 1.60e-05 AC GTCACGTG ATGCCCAGGC chrX:101975589-101975609 12 1.60e-05 TGACTGCGCA GTCACGTG G chr17:26578408-26578428 13 1.60e-05 GCCGCGGGCG GTCACGTG chr11:7535163-7535183 2 1.60e-05 C GTCACGTG GGCGCCGGCC chr17:42015543-42015563 10 2.19e-05 AGCCCCGGC ATCACGTG ACC chr6:139350238-139350258 4 3.74e-05 CGG CTCACGTG ACGTTTCGC chr1:180471531-180471551 11 3.74e-05 GGCGCGCTCC CTCACGTG AC chr12:121342214-12134223 5 3.74e-05 CACG CTCACGTG ATGCGCGC chr8:99129478-99129498 13 8.00e-05 GACGCTCCAG GCCACGTG chr14:65569273-65569293 6 8.00e-05 CCCCC GCCACGTG ACCAGGC chr11:3071298-3071318 2 8.00e-05 A GCCACGTG ATGCCCCAAG chr6:43337527-43337547 1 8.00e-05 . GCCACGTG ACCCCTGTGG chr21:46675435-46675455 7 8.00e-05 GCCGTG GCCACGTG TCTCTG chr16:68270175-68270195 4 8.00e-05 CCG GCCACGTG ACCGGGGCG chr19:18452217-18452237 1 8.00e-05 . GCCACGTG GGGCGCCAAC chrX:117973490-117973510 4 8.00e-05 GCG GCCACGTG ACAGGGGGG chr17:30186245-30186265 12 8.00e-05 GACGCCGTGG GCCACGTG A chr4:37455491-37455511 4 8.00e-05 CGG GCCACGTG ACGCGCGGG chr11:47939634-47939654 8 8.60e-05 accctga gtcacatg cccac chr8:72760977-72760997 7 8.60e-05 ATGCTA GTCACATG GGGAGC chr19:49835021-49835041 11 8.60e-05 cccaagacca gtcacatg gc chr4:6203594-6203614 13 8.60e-05 gccagagcag gtcacatg chr7:2354049-2354069 3 9.20e-05 CA GTCATGTG AGCCCGCGCT chrX:13671181-13671201 3 1.52e-04 GG ACCACGTG CGCCGGCCTG chr16:4588836-4588856 13 1.52e-04 GGTCTCGGGA GGCACGTG chr21:35748099-35748119 7 1.52e-04 CCGGCT GGCACGTG GCCCGG chr16:1156421-1156441 1 1.52e-04 . ACCACGTG ACCCCGTCCT chr20:443206-443226 8 1.52e-04 ccgcgcc ggcACGTG ACCCT chr11:33037362-33037382 13 1.68e-04 TTGCCAGAGA GACACGTG chr5:150537371-150537391 12 1.68e-04 CTCCGAGCCG GACACGTG G chr20:5485273-5485293 1 2.24e-04 . CCCACGTG ACCGACCAAA chr17:33895060-33895080 6 2.24e-04 GGGCG CCCACGTG ACCCGAT chr9:129467732-129467752 13 2.24e-04 TCAGGTGTAG CCCACGTG chr10:44806711-44806731 5 2.24e-04 CACG CCCACGTG ATATCGcc chr8:8751150-8751170 13 2.24e-04 CGGAGCGGCC CCCACGTG chr3:197025012-197025032 8 2.24e-04 CCGCGCT CCCACGTG ACCGC chr8:10192404-10192424 2 2.24e-04 G CCCACGTG ATGGCTGTTC chr7:140098332-140098352 6 2.24e-04 GGACG CCCACGTG ACCCTCC chr3:170626596-170626616 10 2.24e-04 CCTGGCAAC CCCACGTG CTG chr22:24823513-24823533 2 2.46e-04 C GTGACGTG GCTCACCACA chr3:53230746-53230766 9 3.03e-04 CTGTGCCC AGCACGTG ATCC chr1:2487183-2487203 8 3.03e-04 CACGTGG GTCACGAG GTTCC chr16:81773976-81773996 12 3.03e-04 gtcaagggtg agcacgtg a chr15:41913665-41913685 11 3.03e-04 GCTTGCGACC AGCACGTG AC chr17:21179153-21179173 5 3.25e-04 CGCG GCCATGTG AGCAAGCG chr1:53169073-53169093 6 3.75e-04 TGCAC ATCACGTA GTCCCCA chr9:140009195-140009215 5 5.72e-04 CGGG GTCACGGG GCCGCCAG chr1:173446168-173446188 6 5.72e-04 AGGGG GCAACGTG ACCGAGC chrX:100878118-100878138 12 5.72e-04 TGACCAAGAG CTGACGTG T chr5:141392627-141392647 4 5.72e-04 CGG GTCAcgcg gcgccgcgt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:40006406-40006426 1.6e-05 3_[+1]_9 chr22:36461925-36461945 1.6e-05 12_[+1] chr7:106684998-106685018 1.6e-05 12_[+1] chr1:21023531-21023551 1.6e-05 4_[+1]_8 chr3:57678861-57678881 1.6e-05 12_[+1] chr3:44903324-44903344 1.6e-05 11_[+1]_1 chr15:73925871-73925891 1.6e-05 2_[+1]_10 chr7:100435126-100435146 1.6e-05 8_[+1]_4 chr5:126112699-126112719 1.6e-05 4_[+1]_8 chr17:6939132-6939152 1.6e-05 8_[+1]_4 chr10:93558126-93558146 1.6e-05 7_[+1]_5 chr5:1799987-1800007 1.6e-05 12_[+1] chr9:132220808-132220828 1.6e-05 12_[+1] chr17:40719053-40719073 1.6e-05 12_[+1] chr15:89954824-89954844 1.6e-05 8_[+1]_4 chr5:172410741-172410761 1.6e-05 3_[+1]_9 chr11:777513-777533 1.6e-05 11_[+1]_1 chr21:46238026-46238046 1.6e-05 7_[+1]_5 chr16:9147115-9147135 1.6e-05 8_[+1]_4 chr12:6644335-6644355 1.6e-05 11_[+1]_1 chr22:39268334-39268354 1.6e-05 [+1]_12 chr3:158519814-158519834 