******************************************************************************** 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/K562/fasta/RankLinear0.6_40/THRAP3.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr6:146864170-146864250 1.0000 80 chr1:167487551-167487631 1.0000 80 chr10:121357451-12135753 1.0000 80 chr1:27017951-27018031 1.0000 80 chr12:49666779-49666859 1.0000 80 chr22:39929402-39929482 1.0000 80 chr6:74229554-74229634 1.0000 80 chrX:135956404-135956484 1.0000 80 chr12:49111664-49111744 1.0000 80 chr19:1655288-1655368 1.0000 80 chr17:4698978-4699058 1.0000 80 chr1:31539310-31539390 1.0000 80 chr2:70477682-70477762 1.0000 80 chr11:65276470-65276550 1.0000 80 chr17:37492643-37492723 1.0000 80 chr5:180454603-180454683 1.0000 80 chr7:102614494-102614574 1.0000 80 chr1:202857169-202857249 1.0000 80 chr1:24152545-24152625 1.0000 80 chr5:179124765-179124845 1.0000 80 chr6:35657460-35657540 1.0000 80 chr11:9405608-9405688 1.0000 80 chr1:235292703-235292783 1.0000 80 chr6:3173431-3173511 1.0000 80 chr18:2541833-2541913 1.0000 80 chr9:135230919-135230999 1.0000 80 chr6:31369041-31369121 1.0000 80 chr2:172778297-172778377 1.0000 80 chr11:67387780-67387860 1.0000 80 chr7:158653236-158653316 1.0000 80 chr1:149784823-149784903 1.0000 80 chr19:8444705-8444785 1.0000 80 chr11:62610135-62610215 1.0000 80 chr7:5467116-5467196 1.0000 80 chr22:21296589-21296669 1.0000 80 chr3:4509369-4509449 1.0000 80 chr12:93709473-93709553 1.0000 80 chr6:34630451-34630531 1.0000 80 chr4:100764740-100764820 1.0000 80 chr12:111889458-11188953 1.0000 80 chr6:140468707-140468787 1.0000 80 chr1:45246313-45246393 1.0000 80 chr1:182353596-182353676 1.0000 80 chr1:16163696-16163776 1.0000 80 chr2:3382971-3383051 1.0000 80 chr10:50391367-50391447 1.0000 80 chr1:215740005-215740085 1.0000 80 chr17:30229254-30229334 1.0000 80 chr3:3167821-3167901 1.0000 80 chr16:9183640-9183720 1.0000 80 chr1:151226752-151226832 1.0000 80 chr10:12085741-12085821 1.0000 80 chr7:99685911-99685991 1.0000 80 chr6:15110131-15110211 1.0000 80 chr2:7020083-7020163 1.0000 80 chr1:153699760-153699840 1.0000 80 chr5:43038967-43039047 1.0000 80 chr10:75715571-75715651 1.0000 80 chr1:156163014-156163094 1.0000 80 chr11:82877253-82877333 1.0000 80 chr1:200640781-200640861 1.0000 80 chr1:168147490-168147570 1.0000 80 chr20:34043727-34043807 1.0000 80 chr4:6735531-6735611 1.0000 80 chr5:132299948-132300028 1.0000 80 chr7:72937437-72937517 1.0000 80 chr1:206808202-206808282 1.0000 80 chr12:116819370-11681945 1.0000 80 chr3:37035847-37035927 1.0000 80 chr3:44804114-44804194 1.0000 80 chr12:57910665-57910745 1.0000 80 chr1:173684991-173685071 1.0000 80 chr16:184501-184581 1.0000 80 chr6:161411730-161411810 1.0000 80 chr6:16268628-16268708 1.0000 80 chr15:65595687-65595767 1.0000 80 chr3:152769071-152769151 1.0000 80 chr16:3768200-3768280 1.0000 80 chr3:42641410-42641490 1.0000 80 chr1:16693117-16693197 1.0000 80 chr6:7313979-7314059 1.0000 80 chr10:3818304-3818384 1.0000 80 chr10:51564673-51564753 1.0000 80 chr12:95397918-95397998 1.0000 80 chr1:22377687-22377767 1.0000 80 chr1:12496882-12496962 1.0000 80 chr6:28248889-28248969 1.0000 80 chr16:9154886-9154966 1.0000 80 chr11:61265091-61265171 1.0000 80 chr8:30462828-30462908 1.0000 80 chr1:6245883-6245963 1.0000 80 chr4:103786089-103786169 1.0000 80 chr1:65738696-65738776 1.0000 80 chr17:56710011-56710091 1.0000 80 chr10:46075546-46075626 1.0000 80 chr1:153950768-153950848 1.0000 80 chr1:8929819-8929899 1.0000 80 chr1:226495758-226495838 1.0000 80 chr1:150335486-150335566 1.0000 80 chr5:162888221-162888301 1.0000 80 chr14:102780299-10278037 1.0000 80 chr1:114456680-114456760 1.0000 80 chr1:173792910-173792990 1.0000 80 chr16:68033337-68033417 1.0000 80 chr9:98080640-98080720 1.0000 80 chr19:45445709-45445789 1.0000 80 chr6:108396758-108396838 1.0000 80 chr16:21566578-21566658 1.0000 80 chr6:31867803-31867883 1.0000 80 chrX:135954423-135954503 1.0000 80 chr11:3380401-3380481 1.0000 80 chr1:24740661-24740741 1.0000 80 chr1:43311069-43311149 1.0000 80 chr1:46217053-46217133 1.0000 80 chr11:73798392-73798472 1.0000 80 chr19:51239887-51239967 1.0000 80 chr1:193151842-193151922 1.0000 80 chr1:169281059-169281139 1.0000 80 chr17:37616880-37616960 1.0000 80 chr1:26634591-26634671 1.0000 80 chr6:26033159-26033239 1.0000 80 chr1:174981426-174981506 1.0000 80 chr3:10182867-10182947 1.0000 80 chr12:57881297-57881377 1.0000 80 chr18:12949229-12949309 1.0000 80 chr6:28922152-28922232 1.0000 80 chr10:27818107-27818187 1.0000 80 chr17:67171536-67171616 1.0000 80 chr6:27781238-27781318 1.0000 80 chr21:30398072-30398152 1.0000 80 chr7:149195536-149195616 1.0000 80 chr16:9197030-9197110 1.0000 80 chr9:101837076-101837156 1.0000 80 chr19:11243994-11244074 1.0000 80 chr16:20927688-20927768 1.0000 80 chr16:89306632-89306712 1.0000 80 chrX:12995647-12995727 1.0000 80 chr1:90362297-90362377 1.0000 80 chrX:153238785-153238865 1.0000 80 chr4:142253393-142253473 1.0000 80 chr2:109335445-109335525 1.0000 80 chr21:38363009-38363089 1.0000 80 chr21:47705359-47705439 1.0000 80 chr11:65225065-65225145 1.0000 80 chr1:114323057-114323137 1.0000 80 chr12:72271313-72271393 1.0000 80 chr12:131713729-13171380 1.0000 80 chr11:9480892-9480972 1.0000 80 chr22:19409635-19409715 1.0000 80 chr4:76912546-76912626 1.0000 80 chr21:38737625-38737705 1.0000 80 chrX:44703639-44703719 1.0000 80 chr7:73834545-73834625 1.0000 80 chr2:179316738-179316818 1.0000 80 