1.6e-05 11_[+1]_1 chr12:66582916-66582936 1.6e-05 5_[+1]_7 chr11:107879640-10787966 1.6e-05 1_[+1]_11 chr6:150326498-150326518 1.6e-05 1_[+1]_11 chr6:36391214-36391234 1.6e-05 4_[+1]_8 chr19:5058069-5058089 1.6e-05 5_[+1]_7 chr2:241526094-241526114 1.6e-05 2_[+1]_10 chrX:55744152-55744172 1.6e-05 2_[+1]_10 chr10:70883929-70883949 1.6e-05 7_[+1]_5 chr14:35183905-35183925 1.6e-05 10_[+1]_2 chr6:106440476-106440496 1.6e-05 5_[+1]_7 chrX:149716320-149716340 1.6e-05 2_[+1]_10 chr12:54553110-54553130 1.6e-05 4_[+1]_8 chr1:33896735-33896755 1.6e-05 5_[+1]_7 chr17:80455116-80455136 1.6e-05 11_[+1]_1 chr1:226271218-226271238 1.6e-05 9_[+1]_3 chrX:100914875-100914895 1.6e-05 12_[+1] chr13:50159708-50159728 1.6e-05 8_[+1]_4 chr22:39637147-39637167 1.6e-05 3_[+1]_9 chr11:63949186-63949206 1.6e-05 2_[+1]_10 chrX:101975589-101975609 1.6e-05 11_[+1]_1 chr17:26578408-26578428 1.6e-05 12_[+1] chr11:7535163-7535183 1.6e-05 1_[+1]_11 chr17:42015543-42015563 2.2e-05 9_[+1]_3 chr6:139350238-139350258 3.7e-05 3_[+1]_9 chr1:180471531-180471551 3.7e-05 10_[+1]_2 chr12:121342214-12134223 3.7e-05 4_[+1]_8 chr8:99129478-99129498 8e-05 12_[+1] chr14:65569273-65569293 8e-05 5_[+1]_7 chr11:3071298-3071318 8e-05 1_[+1]_11 chr6:43337527-43337547 8e-05 [+1]_12 chr21:46675435-46675455 8e-05 6_[+1]_6 chr16:68270175-68270195 8e-05 3_[+1]_9 chr19:18452217-18452237 8e-05 [+1]_12 chrX:117973490-117973510 8e-05 3_[+1]_9 chr17:30186245-30186265 8e-05 11_[+1]_1 chr4:37455491-37455511 8e-05 3_[+1]_9 chr11:47939634-47939654 8.6e-05 7_[+1]_5 chr8:72760977-72760997 8.6e-05 6_[+1]_6 chr19:49835021-49835041 8.6e-05 10_[+1]_2 chr4:6203594-6203614 8.6e-05 12_[+1] chr7:2354049-2354069 9.2e-05 2_[+1]_10 chrX:13671181-13671201 0.00015 2_[+1]_10 chr16:4588836-4588856 0.00015 12_[+1] chr21:35748099-35748119 0.00015 6_[+1]_6 chr16:1156421-1156441 0.00015 [+1]_12 chr20:443206-443226 0.00015 7_[+1]_5 chr11:33037362-33037382 0.00017 12_[+1] chr5:150537371-150537391 0.00017 11_[+1]_1 chr20:5485273-5485293 0.00022 [+1]_12 chr17:33895060-33895080 0.00022 5_[+1]_7 chr9:129467732-129467752 0.00022 12_[+1] chr10:44806711-44806731 0.00022 4_[+1]_8 chr8:8751150-8751170 0.00022 12_[+1] chr3:197025012-197025032 0.00022 7_[+1]_5 chr8:10192404-10192424 0.00022 1_[+1]_11 chr7:140098332-140098352 0.00022 5_[+1]_7 chr3:170626596-170626616 0.00022 9_[+1]_3 chr22:24823513-24823533 0.00025 1_[+1]_11 chr3:53230746-53230766 0.0003 8_[+1]_4 chr1:2487183-2487203 0.0003 7_[+1]_5 chr16:81773976-81773996 0.0003 11_[+1]_1 chr15:41913665-41913685 0.0003 10_[+1]_2 chr17:21179153-21179173 0.00033 4_[+1]_8 chr1:53169073-53169093 0.00037 5_[+1]_7 chr9:140009195-140009215 0.00057 4_[+1]_8 chr1:173446168-173446188 0.00057 5_[+1]_7 chrX:100878118-100878138 0.00057 11_[+1]_1 chr5:141392627-141392647 0.00057 3_[+1]_9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTCACGTG width=8 seqs=90 chr2:40006406-40006426 ( 4) GTCACGTG 1 chr22:36461925-36461945 ( 13) GTCACGTG 1 chr7:106684998-106685018 ( 13) GTCACGTG 1 chr1:21023531-21023551 ( 5) GTCACGTG 1 chr3:57678861-57678881 ( 13) GTCACGTG 1 chr3:44903324-44903344 ( 12) GTCACGTG 1 chr15:73925871-73925891 ( 3) GTCACGTG 1 chr7:100435126-100435146 ( 9) GTCACGTG 1 chr5:126112699-126112719 ( 5) GTCACGTG 1 chr17:6939132-6939152 ( 9) GTCACGTG 1 chr10:93558126-93558146 ( 8) GTCACGTG 1 chr5:1799987-1800007 ( 13) GTCACGTG 1 chr9:132220808-132220828 ( 13) GTCACGTG 1 chr17:40719053-40719073 ( 13) GTCACGTG 1 chr15:89954824-89954844 ( 9) GTCACGTG 1 chr5:172410741-172410761 ( 4) GTCACGTG 1 chr11:777513-777533 ( 12) GTCACGTG 1 chr21:46238026-46238046 ( 8) GTCACGTG 1 chr16:9147115-9147135 ( 9) GTCACGTG 1 chr12:6644335-6644355 ( 12) GTCACGTG 1 chr22:39268334-39268354 ( 1) GTCACGTG 1 chr3:158519814-158519834 ( 12) GTCACGTG 1 chr12:66582916-66582936 ( 6) GTCACGTG 1 chr11:107879640-10787966 ( 2) GTCACGTG 1 chr6:150326498-150326518 ( 2) GTCACGTG 1 chr6:36391214-36391234 ( 5) GTCACGTG 1 chr19:5058069-5058089 ( 6) GTCACGTG 1 chr2:241526094-241526114 ( 3) GTCACGTG 1 chrX:55744152-55744172 ( 3) GTCACGTG 1 chr10:70883929-70883949 ( 8) GTCACGTG 1 chr14:35183905-35183925 ( 11) GTCACGTG 1 chr6:106440476-106440496 ( 6) GTCACGTG 1 chrX:149716320-149716340 ( 3) GTCACGTG 1 chr12:54553110-54553130 ( 5) GTCACGTG 1 chr1:33896735-33896755 ( 6) GTCACGTG 1 chr17:80455116-80455136 ( 12) GTCACGTG 1 chr1:226271218-226271238 ( 10) GTCACGTG 1 chrX:100914875-100914895 ( 13) GTCACGTG 1 chr13:50159708-50159728 ( 9) GTCACGTG 1 chr22:39637147-39637167 ( 4) GTCACGTG 1 chr11:63949186-63949206 ( 3) GTCACGTG 1 chrX:101975589-101975609 ( 12) GTCACGTG 1 chr17:26578408-26578428 ( 13) GTCACGTG 1 chr11:7535163-7535183 ( 2) GTCACGTG 1 chr17:42015543-42015563 ( 10) ATCACGTG 1 chr6:139350238-139350258 ( 4) CTCACGTG 1 chr1:180471531-180471551 ( 11) CTCACGTG 1 chr12:121342214-12134223 ( 5) CTCACGTG 1 chr8:99129478-99129498 ( 13) GCCACGTG 1 chr14:65569273-65569293 ( 6) GCCACGTG 1 chr11:3071298-3071318 ( 2) GCCACGTG 1 chr6:43337527-43337547 ( 1) GCCACGTG 1 chr21:46675435-46675455 ( 7) GCCACGTG 1 chr16:68270175-68270195 ( 4) GCCACGTG 1 chr19:18452217-18452237 ( 1) GCCACGTG 1 chrX:117973490-117973510 ( 4) GCCACGTG 1 chr17:30186245-30186265 ( 12) GCCACGTG 1 chr4:37455491-37455511 ( 4) GCCACGTG 1 chr11:47939634-47939654 ( 8) GTCACATG 1 chr8:72760977-72760997 ( 7) GTCACATG 1 chr19:49835021-49835041 ( 11) GTCACATG 1 chr4:6203594-6203614 ( 13) GTCACATG 1 chr7:2354049-2354069 ( 3) GTCATGTG 1 chrX:13671181-13671201 ( 3) ACCACGTG 1 chr16:4588836-4588856 ( 13) GGCACGTG 1 chr21:35748099-35748119 ( 7) GGCACGTG 1 chr16:1156421-1156441 ( 1) ACCACGTG 1 chr20:443206-443226 ( 8) GGCACGTG 1 chr11:33037362-33037382 ( 13) GACACGTG 1 chr5:150537371-150537391 ( 12) GACACGTG 1 chr20:5485273-5485293 ( 1) CCCACGTG 1 chr17:33895060-33895080 ( 6) CCCACGTG 1 chr9:129467732-129467752 ( 13) CCCACGTG 1 chr10:44806711-44806731 ( 5) CCCACGTG 1 chr8:8751150-8751170 ( 13) CCCACGTG 1 chr3:197025012-197025032 ( 8) CCCACGTG 1 chr8:10192404-10192424 ( 2) CCCACGTG 1 chr7:140098332-140098352 ( 6) CCCACGTG 1 chr3:170626596-170626616 ( 10) CCCACGTG 1 chr22:24823513-24823533 ( 2) GTGACGTG 1 chr3:53230746-53230766 ( 9) AGCACGTG 1 chr1:2487183-2487203 ( 8) GTCACGAG 1 chr16:81773976-81773996 ( 12) AGCACGTG 1 chr15:41913665-41913685 ( 11) AGCACGTG 1 chr17:21179153-21179173 ( 5) GCCATGTG 1 chr1:53169073-53169093 ( 6) ATCACGTA 1 chr9:140009195-140009215 ( 5) GTCACGGG 1 chr1:173446168-173446188 ( 6) GCAACGTG 1 chrX:100878118-100878138 ( 12) CTGACGTG 1 chr5:141392627-141392647 ( 4) GTCACGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.20048 E= 4.9e-145 -83 -131 107 -1314 -264 -49 -247 229 -364 143 -405 -1314 285 -1314 -1314 -1314 -1314 145 -1314 -259 -164 -1314 137 -1314 -364 -501 -505 285 -364 -1314 142 -1314 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 90 E= 4.9e-145 0.077778 0.144444 0.777778 0.000000 0.022222 0.255556 0.066667 0.655556 0.011111 0.966667 0.022222 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.977778 0.000000 0.022222 0.044444 0.000000 0.955556 0.000000 0.011111 0.011111 0.011111 0.966667 0.011111 0.000000 0.988889 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTCACGTG MEME-1 regular expression -------------------------------------------------------------------------------- G[TC]CACGTG -------------------------------------------------------------------------------- Time 2.72 secs. ******************************************************************************** ******************************************************************************** MOTIF TTGGCTGA MEME-2 width = 8 sites = 14 llr = 119 E-value = 1.9e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 2:2::::6 pos.