chr6:151713324-151713404 1.0000 80 chr19:38804643-38804723 1.0000 80 chr10:82256771-82256851 1.0000 80 chr19:35797925-35798005 1.0000 80 chr4:127657395-127657475 1.0000 80 chr6:13665341-13665421 1.0000 80 chr1:203764084-203764164 1.0000 80 chr6:36841031-36841111 1.0000 80 chr12:104342675-10434275 1.0000 80 chr1:174952678-174952758 1.0000 80 chr5:39137685-39137765 1.0000 80 chr1:27110080-27110160 1.0000 80 chr5:273813-273893 1.0000 80 chr14:21777608-21777688 1.0000 80 chr11:85663252-85663332 1.0000 80 chr11:65268842-65268922 1.0000 80 chr7:111270781-111270861 1.0000 80 chr1:212230019-212230099 1.0000 80 chr15:95398386-95398466 1.0000 80 chr3:195798008-195798088 1.0000 80 chr6:16157943-16158023 1.0000 80 chr21:44473313-44473393 1.0000 80 chr19:51662019-51662099 1.0000 80 chr19:49996658-49996738 1.0000 80 chr10:11934242-11934322 1.0000 80 chr1:142824399-142824479 1.0000 80 chr6:12010371-12010451 1.0000 80 chr19:13054524-13054604 1.0000 80 chr1:184722924-184723004 1.0000 80 chr1:26563282-26563362 1.0000 80 chr1:51426752-51426832 1.0000 80 chr1:32372333-32372413 1.0000 80 chr9:114848969-114849049 1.0000 80 chr12:50561890-50561970 1.0000 80 chr19:3979780-3979860 1.0000 80 chr12:1439814-1439894 1.0000 80 chr1:110883388-110883468 1.0000 80 chr1:226252442-226252522 1.0000 80 chr7:138791551-138791631 1.0000 80 chr7:120639338-120639418 1.0000 80 chr3:6533928-6534008 1.0000 80 chr16:23738925-23739005 1.0000 80 chr16:84572274-84572354 1.0000 80 chr19:50353370-50353450 1.0000 80 chr6:26204273-26204353 1.0000 80 chr2:85770079-85770159 1.0000 80 chr7:156930690-156930770 1.0000 80 chr7:65570539-65570619 1.0000 80 chr6:147546138-147546218 1.0000 80 chr1:109968097-109968177 1.0000 80 chr21:38813735-38813815 1.0000 80 chr4:166253198-166253278 1.0000 80 chr21:48059873-48059953 1.0000 80 chr15:44118649-44118729 1.0000 80 chr1:149858798-149858878 1.0000 80 chr1:142810975-142811055 1.0000 80 chr4:144924970-144925050 1.0000 80 chr7:84509414-84509494 1.0000 80 chr20:29589257-29589337 1.0000 80 chr8:33343451-33343531 1.0000 80 chr7:120868972-120869052 1.0000 80 chr7:155102379-155102459 1.0000 80 chr10:44070524-44070604 1.0000 80 chr22:22197893-22197973 1.0000 80 chr7:138917575-138917655 1.0000 80 chr7:100034702-100034782 1.0000 80 chr2:70396481-70396561 1.0000 80 chr1:204381552-204381632 1.0000 80 chr4:140186936-140187016 1.0000 80 chr16:85568176-85568256 1.0000 80 chr1:52097918-52097998 1.0000 80 chr12:72233117-72233197 1.0000 80 chr7:134332532-134332612 1.0000 80 chr6:33678403-33678483 1.0000 80 chr11:62477149-62477229 1.0000 80 chr6:28927115-28927195 1.0000 80 chr7:22863377-22863457 1.0000 80 chr7:135764010-135764090 1.0000 80 chr12:51613697-51613777 1.0000 80 chr10:50392385-50392465 1.0000 80 chr1:246151451-246151531 1.0000 80 chr5:137910421-137910501 1.0000 80 chr7:127291254-127291334 1.0000 80 chr2:85842818-85842898 1.0000 80 chr10:70719821-70719901 1.0000 80 chr7:153105642-153105722 1.0000 80 chr2:178127414-178127494 1.0000 80 chr2:172697101-172697181 1.0000 80 chr19:29106251-29106331 1.0000 80 chr21:30396395-30396475 1.0000 80 chr17:45321347-45321427 1.0000 80 chr19:47277800-47277880 1.0000 80 chr11:74810381-74810461 1.0000 80 chr7:127637287-127637367 1.0000 80 chr20:45886161-45886241 1.0000 80 chr3:52025637-52025717 1.0000 80 ******************************************************************************** ******************************************************************************** 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/K562/inference_raw/MEME/RankLinear0.6_40_THRAP3/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/THRAP3.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= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.279 C 0.223 G 0.216 T 0.282 Background letter frequencies (from file dataset with add-one prior applied): A 0.279 C 0.223 G 0.216 T 0.282 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GGCDKGAG MEME-1 width = 8 sites = 27 llr = 250 E-value = 1.5e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::3::7: pos.-specific C ::a:::2: probability G aa:47a:a matrix T :::33:1: bits 2.2 *** * * 2.0 *** * * 1.8 *** * * 1.5 *** * * Relative 1.3 *** * * Entropy 1.1 *** ** * (13.4 bits) 0.9 *** **** 0.7 *** **** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGCGGGAG consensus TT C sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:22863377-22863457 43 6.32e-06 gggaggctga ggcgggag gaccacttga chr7:134332532-134332612 58 1.46e-05 ctgtcgccca ggctggag cgactgcagt chr19:38804643-38804723 67 1.46e-05 tcgttgccta ggctggag tgcaat chrX:44703639-44703719 60 1.46e-05 TGCACTGCAT GGCTGGAG TGAGCCGTTC chr5:132299948-132300028 4 1.46e-05 cca ggctggag tacaatggcg chr20:34043727-34043807 34 1.46e-05 ttgttgccca ggctggag tgcaatggcg chr17:4698978-4699058 34 1.46e-05 ctgtcgctca ggctggag tgcagtggcg chr22:39929402-39929482 30 1.46e-05 ctgtcgccca ggctggag tgcagcgatc chr7:155102379-155102459 29 2.27e-05 CCGGTTTTCA GGCAGGAG GAGCGGGCAT chr4:76912546-76912626 34 2.27e-05 gggaggctga ggcaggag aatcgcttga chr1:26634591-26634671 70 2.27e-05 ggaaggctga ggcaggag aat chr1:31539310-31539390 39 2.27e-05 gggaggctga ggcaggag aatggcctga chr3:52025637-52025717 17 3.60e-05 tgggattaca ggcgtgag ccaccgcgcc chr6:26204273-26204353 8 3.60e-05 gattaca ggcgtgag ccacaacgcc chr2:179316738-179316818 1 3.60e-05 . ggcgggcg cggtggctca chr11:65225065-65225145 32 3.60e-05 caggcgttgt ggcgggcg cctgtaatcc chr2:109335445-109335525 54 3.60e-05 tgggattaca