-specific C 13::a::2 probability G ::8a::a1 matrix T 67:::a:1 bits 2.9 * 2.6 * 2.3 * 2.0 * Relative 1.7 * * Entropy 1.4 ** **** (12.3 bits) 1.2 ** ***** 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TTGGCTGA consensus ACA C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr12:90103114-90103134 7 5.97e-06 gccgcc TTGGCTGA GCGCGG chr16:48645808-48645828 5 5.97e-06 GGGA TTGGCTGA GGCAGGTC chr3:129147506-129147526 1 5.97e-06 . TTGGCTGA GCGCTGTCAC chr7:27135690-27135710 6 1.44e-05 AGCCA ATGGCTGA GCCTCCT chr2:232063299-232063319 1 4.81e-05 . TTGGCTGC GCCGCCCCCA chr20:40321486-40321506 2 4.81e-05 G TTGGCTGC ACAGGTCACG chr11:1785164-1785184 2 5.41e-05 A TCAGCTGA CCCGCGTGTT chr8:104033268-104033288 13 5.41e-05 CGCGCCGCGG TCAGCTGA chr1:1015675-1015695 9 8.38e-05 CACAGGTC CTGGCTGA CCAC chrX:101914815-101914835 1 8.98e-05 . CTAGCTGA CTGCGCAGTC chr11:68606846-68606866 7 1.06e-04 CACGTG ACGGCTGA GAAAAG chr5:112073511-112073531 8 1.38e-04 CCGCCGA TTGGCTGG GTGTG chr8:10192404-10192424 10 1.50e-04 GCCCACGTG ATGGCTGT TCG chr12:59314386-59314406 3 2.06e-04 AC TCGGCTGC GGGCGTCCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:90103114-90103134 6e-06 6_[+2]_6 chr16:48645808-48645828 6e-06 4_[+2]_8 chr3:129147506-129147526 6e-06 [+2]_12 chr7:27135690-27135710 1.4e-05 5_[+2]_7 chr2:232063299-232063319 4.8e-05 [+2]_12 chr20:40321486-40321506 4.8e-05 1_[+2]_11 chr11:1785164-1785184 5.4e-05 1_[+2]_11 chr8:104033268-104033288 5.4e-05 12_[+2] chr1:1015675-1015695 8.4e-05 8_[+2]_4 chrX:101914815-101914835 9e-05 [+2]_12 chr11:68606846-68606866 0.00011 6_[+2]_6 chr5:112073511-112073531 0.00014 7_[+2]_5 chr8:10192404-10192424 0.00015 9_[+2]_3 chr12:59314386-59314406 0.00021 2_[+2]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTGGCTGA width=8 seqs=14 chr12:90103114-90103134 ( 7) TTGGCTGA 1 chr16:48645808-48645828 ( 5) TTGGCTGA 1 chr3:129147506-129147526 ( 1) TTGGCTGA 1 chr7:27135690-27135710 ( 6) ATGGCTGA 1 chr2:232063299-232063319 ( 1) TTGGCTGC 1 chr20:40321486-40321506 ( 2) TTGGCTGC 1 chr11:1785164-1785184 ( 2) TCAGCTGA 1 chr8:104033268-104033288 ( 13) TCAGCTGA 1 chr1:1015675-1015695 ( 9) CTGGCTGA 1 chrX:101914815-101914835 ( 1) CTAGCTGA 1 chr11:68606846-68606866 ( 7) ACGGCTGA 1 chr5:112073511-112073531 ( 8) TTGGCTGG 1 chr8:10192404-10192424 ( 10) ATGGCTGT 1 chr12:59314386-59314406 ( 3) TCGGCTGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.0786 E= 1.9e+000 63 -132 -1045 226 -1045 -33 -1045 241 63 -1045 109 -1045 -1045 -1045 144 -1045 -1045 148 -1045 -1045 -1045 -1045 -1045 290 -1045 -1045 144 -1045 221 -74 -237 -91 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 1.9e+000 0.214286 0.142857 0.000000 0.642857 0.000000 0.285714 0.000000 0.714286 0.214286 0.000000 0.785714 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 0.642857 0.214286 0.071429 0.071429 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGGCTGA MEME-2 regular expression -------------------------------------------------------------------------------- [TA][TC][GA]GCTG[AC] -------------------------------------------------------------------------------- Time 3.83 secs. ******************************************************************************** ******************************************************************************** MOTIF KGTCACGT MEME-3 width = 8 sites = 5 llr = 52 E-value = 9.8e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::::a::: pos.