ggcgtgag ccaccacgcc chr9:98080640-98080720 25 3.60e-05 ggaaggccaa ggcgggcg gatcacgagg chr2:172778297-172778377 32 3.60e-05 tgggattata ggcgtgag ccaccgcgcc chr6:108396758-108396838 44 5.34e-05 cggggaggat ggcttgag ccaggaggtc chr7:100034702-100034782 39 7.06e-05 tgggattaca ggcatgag ccaccgcacc chr7:65570539-65570619 63 7.06e-05 agggcaagaa ggcatgag acggaggcac chr1:235292703-235292783 43 7.06e-05 gggaggccga ggcaggcg gatcacttaa chr19:45445709-45445789 18 7.72e-05 TGCGTTTCAT GGCGTGCG TATGCATGTG chr19:49996658-49996738 50 9.22e-05 gggaggccaa ggcgggtg gatcaactga chr1:46217053-46217133 72 1.01e-04 tgggattgca ggcatgcg c chr7:5467116-5467196 64 1.09e-04 CCCTACACCG GGCTGGTG CAGCTCCCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:22863377-22863457 6.3e-06 42_[+1]_30 chr7:134332532-134332612 1.5e-05 57_[+1]_15 chr19:38804643-38804723 1.5e-05 66_[+1]_6 chrX:44703639-44703719 1.5e-05 59_[+1]_13 chr5:132299948-132300028 1.5e-05 3_[+1]_69 chr20:34043727-34043807 1.5e-05 33_[+1]_39 chr17:4698978-4699058 1.5e-05 33_[+1]_39 chr22:39929402-39929482 1.5e-05 29_[+1]_43 chr7:155102379-155102459 2.3e-05 28_[+1]_44 chr4:76912546-76912626 2.3e-05 33_[+1]_39 chr1:26634591-26634671 2.3e-05 69_[+1]_3 chr1:31539310-31539390 2.3e-05 38_[+1]_34 chr3:52025637-52025717 3.6e-05 16_[+1]_56 chr6:26204273-26204353 3.6e-05 7_[+1]_65 chr2:179316738-179316818 3.6e-05 [+1]_72 chr11:65225065-65225145 3.6e-05 31_[+1]_41 chr2:109335445-109335525 3.6e-05 53_[+1]_19 chr9:98080640-98080720 3.6e-05 24_[+1]_48 chr2:172778297-172778377 3.6e-05 31_[+1]_41 chr6:108396758-108396838 5.3e-05 43_[+1]_29 chr7:100034702-100034782 7.1e-05 38_[+1]_34 chr7:65570539-65570619 7.1e-05 62_[+1]_10 chr1:235292703-235292783 7.1e-05 42_[+1]_30 chr19:45445709-45445789 7.7e-05 17_[+1]_55 chr19:49996658-49996738 9.2e-05 49_[+1]_23 chr1:46217053-46217133 0.0001 71_[+1]_1 chr7:5467116-5467196 0.00011 63_[+1]_9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGCDKGAG width=8 seqs=27 chr7:22863377-22863457 ( 43) GGCGGGAG 1 chr7:134332532-134332612 ( 58) GGCTGGAG 1 chr19:38804643-38804723 ( 67) GGCTGGAG 1 chrX:44703639-44703719 ( 60) GGCTGGAG 1 chr5:132299948-132300028 ( 4) GGCTGGAG 1 chr20:34043727-34043807 ( 34) GGCTGGAG 1 chr17:4698978-4699058 ( 34) GGCTGGAG 1 chr22:39929402-39929482 ( 30) GGCTGGAG 1 chr7:155102379-155102459 ( 29) GGCAGGAG 1 chr4:76912546-76912626 ( 34) GGCAGGAG 1 chr1:26634591-26634671 ( 70) GGCAGGAG 1 chr1:31539310-31539390 ( 39) GGCAGGAG 1 chr3:52025637-52025717 ( 17) GGCGTGAG 1 chr6:26204273-26204353 ( 8) GGCGTGAG 1 chr2:179316738-179316818 ( 1) GGCGGGCG 1 chr11:65225065-65225145 ( 32) GGCGGGCG 1 chr2:109335445-109335525 ( 54) GGCGTGAG 1 chr9:98080640-98080720 ( 25) GGCGGGCG 1 chr2:172778297-172778377 ( 32) GGCGTGAG 1 chr6:108396758-108396838 ( 44) GGCTTGAG 1 chr7:100034702-100034782 ( 39) GGCATGAG 1 chr7:65570539-65570619 ( 63) GGCATGAG 1 chr1:235292703-235292783 ( 43) GGCAGGCG 1 chr19:45445709-45445789 ( 18) GGCGTGCG 1 chr19:49996658-49996738 ( 50) GGCGGGTG 1 chr1:46217053-46217133 ( 72) GGCATGCG 1 chr7:5467116-5467196 ( 64) GGCTGGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3477 E= 1.5e-007 -1140 -1140 221 -1140 -1140 -1140 221 -1140 -1140 217 -1140 -1140 9 -1140 78 24 -1140 -1140 163 24 -1140 -1140 221 -1140 133 0 -1140 -193 -1140 -1140 221 -1140 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 1.5e-007 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.296296 0.000000 0.370370 0.333333 0.000000 0.000000 0.666667 0.333333 0.000000 0.000000 1.000000 0.000000 0.703704 0.222222 0.000000 0.074074 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCDKGAG MEME-1 regular expression -------------------------------------------------------------------------------- GGC[GTA][GT]G[AC]G -------------------------------------------------------------------------------- Time 4.76 secs. ******************************************************************************** ******************************************************************************** MOTIF CMGCCTCC MEME-2 width = 8 sites = 26 llr = 245 E-value = 1.8e-008 ******************************************************************************** -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :511:::: pos.-specific C a318a:aa probability G :28::::: matrix T :::::a:: bits 2.2 * * * 2.0 * * ** 1.8 * **** 1.5 * **** Relative 1.3 * ****** Entropy 1.1 * ****** (13.6 bits) 0.9 * ****** 0.7 * ****** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CAGCCTCC consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr16:23738925-23739005 29 9.37e-06 tcttctgcct cagcctcc cgatacagat chr1:51426752-51426832 72 9.37e-06 tctcctgcct cagcctcc a chr6:7313979-7314059 27 9.37e-06 tctcccgcct cagcctcc taagcagctg chr7:72937437-72937517 12 9.37e-06 tctcctgcct cagcctcc caagtagctg chr1:153699760-153699840 20 9.37e-06 tctcctgcct cagcctcc catgtagctg chr11:9405608-9405688 26 9.37e-06 tctcctgcct cagcctcc ctagtagctg chr6:74229554-74229634 57 9.37e-06 CATACCTCAG CAGCCTCC TTCTCAAATT chr2:85842818-85842898 20 1.69e-05 accgcaacct ccgcctcc tgggttcaag chr1:46217053-46217133 14 1.69e-05 accgcaacct ccgcctcc tgggttcaag chr6:16268628-16268708 2 1.69e-05 t ccgcctcc caggttcaag chr5:132299948-132300028 44 1.69e-05 actgcaacct ccgcctcc cgagttcaag chr22:39929402-39929482 65 1.69e-05 actgcaactt ccgcctcc cgggttca chr7:100034702-100034782 13 2.41e-05 ccgcccacct cggcctcc caaagtgctg chr15:65595687-65595767 37 2.41e-05 ccgcccacct cggcctcc caaagtgctg