-specific C :::8:a:: probability G 4a:2::a: matrix T 6:a::::a bits 2.9 * * * 2.6 * * * 2.3 * * * 2.0 * * * Relative 1.7 * * * Entropy 1.4 *** **** (15.1 bits) 1.2 *** **** 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TGTCACGT consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:154810283-154810303 13 5.79e-06 AGCTGCCTCT TGTCACGT chr3:129147506-129147526 13 5.79e-06 GGCTGAGCGC TGTCACGT chr12:72148624-72148644 13 1.18e-05 TGACCCGAGG TGTGACGT chr20:40321486-40321506 13 2.77e-05 TGGCTGCACA GGTCACGT chr6:31865484-31865504 13 2.77e-05 ggccgccccg ggTCACGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:154810283-154810303 5.8e-06 12_[+3] chr3:129147506-129147526 5.8e-06 12_[+3] chr12:72148624-72148644 1.2e-05 12_[+3] chr20:40321486-40321506 2.8e-05 12_[+3] chr6:31865484-31865504 2.8e-05 12_[+3] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KGTCACGT width=8 seqs=5 chr1:154810283-154810303 ( 13) TGTCACGT 1 chr3:129147506-129147526 ( 13) TGTCACGT 1 chr12:72148624-72148644 ( 13) TGTGACGT 1 chr20:40321486-40321506 ( 13) GGTCACGT 1 chr6:31865484-31865504 ( 13) GGTCACGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.59397 E= 9.8e+002 -897 -897 11 216 -897 -897 144 -897 -897 -897 -897 290 -897 116 -88 -897 285 -897 -897 -897 -897 148 -897 -897 -897 -897 144 -897 -897 -897 -897 290 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 9.8e+002 0.000000 0.000000 0.400000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.800000 0.200000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGTCACGT MEME-3 regular expression -------------------------------------------------------------------------------- [TG]GT[CG]ACGT -------------------------------------------------------------------------------- Time 5.22 secs. ******************************************************************************** ******************************************************************************** MOTIF CAATCAWC MEME-4 width = 8 sites = 2 llr = 25 E-value = 1.9e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :aa::a5: pos.-specific C a:::a::a probability G :::::::: matrix T :::a::5: bits 2.9 *** * 2.6 *** * 2.3 *** * 2.0 *** * Relative 1.7 *** ** Entropy 1.4 ******** (17.8 bits) 1.2 ******** 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel CAATCAAC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr9:34646594-34646614 9 2.17e-06 CGGCTGGC CAATCATC GGGG chr22:41047825-41047845 2 4.40e-06 c caatcaac atggccaCAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:34646594-34646614 2.2e-06 8_[+4]_4 chr22:41047825-41047845 4.4e-06 1_[+4]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAATCAWC width=8 seqs=2 chr9:34646594-34646614 ( 9) CAATCATC 1 chr22:41047825-41047845 ( 2) CAATCAAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 1.9e+003 -765 148 -765 -765 285 -765 -765 -765 285 -765 -765 -765 -765 -765 -765 289 -765 148 -765 -765 285 -765 -765 -765 185 -765 -765 189 -765 148 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.9e+003 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAATCAWC MEME-4 regular expression -------------------------------------------------------------------------------- CAATCA[AT]C -------------------------------------------------------------------------------- Time 6.05 secs. ******************************************************************************** ******************************************************************************** MOTIF TASATTGG MEME-5 width = 8 sites = 2 llr = 25 E-value = 2.5e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :a:a:::: pos.-specific C ::5::::: probability G ::5:::aa matrix T a:::aa:: bits 2.9 ** *** 2.6 ** *** 2.3 ** *** 2.0 ** *** Relative 1.7 ** *** Entropy 1.4 ** ***** (17.7 bits) 1.2 ** ***** 0.9 ** ***** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TACATTGG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr10:77162185-77162205 13 4.54e-06 CGGGGACGCG TAGATTGG chr3:14393719-14393739 11 4.54e-06 aatcctctcc tacattgg cc -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:77162185-77162205 4.5e-06 12_[+5] chr3:14393719-14393739 4.5e-06 10_[+5]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TASATTGG width=8 seqs=2 chr10:77162185-77162205 ( 13) TAGATTGG 1 chr3:14393719-14393739 ( 11) TACATTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 2.5e+003 -765 -765 -765 289 285 -765 -765 -765 -765 48 44 -765 285 -765 -765 -765 -765 -765 -765 289 -765 -765 -765 289 -765 -765 143 -765 -765 -765 143 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.5e+003 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TASATTGG MEME-5 regular expression -------------------------------------------------------------------------------- TA[CG]ATTGG -------------------------------------------------------------------------------- Time 6.75 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:27170578-27170598 1.72e-01 20 chr1:1015675-1015695 7.40e-02 8_[+2(8.38e-05)]_4 chr11:7535163-7535183 1.48e-04 1_[+1(1.60e-05)]_11 chr4:37455491-37455511 3.68e-03 3_[+1(8.00e-05)]_9 chr17:26578408-26578428 1.05e-04 12_[+1(1.60e-05)] chrX:101975589-101975609 4.38e-06 11_[+1(1.60e-05)]_1 chr8:142402064-142402084 5.92e-01 20 chr11:63949186-63949206 1.52e-04 2_[+1(1.60e-05)]_10 chr22:39637147-39637167 1.05e-05 3_[+1(1.60e-05)]_9 chr7:6312311-6312331 4.81e-01 20 chr13:50159708-50159728 5.06e-05 8_[+1(1.60e-05)]_4 chr5:141392627-141392647 2.82e-02 20 chr15:40213182-40213202 9.92e-01 20 chr6:158653183-158653203 8.24e-01 20 chr16:67184878-67184898 1.36e-01 20 chr20:443206-443226 2.07e-02 20 chr15:41913665-41913685 4.30e-02 20 chr16:1156421-1156441 5.55e-02 20 chrX:30671289-30671309 9.80e-01 20 chr17:19552015-19552035 7.00e-01 20 chrX:100914875-100914895 2.23e-05 12_[+1(1.60e-05)] chr5:150537371-150537391 8.47e-03 20 chr3:170626596-170626616 3.32e-02 20 chr1:226271218-226271238 1.04e-05 8_[+3(5.79e-06)]_4 chr8:145692282-145692302 6.80e-02 20 chr17:80455116-80455136 4.83e-05 11_[+1(1.60e-05)]_1 chr3:148709264-148709284 9.42e-01 20 chr17:21179153-21179173 2.03e-02 20 chr18:60742533-60742553 5.30e-02 20 chrX:100878118-100878138 9.26e-04 20 chr5:112073511-112073531 1.60e-02 20 chr1:33896735-33896755 1.02e-04 5_[+1(1.60e-05)]_7 chr17:42015543-42015563 5.35e-04 9_[+1(2.19e-05)]_3 chr16:1458291-1458311 9.70e-01 20 chr16:81773976-81773996 1.14e-02 20 chr22:41418647-41418667 9.57e-01 20 chr3:184032299-184032319 9.71e-01 20 chrX:101914815-101914835 5.42e-02 [+2(8.98e-05)]_12 chr12:121063753-12106377 2.76e-01 20 chr9:96793024-96793044 1.83e-02 20 chr12:59314386-59314406 1.43e-01 20 chr6:31865484-31865504 2.39e-02 12_[+3(2.77e-05)] chr2:30370752-30370772 1.75e-02 20 chr17:79439207-79439227 6.32e-02 20 chr1:220445869-220445889 9.77e-01 20 chr17:30186245-30186265 4.63e-03 11_[+1(8.00e-05)]_1 chr11:68606846-68606866 1.49e-02 20 chr12:54553110-54553130 3.21e-05 4_[+1(1.60e-05)]_8 chr7:27135690-27135710 8.49e-03 5_[+2(1.44e-05)]_7 chr10:33269590-33269610 7.23e-01 20 chrX:149716320-149716340 4.83e-05 2_[+1(1.60e-05)]_10 chr16:29832581-29832601 1.71e-01 20 chr20:31407583-31407603 8.11e-01 20 chrX:117973490-117973510 1.44e-03 3_[+1(8.00e-05)]_9 chr1:155294218-155294238 9.99e-01 20 chr1:173446168-173446188 5.72e-02 20 chrX:102883817-102883837 1.66e-01 20 chr22:23612110-23612130 5.25e-02 20 chr5:68628635-68628655 9.62e-01 20 chr12:42632180-42632200 7.09e-01 20 chr2:26987126-26987146 6.19e-01 20 chrX:102470020-102470040 4.53e-01 20 chr7:140098332-140098352 2.72e-02 20 chr7:2393702-2393722 9.32e-01 20 chr7:102073882-102073902 6.56e-01 20 chr16:84178761-84178781 9.71e-01 20 chr14:92573063-92573083 5.07e-01 20 chr18:9914001-9914021 9.30e-01 20 chr19:5680990-5681010 1.99e-01 20 chr6:106440476-106440496 4.03e-05 5_[+1(1.60e-05)]_7 chr22:20850172-20850192 9.43e-01 20 chr21:37442111-37442131 3.89e-01 20 