chr2:172778297-172778377 6 2.41e-05 cgcct cggcctcc caaagtgctg chr11:65276470-65276550 7 2.41e-05 ccgcct cggcctcc cgaagtgctg chr1:27017951-27018031 55 2.41e-05 ctgcctgcct cggcctcc caaagtgctg chr16:85568176-85568256 57 3.58e-05 cgtttgtctg cagactcc tgggtcgtgt chr12:131713729-13171380 25 3.58e-05 tcagaaggga cagactcc agacacgcca chr19:11243994-11244074 5 3.58e-05 CCGT CAGACTCC CGCGTGAAGA chr1:167487551-167487631 11 4.55e-05 AGCCCCTCAC CACCCTCC ACTACCCACA chr20:34043727-34043807 68 6.70e-05 cggctcacct caacctcc gcctc chr1:32372333-32372413 55 8.38e-05 cacacacaca cCCCCTCC CCCCAAACAA chr10:11934242-11934322 62 9.29e-05 gggtgtgtag caggctcc ccggtctaag chr11:73798392-73798472 20 1.19e-04 agtttgagac cagcctgc ccaacatgac chr1:6245883-6245963 10 1.19e-04 GGGCACCTC CCACCTCC TTGGCATGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr16:23738925-23739005 9.4e-06 28_[+2]_44 chr1:51426752-51426832 9.4e-06 71_[+2]_1 chr6:7313979-7314059 9.4e-06 26_[+2]_46 chr7:72937437-72937517 9.4e-06 11_[+2]_61 chr1:153699760-153699840 9.4e-06 19_[+2]_53 chr11:9405608-9405688 9.4e-06 25_[+2]_47 chr6:74229554-74229634 9.4e-06 56_[+2]_16 chr2:85842818-85842898 1.7e-05 19_[+2]_53 chr1:46217053-46217133 1.7e-05 13_[+2]_59 chr6:16268628-16268708 1.7e-05 1_[+2]_71 chr5:132299948-132300028 1.7e-05 43_[+2]_29 chr22:39929402-39929482 1.7e-05 64_[+2]_8 chr7:100034702-100034782 2.4e-05 12_[+2]_60 chr15:65595687-65595767 2.4e-05 36_[+2]_36 chr2:172778297-172778377 2.4e-05 5_[+2]_67 chr11:65276470-65276550 2.4e-05 6_[+2]_66 chr1:27017951-27018031 2.4e-05 54_[+2]_18 chr16:85568176-85568256 3.6e-05 56_[+2]_16 chr12:131713729-13171380 3.6e-05 24_[+2]_48 chr19:11243994-11244074 3.6e-05 4_[+2]_68 chr1:167487551-167487631 4.6e-05 10_[+2]_62 chr20:34043727-34043807 6.7e-05 67_[+2]_5 chr1:32372333-32372413 8.4e-05 54_[+2]_18 chr10:11934242-11934322 9.3e-05 61_[+2]_11 chr11:73798392-73798472 0.00012 19_[+2]_53 chr1:6245883-6245963 0.00012 9_[+2]_63 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CMGCCTCC width=8 seqs=26 chr16:23738925-23739005 ( 29) CAGCCTCC 1 chr1:51426752-51426832 ( 72) CAGCCTCC 1 chr6:7313979-7314059 ( 27) CAGCCTCC 1 chr7:72937437-72937517 ( 12) CAGCCTCC 1 chr1:153699760-153699840 ( 20) CAGCCTCC 1 chr11:9405608-9405688 ( 26) CAGCCTCC 1 chr6:74229554-74229634 ( 57) CAGCCTCC 1 chr2:85842818-85842898 ( 20) CCGCCTCC 1 chr1:46217053-46217133 ( 14) CCGCCTCC 1 chr6:16268628-16268708 ( 2) CCGCCTCC 1 chr5:132299948-132300028 ( 44) CCGCCTCC 1 chr22:39929402-39929482 ( 65) CCGCCTCC 1 chr7:100034702-100034782 ( 13) CGGCCTCC 1 chr15:65595687-65595767 ( 37) CGGCCTCC 1 chr2:172778297-172778377 ( 6) CGGCCTCC 1 chr11:65276470-65276550 ( 7) CGGCCTCC 1 chr1:27017951-27018031 ( 55) CGGCCTCC 1 chr16:85568176-85568256 ( 57) CAGACTCC 1 chr12:131713729-13171380 ( 25) CAGACTCC 1 chr19:11243994-11244074 ( 5) CAGACTCC 1 chr1:167487551-167487631 ( 11) CACCCTCC 1 chr20:34043727-34043807 ( 68) CAACCTCC 1 chr1:32372333-32372413 ( 55) CCCCCTCC 1 chr10:11934242-11934322 ( 62) CAGGCTCC 1 chr11:73798392-73798472 ( 20) CAGCCTGC 1 chr1:6245883-6245963 ( 10) CCACCTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.20831 E= 1.8e-008 -1134 217 -1134 -1134 95 27 -17 -1134 -186 -153 197 -1134 -127 193 -249 -1134 -1134 217 -1134 -1134 -1134 -1134 -1134 183 -1134 211 -249 -1134 -1134 217 -1134 -1134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 1.8e-008 0.000000 1.000000 0.000000 0.000000 0.538462 0.269231 0.192308 0.000000 0.076923 0.076923 0.846154 0.000000 0.115385 0.846154 0.038462 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.961538 0.038462 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CMGCCTCC MEME-2 regular expression -------------------------------------------------------------------------------- C[AC]GCCTCC -------------------------------------------------------------------------------- Time 8.41 secs. ******************************************************************************** ******************************************************************************** MOTIF CACGCCYG MEME-3 width = 8 sites = 21 llr = 210 E-value = 1.5e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 Description -------------------------------------------------------------------------------- Simplified A :8:::::: pos.-specific C a:8:aa3: probability G :2:a:::a matrix T ::1:::7: bits 2.2 * *** * 2.0 * *** * 1.8 * *** * 1.5 * *** * Relative 1.3 * **** * Entropy 1.1 ******** (14.4 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CACGCCTG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr19:49996658-49996738 17 9.08e-06 tgcagtggct cacgcctg taatcccagc chr2:179316738-179316818 17 9.08e-06 cgcggtggct cacgcctg taatcccagc chr2:109335445-109335525 66 9.08e-06 cgtgagccac cacgcctg gccCTCA chr16:89306632-89306712 31 9.08e-06 tgtggcggct cacgcctg taatcctagc chr12:57881297-57881377 70 9.08e-06 cgcagtggct cacgcctg taa chr10:51564673-51564753 19 9.08e-06 cgcgagccac cacgcctg gctaattttt chr1:156163014-156163094 66 9.08e-06 cgcagtggct cacgcctg tcatccc chr1:153699760-153699840 58 9.08e-06 cgcccgccac cacgcctg gctaattttt chr1:235292703-235292783 10 9.08e-06 gcggtggct cacgcctg taatctcaac chr16:23738925-23739005 56 1.63e-05 tggccgccac cacgcccg actaattttt chr1:22377687-22377767 2 1.63e-05 c cacgcccg gctaattttt chr7:72937437-72937517 50 1.63e-05 cgtgcaccac cacgcccg gccaattttg chr11:9405608-9405688 64 1.63e-05 cgcgtgccac cacgcccg gctaatttt chr17:30229254-30229334 55 2.33e-05 cgtgctggca cgcgcctg taatcccagc chr3:52025637-52025717 29 2.88e-05 cgtgagccac cgcgcccg gccTAGACTG chr2:172778297-172778377 44 2.88e-05 cgtgagccac cgcgcccg gccTAGGTAA chr11:65276470-65276550 45 2.88e-05 gatgagccac cgcgcccg gccGACTGCT chr7:155102379-155102459 44 4.03e-05 GAGGAGCGGG CATGCCTG GCCTGTCACA chr4:76912546-76912626 1 4.03e-05 . catgcctg taatcccagc chr1:26634591-26634671 36 4.03e-05 catgatggcg catgcctg taatcccagc chr6:108396758-108396838 11 6.08e-05 cgtggtggcg caagcctg tagtcctagg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr19:49996658-49996738 9.1e-06 16_[+3]_56 chr2:179316738-179316818 9.1e-06 16_[+3]_56 chr2:109335445-109335525 9.1e-06 65_[+3]_7 chr16:89306632-89306712 9.1e-06 30_[+3]_42 chr12:57881297-57881377 9.1e-06 69_[+3]_3 chr10:51564673-51564753 9.1e-06 18_[+3]_54 chr1:156163014-156163094 9.1e-06 65_[+3]_7 chr1:153699760-153699840 9.1e-06 57_[+3]_15 chr1:235292703-235292783 9.1e-06 9_[+3]_63 chr16:23738925-23739005 1.6e-05 55_[+3]_17 chr1:22377687-22377767 1.6e-05 1_[+3]_71 chr7:72937437-72937517 1.6e-05 49_[+3]_23 chr11:9405608-9405688 1.6e-05 63_[+3]_9 chr17:30229254-30229334 2.3e-05 54_[+3]_18 chr3:52025637-52025717 2.9e-05 28_[+3]_44 chr2:172778297-172778377 2.9e-05 43_[+3]_29 chr11:65276470-65276550 2.9e-05 44_[+3]_28 chr7:155102379-155102459 4e-05 43_[+3]_29 chr4:76912546-76912626 4e-05 [+3]_72 chr1:26634591-26634671 4e-05 35_[+3]_37 chr6:108396758-108396838 6.1e-05 10_[+3]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CACGCCYG width=8 seqs=21 chr19:49996658-49996738 ( 17) CACGCCTG 1 chr2:179316738-179316818 ( 17) CACGCCTG 1 chr2:109335445-109335525 ( 66) CACGCCTG 1 chr16:89306632-89306712 ( 31) CACGCCTG 1 chr12:57881297-57881377 ( 70) CACGCCTG 1 chr10:51564673-51564753 ( 19) CACGCCTG 1 chr1:156163014-156163094 ( 66) CACGCCTG 1 chr1:153699760-153699840 ( 58) CACGCCTG 1 chr1:235292703-235292783 ( 10) CACGCCTG 1 chr16:23738925-23739005 ( 56) CACGCCCG 1 chr1:22377687-22377767 ( 2) CACGCCCG 1 chr7:72937437-72937517 ( 50) CACGCCCG 1 chr11:9405608-9405688 ( 64) CACGCCCG 1 chr17:30229254-30229334 ( 55) CGCGCCTG 1 chr3:52025637-52025717 ( 29) CGCGCCCG 1 chr2:172778297-172778377 ( 44) CGCGCCCG 1 chr11:65276470-65276550 ( 45) CGCGCCCG 1 chr7:155102379-155102459 ( 44) CATGCCTG 1 chr4:76912546-76912626 ( 1) CATGCCTG 1 chr1:26634591-26634671 ( 36) CATGCCTG 1 chr6:108396758-108396838 ( 11) CAAGCCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.25601 E= 1.5e-007 -1104 217 -1104 -1104 153 -1104 -18 -1104 -255 186 -1104 -98 -1104 -1104 221 -1104 -1104 217 -1104 -1104 -1104 217 -1104 -1104 -1104 58 -1104 124 -1104 -1104 221 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 1.5e-007 0.000000 1.000000 0.000000 0.000000 0.809524 0.000000 0.190476 0.000000 0.047619 0.809524 0.000000 0.142857 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.333333 0.000000 0.666667 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGCCYG MEME-3 regular expression -------------------------------------------------------------------------------- CACGCC[TC]G -------------------------------------------------------------------------------- Time 12.04 secs. ******************************************************************************** ******************************************************************************** MOTIF YGGGAGGC MEME-4 width = 8 sites = 18 llr = 180 E-value = 9.0e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :1:1a::1 pos.-specific C 3::::::9 probability G :9a9:aa: matrix T 7::::::: bits 2.2 * ** 2.0 * ** 1.8 ****** 1.5 ******* Relative 1.3 ******* Entropy 1.1 ******** (14.5 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGGGAGGC consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:22863377-22863457 32 8.25e-06 tctggctatt tgggaggc tgaggcggga chr1:110883388-110883468 15 8.25e-06 CGCCTCTGGG TGGGAGGC CTGGGACCTT chr19:49996658-49996738 39 8.25e-06 cccagcattt tgggaggc caaggcgggt chr16:89306632-89306712 53 8.25e-06 cctagcactt tgggaggc caaggggggg chr1:6245883-6245963 24 8.25e-06 CTCCTTGGCA TGGGAGGC TTCCCAGTCA chr9:135230919-135230999 65 8.25e-06 cccaccactt tgggaggc ccaggcgg chr1:235292703-235292783 32 8.25e-06 ctcaacactt tgggaggc cgaggcaggc chr1:31539310-31539390 60 8.25e-06 ggcctgaacc tgggaggc ggagcttgca chr12:49111664-49111744 67 8.25e-06 cccagcactt tgggaggc caaggc chr11:65225065-65225145 58 1.48e-05 cccagctact cgggaggc tgaggcaggg chr6:35657460-35657540 46 1.48e-05 cccagctact cgggaggc tgaggtagga chr5:179124765-179124845 48 1.48e-05 cgcttgaacc cgggaggc ggaggttgta chr16:9183640-9183720 40 2.51e-05 GGAATAGGAT TGGGAGGA TGTAGAATGA chr2:179316738-179316818 39 4.64e-05 cccagcactt taggaggc cgaggctggc chr9:98080640-98080720 14 4.64e-05 cccagcactt tggaaggc caaggcgggc chr6:26204273-26204353 60 5.46e-05 TTTTTCTCTT CGGGAGGA AAATCCTTTT chr4:76912546-76912626 55 7.14e-05 cgcttgaaca caggaggc ggagattgcg chr3:3167821-3167901 14 7.14e-05 cgcttgaaac cggaaggc ggaggttgca -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:22863377-22863457 8.2e-06 31_[+4]_41 chr1:110883388-110883468 8.2e-06 14_[+4]_58 chr19:49996658-49996738 8.2e-06 38_[+4]_34 chr16:89306632-89306712 8.2e-06 52_[+4]_20 chr1:6245883-6245963 8.2e-06 23_[+4]_49 chr9:135230919-135230999 8.2e-06 64_[+4]_8 chr1:235292703-235292783 8.2e-06 31_[+4]_41 chr1:31539310-31539390 8.2e-06 59_[+4]_13 chr12:49111664-49111744 8.2e-06 66_[+4]_6 chr11:65225065-65225145 1.5e-05 57_[+4]_15 chr6:35657460-35657540 1.5e-05 45_[+4]_27 chr5:179124765-179124845 1.5e-05 47_[+4]_25 