chr3:194854402-194854422 4.50e-03 20 chr9:19127555-19127575 8.18e-01 20 chr14:35183905-35183925 2.87e-05 10_[+1(1.60e-05)]_2 chr17:7819262-7819282 5.94e-01 20 chr1:2487183-2487203 5.47e-03 20 chr10:70883929-70883949 5.05e-05 7_[+1(1.60e-05)]_5 chr16:85590859-85590879 3.17e-01 20 chr20:40321486-40321506 8.12e-05 1_[+2(4.81e-05)]_3_[+3(2.77e-05)] chr3:33318879-33318899 9.64e-02 20 chr19:8305382-8305402 5.82e-01 20 chr15:44084264-44084284 9.43e-01 20 chr22:31002799-31002819 5.71e-01 20 chr12:72148624-72148644 1.17e-02 12_[+3(1.18e-05)] chr8:10192404-10192424 6.05e-04 20 chr1:35497363-35497383 7.46e-01 20 chr22:50541598-50541618 2.51e-01 20 chrX:55744152-55744172 1.06e-05 2_[+1(1.60e-05)]_10 chr19:18452217-18452237 3.40e-02 [+1(8.00e-05)]_12 chr13:21635703-21635723 5.16e-02 20 chr2:241526094-241526114 1.14e-05 1_[+3(5.79e-06)]_11 chr22:42394694-42394714 4.12e-01 20 chr11:65245044-65245064 9.88e-01 20 chr1:44440574-44440594 8.18e-01 20 chr3:14393719-14393739 1.18e-02 10_[+5(4.54e-06)]_2 chr10:25305508-25305528 8.91e-01 20 chr19:5058069-5058089 2.20e-05 5_[+1(1.60e-05)]_7 chr9:138391735-138391755 1.00e-01 20 chr21:38936175-38936195 9.78e-01 20 chr21:35748099-35748119 1.87e-04 20 chr6:18122892-18122912 5.54e-03 20 chr8:104033268-104033288 2.72e-03 12_[+2(5.41e-05)] chr6:36391214-36391234 4.56e-05 4_[+1(1.60e-05)]_8 chr5:176730726-176730746 9.61e-01 20 chr9:126030871-126030891 8.91e-01 20 chr11:61501038-61501058 1.19e-01 20 chr17:26698395-26698415 9.51e-01 20 chr6:150326498-150326518 3.56e-05 1_[+1(1.60e-05)]_11 chr2:42396374-42396394 8.32e-01 20 chr11:107879640-10787966 7.26e-05 1_[+1(1.60e-05)]_11 chr19:45504560-45504580 9.31e-01 20 chr3:197025012-197025032 1.47e-02 20 chr2:220083844-220083864 9.59e-02 20 chr1:159750763-159750783 9.79e-01 20 chr7:105222000-105222020 1.32e-01 20 chr22:35695858-35695878 5.09e-01 20 chr12:66582916-66582936 1.10e-04 5_[+1(1.60e-05)]_7 chr2:160143132-160143152 5.01e-01 20 chr4:6203594-6203614 2.18e-03 12_[+1(8.60e-05)] chr3:169899570-169899590 9.31e-01 20 chr16:68270175-68270195 3.33e-03 3_[+1(8.00e-05)]_9 chr17:18908144-18908164 9.93e-01 20 chr8:8751150-8751170 1.09e-01 20 chr2:208576134-208576154 9.88e-01 20 chr15:72565010-72565030 1.13e-01 20 chr14:93799485-93799505 8.66e-01 20 chr11:33037362-33037382 8.81e-03 20 chrX:131157719-131157739 7.03e-01 20 chr3:158519814-158519834 1.68e-04 11_[+1(1.60e-05)]_1 chr22:39268334-39268354 4.30e-03 [+1(1.60e-05)]_12 chr17:55055480-55055500 7.06e-01 20 chr12:6644335-6644355 8.33e-05 11_[+1(1.60e-05)]_1 chr16:9147115-9147135 1.18e-05 8_[+1(1.60e-05)]_4 chr21:46238026-46238046 5.52e-06 7_[+1(1.60e-05)]_5 chr7:47513593-47513613 5.69e-01 20 chr11:777513-777533 7.07e-05 11_[+1(1.60e-05)]_1 chr5:172410741-172410761 4.56e-05 3_[+1(1.60e-05)]_9 chr15:89954824-89954844 9.05e-05 8_[+1(1.60e-05)]_4 chr5:36725329-36725349 4.96e-02 20 chr3:194207726-194207746 3.47e-01 20 chr10:44806711-44806731 1.10e-02 20 chr5:132299353-132299373 9.46e-01 20 chr15:50979024-50979044 9.81e-01 20 chr1:42921709-42921729 1.02e-01 20 chr5:131132830-131132850 6.92e-01 20 chr22:41047825-41047845 1.22e-04 1_[+4(4.40e-06)]_11 chr16:88877898-88877918 8.13e-01 20 chr17:40719053-40719073 1.98e-04 12_[+1(1.60e-05)] chr12:121342214-12134223 4.49e-04 4_[+1(3.74e-05)]_8 chr12:112451176-11245119 7.93e-01 20 chr11:64781521-64781541 6.37e-01 20 chr11:72463471-72463491 9.37e-01 20 chr9:132220808-132220828 9.37e-05 12_[+1(1.60e-05)] chr1:151170912-151170932 7.29e-01 20 chr5:1799987-1800007 2.43e-04 12_[+1(1.60e-05)] chr13:50366856-50366876 7.16e-01 20 chr4:176986956-176986976 4.76e-01 20 chr1:26232966-26232986 5.64e-01 20 chr9:34646594-34646614 1.33e-03 8_[+4(2.17e-06)]_4 chr2:8977720-8977740 7.58e-01 20 chr9:79008942-79008962 9.77e-01 20 chr16:4588836-4588856 1.94e-02 20 