chr16:9183640-9183720 2.5e-05 39_[+4]_33 chr2:179316738-179316818 4.6e-05 38_[+4]_34 chr9:98080640-98080720 4.6e-05 13_[+4]_59 chr6:26204273-26204353 5.5e-05 59_[+4]_13 chr4:76912546-76912626 7.1e-05 54_[+4]_18 chr3:3167821-3167901 7.1e-05 13_[+4]_59 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YGGGAGGC width=8 seqs=18 chr7:22863377-22863457 ( 32) TGGGAGGC 1 chr1:110883388-110883468 ( 15) TGGGAGGC 1 chr19:49996658-49996738 ( 39) TGGGAGGC 1 chr16:89306632-89306712 ( 53) TGGGAGGC 1 chr1:6245883-6245963 ( 24) TGGGAGGC 1 chr9:135230919-135230999 ( 65) TGGGAGGC 1 chr1:235292703-235292783 ( 32) TGGGAGGC 1 chr1:31539310-31539390 ( 60) TGGGAGGC 1 chr12:49111664-49111744 ( 67) TGGGAGGC 1 chr11:65225065-65225145 ( 58) CGGGAGGC 1 chr6:35657460-35657540 ( 46) CGGGAGGC 1 chr5:179124765-179124845 ( 48) CGGGAGGC 1 chr16:9183640-9183720 ( 40) TGGGAGGA 1 chr2:179316738-179316818 ( 39) TAGGAGGC 1 chr9:98080640-98080720 ( 14) TGGAAGGC 1 chr6:26204273-26204353 ( 60) CGGGAGGA 1 chr4:76912546-76912626 ( 55) CAGGAGGC 1 chr3:3167821-3167901 ( 14) CGGAAGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8329 E= 9.0e-005 -1081 58 -1081 124 -133 -1081 204 -1081 -1081 -1081 221 -1081 -133 -1081 204 -1081 184 -1081 -1081 -1081 -1081 -1081 221 -1081 -1081 -1081 221 -1081 -133 200 -1081 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 9.0e-005 0.000000 0.333333 0.000000 0.666667 0.111111 0.000000 0.888889 0.000000 0.000000 0.000000 1.000000 0.000000 0.111111 0.000000 0.888889 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.111111 0.888889 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGGAGGC MEME-4 regular expression -------------------------------------------------------------------------------- [TC]GGGAGGC -------------------------------------------------------------------------------- Time 15.63 secs. ******************************************************************************** ******************************************************************************** MOTIF GCTGGGAT MEME-5 width = 8 sites = 13 llr = 142 E-value = 1.1e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::::a: pos.-specific C :a:::::2 probability G a::aaa:: matrix T ::a::::8 bits 2.2 ** *** 2.0 ** *** 1.8 ******* 1.5 ******* Relative 1.3 ******* Entropy 1.1 ******** (15.8 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCTGGGAT consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:85842818-85842898 66 1.08e-05 ctcccgagta gctgggat tacaggc chr7:100034702-100034782 27 1.08e-05 ctcccaaagt gctgggat tacaggcatg chr2:109335445-109335525 42 1.08e-05 ctctcaaagt gctgggat tacaggcgtg chr1:46217053-46217133 60 1.08e-05 ctctcaagta gctgggat tgcaggcatg chr1:24740661-24740741 3 1.08e-05 ta gctgggat taccggcgct chr1:8929819-8929899 65 1.08e-05 ttcccaaagt gctgggat tacaggtg chr15:65595687-65595767 51 1.08e-05 ctcccaaagt gctgggat tacaggagtg chr2:172778297-172778377 20 1.08e-05 ctcccaaagt gctgggat tataggcgtg chr11:65276470-65276550 21 1.08e-05 ctcccgaagt gctgggat tacaaggatg chr1:27017951-27018031 69 1.08e-05 ctcccaaagt gctgggat taca chr12:50561890-50561970 55 1.93e-05 tactcggaaa gctgggac aggagaatcg chr6:7313979-7314059 41 1.93e-05 ctcctaagca gctgggac tacaggcgcg chr1:153699760-153699840 34 1.93e-05 ctcccatgta gctgggac tacaggcgcc -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:85842818-85842898 1.1e-05 65_[+5]_7 chr7:100034702-100034782 1.1e-05 26_[+5]_46 chr2:109335445-109335525 1.1e-05 41_[+5]_31 chr1:46217053-46217133 1.1e-05 59_[+5]_13 chr1:24740661-24740741 1.1e-05 2_[+5]_70 chr1:8929819-8929899 1.1e-05 64_[+5]_8 chr15:65595687-65595767 1.1e-05 50_[+5]_22 chr2:172778297-172778377 1.1e-05 19_[+5]_53 chr11:65276470-65276550 1.1e-05 20_[+5]_52 chr1:27017951-27018031 1.1e-05 68_[+5]_4 chr12:50561890-50561970 1.9e-05 54_[+5]_18 chr6:7313979-7314059 1.9e-05 40_[+5]_32 chr1:153699760-153699840 1.9e-05 33_[+5]_39 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCTGGGAT width=8 seqs=13 chr2:85842818-85842898 ( 66) GCTGGGAT 1 chr7:100034702-100034782 ( 27) GCTGGGAT 1 chr2:109335445-109335525 ( 42) GCTGGGAT 1 chr1:46217053-46217133 ( 60) GCTGGGAT 1 chr1:24740661-24740741 ( 3) GCTGGGAT 1 chr1:8929819-8929899 ( 65) GCTGGGAT 1 chr15:65595687-65595767 ( 51) GCTGGGAT 1 chr2:172778297-172778377 ( 20) GCTGGGAT 1 chr11:65276470-65276550 ( 21) GCTGGGAT 1 chr1:27017951-27018031 ( 69) GCTGGGAT 1 chr12:50561890-50561970 ( 55) GCTGGGAC 1 chr6:7313979-7314059 ( 41) GCTGGGAC 1 chr1:153699760-153699840 ( 34) GCTGGGAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.6191 E= 1.1e-004 -1035 -1035 221 -1035 -1035 217 -1035 -1035 -1035 -1035 -1035 182 -1035 -1035 221 -1035 -1035 -1035 221 -1035 -1035 -1035 221 -1035 184 -1035 -1035 -1035 -1035 5 -1035 145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 1.1e-004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.230769 0.000000 0.769231 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTGGGAT MEME-5 regular expression -------------------------------------------------------------------------------- GCTGGGA[TC] -------------------------------------------------------------------------------- Time 19.16 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:146864170-146864250 3.41e-01 80 chr1:167487551-167487631 1.55e-01 10_[+2(4.55e-05)]_62 chr10:121357451-12135753 3.51e-01 80 chr1:27017951-27018031 7.32e-04 54_[+2(2.41e-05)]_6_[+5(1.08e-05)]_\ 4 chr12:49666779-49666859 6.41e-02 80 chr22:39929402-39929482 2.08e-04 29_[+1(1.46e-05)]_27_[+2(1.69e-05)]_\ 8 chr6:74229554-74229634 1.44e-02 56_[+2(9.37e-06)]_16 chrX:135956404-135956484 4.50e-01 80 chr12:49111664-49111744 1.48e-04 66_[+4(8.25e-06)]_6 chr19:1655288-1655368 7.69e-01 80 chr17:4698978-4699058 7.79e-03 33_[+1(1.46e-05)]_39 chr1:31539310-31539390 3.54e-05 27_[+4(1.48e-05)]_3_[+1(2.27e-05)]_\ 13_[+4(8.25e-06)]_13 chr2:70477682-70477762 6.52e-01 80 chr11:65276470-65276550 4.36e-06 6_[+2(2.41e-05)]_6_[+5(1.08e-05)]_\ 16_[+3(2.88e-05)]_28 chr17:37492643-37492723 7.63e-01 80 chr5:180454603-180454683 9.97e-01 80 chr7:102614494-102614574 3.83e-01 80 chr1:202857169-202857249 3.40e-01 80 chr1:24152545-24152625 5.86e-01 80 chr5:179124765-179124845 8.25e-03 18_[+4(1.48e-05)]_21_[+4(1.48e-05)]_\ 25 chr6:35657460-35657540 1.04e-04 11_[+5(9.34e-05)]_26_[+4(1.48e-05)]_\ 27 chr11:9405608-9405688 2.37e-05 25_[+2(9.37e-06)]_30_[+3(1.63e-05)]_\ 9 chr1:235292703-235292783 7.18e-06 9_[+3(9.08e-06)]_14_[+4(8.25e-06)]_\ 3_[+1(7.06e-05)]_30 chr6:3173431-3173511 9.72e-01 80 chr18:2541833-2541913 8.48e-01 80 chr9:135230919-135230999 5.38e-03 64_[+4(8.25e-06)]_8 chr6:31369041-31369121 8.64e-01 80 chr2:172778297-172778377 6.75e-08 5_[+2(2.41e-05)]_6_[+5(1.08e-05)]_4_\ [+1(3.60e-05)]_4_[+3(2.88e-05)]_29 chr11:67387780-67387860 9.46e-03 80 chr7:158653236-158653316 9.80e-01 80 chr1:149784823-149784903 9.83e-04 80 chr19:8444705-8444785 7.91e-01 80 chr11:62610135-62610215 2.72e-01 80 chr7:5467116-5467196 3.99e-03 80 chr22:21296589-21296669 1.05e-02 80 chr3:4509369-4509449 2.53e-01 80 chr12:93709473-93709553 9.92e-01 80 chr6:34630451-34630531 9.34e-01 80 chr4:100764740-100764820 1.00e+00 80 chr12:111889458-11188953 4.82e-01 80 chr6:140468707-140468787 9.99e-01 80 chr1:45246313-45246393 7.50e-01 80 chr1:182353596-182353676 7.52e-01 80 chr1:16163696-16163776 4.70e-01 80 chr2:3382971-3383051 7.70e-01 80 chr10:50391367-50391447 9.94e-01 80 chr1:215740005-215740085 9.92e-01 80 chr17:30229254-30229334 8.24e-04 54_[+3(2.33e-05)]_18 chr3:3167821-3167901 8.77e-04 13_[+4(7.14e-05)]_59 chr16:9183640-9183720 3.03e-02 39_[+4(2.51e-05)]_33 chr1:151226752-151226832 1.71e-02 7_[+3(4.94e-05)]_65 chr10:12085741-12085821 4.34e-01 80 chr7:99685911-99685991 1.14e-01 80 chr6:15110131-15110211 1.00e+00 80 chr2:7020083-7020163 7.41e-01 80 chr1:153699760-153699840 2.00e-06 19_[+2(9.37e-06)]_6_[+5(1.93e-05)]_\ 16_[+3(9.08e-06)]_15 chr5:43038967-43039047 9.90e-01 80 chr10:75715571-75715651 6.97e-01 80 chr1:156163014-156163094 9.95e-03 65_[+3(9.08e-06)]_7 chr11:82877253-82877333 4.75e-02 80 chr1:200640781-200640861 1.00e+00 80 chr1:168147490-168147570 1.00e+00 80 chr20:34043727-34043807 7.82e-05 33_[+1(1.46e-05)]_26_[+2(6.70e-05)]_\ 5 chr4:6735531-6735611 1.46e-01 62_[+5(9.34e-05)]_10 chr5:132299948-132300028 1.91e-04 3_[+1(1.46e-05)]_32_[+2(1.69e-05)]_\ 29 chr7:72937437-72937517 1.23e-05 11_[+2(9.37e-06)]_30_[+3(1.63e-05)]_\ 23 chr1:206808202-206808282 1.76e-01 80 chr12:116819370-11681945 9.69e-01 80 chr3:37035847-37035927 8.76e-01 80 chr3:44804114-44804194 1.34e-01 80 chr12:57910665-57910745 3.70e-01 80 chr1:173684991-173685071 6.63e-02 80 chr16:184501-184581 5.92e-01 80 chr6:161411730-161411810 9.94e-01 80 chr6:16268628-16268708 1.77e-02 1_[+2(1.69e-05)]_71 chr15:65595687-65595767 1.74e-04 36_[+2(2.41e-05)]_6_[+5(1.08e-05)]_\ 22 chr3:152769071-152769151 8.68e-01 80 chr16:3768200-3768280 3.46e-01 80 chr3:42641410-42641490 9.66e-01 80 chr1:16693117-16693197 4.01e-02 35_[+5(3.82e-05)]_37 chr6:7313979-7314059 4.77e-05 26_[+2(9.37e-06)]_6_[+5(1.93e-05)]_\ 32 chr10:3818304-3818384 9.32e-03 80 chr10:51564673-51564753 3.17e-03 18_[+3(9.08e-06)]_54 chr12:95397918-95397998 3.59e-03 43_[+3(8.57e-05)]_29 chr1:22377687-22377767 3.36e-03 1_[+3(1.63e-05)]_71 chr1:12496882-12496962 5.16e-02 80 chr6:28248889-28248969 5.06e-01 80 chr16:9154886-9154966 1.00e+00 80 chr11:61265091-61265171 8.24e-01 80 chr8:30462828-30462908 9.79e-01 80 chr1:6245883-6245963 1.76e-04 23_[+4(8.25e-06)]_49 chr4:103786089-103786169 9.01e-01 80 chr1:65738696-65738776 9.98e-01 80 chr17:56710011-56710091 4.94e-01 80 chr10:46075546-46075626 1.00e+00 80 chr1:153950768-153950848 9.41e-01 80 chr1:8929819-8929899 1.27e-03 64_[+5(1.08e-05)]_8 chr1:226495758-226495838 9.13e-01 80 chr1:150335486-150335566 1.45e-01 80 chr5:162888221-162888301 6.40e-01 80 chr14:102780299-10278037 3.56e-01 80 chr1:114456680-114456760 9.68e-01 80 chr1:173792910-173792990 5.05e-01 80 chr16:68033337-68033417 5.41e-01 80 chr9:98080640-98080720 5.17e-03 13_[+4(4.64e-05)]_3_[+1(3.60e-05)]_\ 48 chr19:45445709-45445789 2.77e-02 17_[+1(7.72e-05)]_55 chr6:108396758-108396838 5.75e-05 10_[+3(6.08e-05)]_25_[+1(5.34e-05)]_\ 29 chr16:21566578-21566658 2.66e-01 80 chr6:31867803-31867883 2.35e-02 80 chrX:135954423-135954503 7.85e-01 80 chr11:3380401-3380481 3.71e-01 80 chr1:24740661-24740741 1.32e-03 2_[+5(1.08e-05)]_70 chr1:43311069-43311149 9.91e-01 80 chr1:46217053-46217133 4.10e-06 13_[+2(1.69e-05)]_38_[+5(1.08e-05)]_\ 13 chr11:73798392-73798472 1.25e-02 80 chr19:51239887-51239967 8.30e-01 80 chr1:193151842-193151922 1.00e+00 80 chr1:169281059-169281139 9.59e-01 80 chr17:37616880-37616960 4.86e-01 80 chr1:26634591-26634671 9.74e-05 35_[+3(4.03e-05)]_26_[+1(2.27e-05)]_\ 3 chr6:26033159-26033239 8.92e-01 80 chr1:174981426-174981506 8.58e-01 80 chr3:10182867-10182947 1.33e-01 80 chr12:57881297-57881377 8.39e-03 69_[+3(9.08e-06)]_3 chr18:12949229-12949309 6.84e-02 80 chr6:28922152-28922232 4.07e-01 80 chr10:27818107-27818187 