chr21:44299190-44299210 9.34e-01 20 chr19:14477644-14477664 1.21e-01 20 chr10:93558126-93558146 2.09e-04 7_[+1(1.60e-05)]_5 chr19:40324865-40324885 2.58e-01 20 chr1:68962814-68962834 9.21e-01 20 chr9:131709921-131709941 9.71e-01 20 chr11:8615829-8615849 8.16e-01 20 chr17:6939132-6939152 1.10e-04 8_[+1(1.60e-05)]_4 chr17:55163541-55163561 9.33e-01 20 chr11:1785164-1785184 1.66e-02 1_[+2(5.41e-05)]_11 chr12:57984976-57984996 4.41e-01 20 chr21:46675435-46675455 4.50e-03 6_[+1(8.00e-05)]_6 chr1:180471531-180471551 1.59e-03 10_[+1(3.74e-05)]_2 chr5:126112699-126112719 6.52e-05 4_[+1(1.60e-05)]_8 chr17:46688424-46688444 5.03e-01 20 chr22:24823513-24823533 1.18e-03 20 chr2:176867062-176867082 9.27e-01 20 chr21:38445505-38445525 5.10e-01 20 chr7:100435126-100435146 1.62e-05 8_[+1(1.60e-05)]_4 chr14:91580956-91580976 5.09e-01 20 chr9:115913210-115913230 9.92e-01 20 chr9:131451203-131451223 1.29e-01 20 chr19:46094373-46094393 9.62e-01 20 chrX:13671181-13671201 2.99e-02 20 chr3:129147506-129147526 1.13e-05 [+2(5.97e-06)]_4_[+3(5.79e-06)] chr15:73925871-73925891 9.05e-05 2_[+1(1.60e-05)]_10 chr3:44903324-44903344 1.02e-04 11_[+1(1.60e-05)]_1 chr3:126076272-126076292 6.57e-01 20 chr7:155089505-155089525 8.61e-01 20 chr16:4466817-4466837 3.71e-01 20 chr2:50201358-50201378 5.55e-01 20 chr6:43337527-43337547 3.01e-02 [+1(8.00e-05)]_12 chr3:57678861-57678881 8.84e-05 12_[+1(1.60e-05)] chr20:37590820-37590840 7.64e-01 20 chr1:154810283-154810303 2.84e-03 12_[+3(5.79e-06)] chr1:21023531-21023551 1.33e-04 4_[+1(1.60e-05)]_8 chr17:79791187-79791207 9.95e-01 20 chr16:81812875-81812895 9.19e-01 20 chr19:36545298-36545318 5.82e-01 20 chr17:54991432-54991452 5.46e-01 20 chr12:76953662-76953682 4.65e-01 20 chr11:3071298-3071318 9.88e-03 1_[+1(8.00e-05)]_11 chr17:1106879-1106899 2.62e-01 20 chr17:79296818-79296838 7.59e-01 20 chr7:106684998-106685018 7.66e-05 12_[+1(1.60e-05)] chr6:139350238-139350258 3.34e-04 3_[+1(3.74e-05)]_9 chr12:51157715-51157735 1.66e-01 20 chr10:120840346-12084036 9.08e-01 20 chr20:33413569-33413589 6.81e-01 20 chr1:15930163-15930183 5.43e-01 20 chr22:30661929-30661949 9.28e-01 20 chr9:129467732-129467752 2.83e-03 20 chr9:140009195-140009215 2.59e-02 20 chr2:98612677-98612697 6.90e-01 20 chr22:36461925-36461945 1.02e-04 12_[+1(1.60e-05)] chr16:69796199-69796219 6.46e-01 20 chr16:48645808-48645828 8.28e-04 4_[+2(5.97e-06)]_8 chr12:116715510-11671553 9.70e-01 20 chr19:49835021-49835041 2.83e-04 10_[+1(8.60e-05)]_2 chr12:122064280-12206430 9.62e-01 20 chr14:65569273-65569293 8.82e-03 5_[+1(8.00e-05)]_7 chr1:53169073-53169093 7.77e-03 20 chr2:232063299-232063319 5.41e-02 [+2(4.81e-05)]_12 chr2:216946525-216946545 6.44e-01 20 chr17:8095609-8095629 1.75e-01 20 chr17:37037932-37037952 4.29e-01 20 chr12:65153228-65153248 7.31e-01 20 chr12:90103114-90103134 1.31e-02 6_[+2(5.97e-06)]_6 chr15:40857383-40857403 5.33e-01 20 chr19:4007711-4007731 1.89e-01 20 chr10:43915968-43915988 9.69e-01 20 chr16:88923455-88923475 9.38e-01 20 chr8:72760977-72760997 2.89e-04 6_[+1(8.60e-05)]_6 chr10:82168253-82168273 7.68e-01 20 chr17:33895060-33895080 2.94e-02 20 chr20:5485273-5485293 2.88e-02 20 chr12:46765212-46765232 3.24e-01 20 chr22:41593611-41593631 3.79e-01 20 chr8:99129478-99129498 3.24e-03 12_[+1(8.00e-05)] chr7:2354049-2354069 1.05e-04 2_[+1(9.20e-05)]_10 chr2:183903234-183903254 9.89e-01 20 chr3:53230746-53230766 6.22e-02 20 chr10:77162185-77162205 1.11e-03 12_[+5(4.54e-06)] chr2:40006406-40006426 6.14e-05 3_[+1(1.60e-05)]_9 chr18:32621267-32621287 1.85e-01 20 chr16:58718671-58718691 8.66e-01 20 chr11:47939634-47939654 1.33e-03 7_[+1(8.60e-05)]_5 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n04.farnam.hpc.yale.internal ********************************************************************************