5.13e-01 80 chr17:67171536-67171616 8.16e-01 80 chr6:27781238-27781318 1.00e+00 80 chr21:30398072-30398152 9.32e-01 80 chr7:149195536-149195616 5.28e-01 80 chr16:9197030-9197110 3.24e-01 80 chr9:101837076-101837156 6.77e-02 80 chr19:11243994-11244074 2.86e-02 4_[+2(3.58e-05)]_68 chr16:20927688-20927768 9.12e-02 80 chr16:89306632-89306712 2.08e-04 30_[+3(9.08e-06)]_14_[+4(8.25e-06)]_\ 20 chrX:12995647-12995727 9.05e-01 80 chr1:90362297-90362377 9.93e-01 80 chrX:153238785-153238865 1.28e-01 80 chr4:142253393-142253473 3.40e-02 80 chr2:109335445-109335525 1.05e-06 41_[+5(1.08e-05)]_4_[+1(3.60e-05)]_\ 4_[+3(9.08e-06)]_7 chr21:38363009-38363089 7.11e-02 80 chr21:47705359-47705439 4.86e-01 80 chr11:65225065-65225145 9.09e-06 31_[+1(3.60e-05)]_18_[+4(1.48e-05)]_\ 15 chr1:114323057-114323137 9.87e-01 80 chr12:72271313-72271393 1.00e+00 80 chr12:131713729-13171380 1.56e-02 24_[+2(3.58e-05)]_48 chr11:9480892-9480972 2.21e-02 80 chr22:19409635-19409715 9.34e-01 80 chr4:76912546-76912626 1.12e-05 [+3(4.03e-05)]_25_[+1(2.27e-05)]_13_\ [+4(7.14e-05)]_18 chr21:38737625-38737705 1.00e+00 80 chrX:44703639-44703719 9.07e-04 59_[+1(1.46e-05)]_13 chr7:73834545-73834625 1.00e+00 80 chr2:179316738-179316818 1.70e-05 [+1(3.60e-05)]_8_[+3(9.08e-06)]_14_\ [+4(4.64e-05)]_3_[+1(5.34e-05)]_23 chr6:151713324-151713404 5.40e-01 80 chr19:38804643-38804723 1.91e-02 66_[+1(1.46e-05)]_6 chr10:82256771-82256851 9.99e-01 80 chr19:35797925-35798005 3.92e-01 80 chr4:127657395-127657475 9.99e-01 80 chr6:13665341-13665421 9.61e-01 80 chr1:203764084-203764164 1.99e-03 80 chr6:36841031-36841111 5.48e-01 80 chr12:104342675-10434275 6.62e-01 80 chr1:174952678-174952758 9.87e-01 80 chr5:39137685-39137765 9.20e-01 80 chr1:27110080-27110160 2.06e-01 80 chr5:273813-273893 2.32e-01 80 chr14:21777608-21777688 1.75e-01 80 chr11:85663252-85663332 9.92e-01 80 chr11:65268842-65268922 3.03e-01 80 chr7:111270781-111270861 1.00e+00 80 chr1:212230019-212230099 9.87e-01 80 chr15:95398386-95398466 4.51e-01 80 chr3:195798008-195798088 9.10e-01 80 chr6:16157943-16158023 2.93e-02 80 chr21:44473313-44473393 8.99e-01 80 chr19:51662019-51662099 4.73e-01 80 chr19:49996658-49996738 6.52e-06 16_[+3(9.08e-06)]_14_[+4(8.25e-06)]_\ 3_[+1(9.22e-05)]_23 chr10:11934242-11934322 1.95e-02 61_[+2(9.29e-05)]_11 chr1:142824399-142824479 9.31e-01 80 chr6:12010371-12010451 1.00e+00 80 chr19:13054524-13054604 2.61e-01 80 chr1:184722924-184723004 9.98e-01 80 chr1:26563282-26563362 2.92e-01 80 chr1:51426752-51426832 2.17e-03 71_[+2(9.37e-06)]_1 chr1:32372333-32372413 2.56e-01 54_[+2(8.38e-05)]_18 chr9:114848969-114849049 3.19e-01 80 chr12:50561890-50561970 7.91e-04 54_[+5(1.93e-05)]_18 chr19:3979780-3979860 4.40e-02 80 chr12:1439814-1439894 9.74e-01 80 chr1:110883388-110883468 3.72e-05 14_[+4(8.25e-06)]_58 chr1:226252442-226252522 9.74e-01 80 chr7:138791551-138791631 5.37e-01 80 chr7:120639338-120639418 9.90e-01 80 chr3:6533928-6534008 1.00e+00 80 chr16:23738925-23739005 3.86e-04 28_[+2(9.37e-06)]_19_[+3(1.63e-05)]_\ 17 chr16:84572274-84572354 4.07e-01 80 chr19:50353370-50353450 2.16e-01 80 chr6:26204273-26204353 8.64e-05 7_[+1(3.60e-05)]_44_[+4(5.46e-05)]_\ 13 chr2:85770079-85770159 4.00e-01 80 chr7:156930690-156930770 9.99e-01 80 chr7:65570539-65570619 8.12e-02 62_[+1(7.06e-05)]_10 chr6:147546138-147546218 6.97e-01 80 chr1:109968097-109968177 6.67e-01 80 chr21:38813735-38813815 9.88e-01 80 chr4:166253198-166253278 6.53e-01 80 chr21:48059873-48059953 9.97e-01 80 chr15:44118649-44118729 8.07e-01 80 chr1:149858798-149858878 3.26e-02 80 chr1:142810975-142811055 7.83e-01 80 chr4:144924970-144925050 5.56e-01 80 chr7:84509414-84509494 9.13e-01 80 chr20:29589257-29589337 9.90e-01 80 chr8:33343451-33343531 8.47e-01 80 chr7:120868972-120869052 5.49e-01 80 chr7:155102379-155102459 3.57e-06 28_[+1(2.27e-05)]_7_[+3(4.03e-05)]_\ 29 chr10:44070524-44070604 6.29e-02 80 chr22:22197893-22197973 9.33e-01 80 chr7:138917575-138917655 8.09e-01 80 chr7:100034702-100034782 2.11e-06 12_[+2(2.41e-05)]_6_[+5(1.08e-05)]_\ 4_[+1(7.06e-05)]_34 chr2:70396481-70396561 4.95e-01 80 chr1:204381552-204381632 7.41e-01 80 chr4:140186936-140187016 3.30e-01 80 chr16:85568176-85568256 2.22e-02 56_[+2(3.58e-05)]_16 chr1:52097918-52097998 9.07e-01 80 chr12:72233117-72233197 2.15e-01 80 chr7:134332532-134332612 1.96e-02 57_[+1(1.46e-05)]_15 chr6:33678403-33678483 9.00e-01 80 chr11:62477149-62477229 3.90e-01 80 chr6:28927115-28927195 9.98e-01 80 chr7:22863377-22863457 2.11e-05 5_[+1(8.58e-05)]_18_[+4(8.25e-06)]_\ 3_[+1(6.32e-06)]_30 chr7:135764010-135764090 9.76e-01 80 chr12:51613697-51613777 1.00e+00 80 chr10:50392385-50392465 9.55e-01 80 chr1:246151451-246151531 2.51e-01 80 chr5:137910421-137910501 9.99e-01 80 chr7:127291254-127291334 7.75e-01 80 chr2:85842818-85842898 6.17e-04 19_[+2(1.69e-05)]_38_[+5(1.08e-05)]_\ 7 chr10:70719821-70719901 8.28e-01 80 chr7:153105642-153105722 8.65e-01 80 chr2:178127414-178127494 2.97e-01 80 chr2:172697101-172697181 2.67e-01 80 chr19:29106251-29106331 9.85e-01 80 chr21:30396395-30396475 9.17e-03 80 chr17:45321347-45321427 8.38e-01 80 chr19:47277800-47277880 6.63e-01 80 chr11:74810381-74810461 1.77e-02 80 chr7:127637287-127637367 2.85e-01 80 chr20:45886161-45886241 9.91e-01 80 chr3:52025637-52025717 8.01e-05 16_[+1(3.60e-05)]_4_[+3(2.88e-05)]_\ 44 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n10.farnam.hpc.yale.internal ********************************************************************************