******************************************************************************** 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/PKNOX1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr1:120838409-120838429 1.0000 20 chrX:47497046-47497066 1.0000 20 chr14:91882408-91882428 1.0000 20 chr19:12075742-12075762 1.0000 20 chr4:603399-603419 1.0000 20 chr16:15116157-15116177 1.0000 20 chr19:56623149-56623169 1.0000 20 chr17:43697627-43697647 1.0000 20 chrX:1611086-1611106 1.0000 20 chr4:102268865-102268885 1.0000 20 chr1:155057897-155057917 1.0000 20 chr16:84158473-84158493 1.0000 20 chr2:196941702-196941722 1.0000 20 chr2:76643121-76643141 1.0000 20 chr7:135665756-135665776 1.0000 20 chr1:247242166-247242186 1.0000 20 chr7:66461580-66461600 1.0000 20 chr8:6598427-6598447 1.0000 20 chr1:200379256-200379276 1.0000 20 chr6:132834319-132834339 1.0000 20 chr14:37130972-37130992 1.0000 20 chr19:47220368-47220388 1.0000 20 chr19:12267642-12267662 1.0000 20 chr17:44302809-44302829 1.0000 20 chr16:84538296-84538316 1.0000 20 chr18:14132573-14132593 1.0000 20 chr11:118799364-11879938 1.0000 20 chr16:27248910-27248930 1.0000 20 chr8:100675933-100675953 1.0000 20 chr9:84304874-84304894 1.0000 20 chr19:11909278-11909298 1.0000 20 chr1:13994354-13994374 1.0000 20 chr12:6663463-6663483 1.0000 20 chr1:198128279-198128299 1.0000 20 chr19:19143355-19143375 1.0000 20 chr7:99798042-99798062 1.0000 20 chr16:639812-639832 1.0000 20 chr17:58679466-58679486 1.0000 20 chr10:102802599-10280261 1.0000 20 chr6:32143937-32143957 1.0000 20 chr9:119449522-119449542 1.0000 20 chr5:139123228-139123248 1.0000 20 chr18:74204993-74205013 1.0000 20 chr1:41174601-41174621 1.0000 20 chr15:37393951-37393971 1.0000 20 chr3:114866194-114866214 1.0000 20 chr7:25894874-25894894 1.0000 20 chr19:14640079-14640099 1.0000 20 chr18:56206421-56206441 1.0000 20 chr1:145476983-145477003 1.0000 20 chr3:9142368-9142388 1.0000 20 chr6:474916-474936 1.0000 20 chr1:164528105-164528125 1.0000 20 chr10:102790962-10279098 1.0000 20 chr2:136288872-136288892 1.0000 20 chr5:96144123-96144143 1.0000 20 chr13:50209830-50209850 1.0000 20 chr6:15399044-15399064 1.0000 20 chr9:34989544-34989564 1.0000 20 chr17:17566765-17566785 1.0000 20 chr2:16845657-16845677 1.0000 20 chrX:80377247-80377267 1.0000 20 chr9:123884032-123884052 1.0000 20 chr22:37582481-37582501 1.0000 20 chr7:72299014-72299034 1.0000 20 chr19:19843987-19844007 1.0000 20 chr22:50682988-50683008 1.0000 20 chr10:112624552-11262457 1.0000 20 chr1:7843980-7844000 1.0000 20 chrX:119831186-119831206 1.0000 20 chr20:57580399-57580419 1.0000 20 chr19:1041091-1041111 1.0000 20 chr4:175204409-175204429 1.0000 20 chr1:167691138-167691158 1.0000 20 chr17:33570013-33570033 1.0000 20 chr4:124317866-124317886 1.0000 20 chr1:185285410-185285430 1.0000 20 chr14:21735931-21735951 1.0000 20 chr21:47012387-47012407 1.0000 20 chr22:25632028-25632048 1.0000 20 chr3:107241735-107241755 1.0000 20 chr6:159527936-159527956 1.0000 20 chrX:200063-200083 1.0000 20 chr3:127555475-127555495 1.0000 20 chr15:43785417-43785437 1.0000 20 chr1:25757241-25757261 1.0000 20 chr11:64009004-64009024 1.0000 20 chr3:9885733-9885753 1.0000 20 chr15:78799617-78799637 1.0000 20 chr10:54577936-54577956 1.0000 20 chr14:65007115-65007135 1.0000 20 chr13:64650200-64650220 1.0000 20 chr17:3539616-3539636 1.0000 20 chr19:45873931-45873951 1.0000 20 chr1:31231816-31231836 1.0000 20 chr11:34272871-34272891 1.0000 20 chr19:12035795-12035815 1.0000 20 chr16:67927008-67927028 1.0000 20 chr7:69133530-69133550 1.0000 20 chr19:55592109-55592129 1.0000 20 chr16:89238041-89238061 1.0000 20 chr1:21934468-21934488 1.0000 20 chr5:81046995-81047015 1.0000 20 chr3:194490005-194490025 1.0000 20 chr13:44716215-44716235 1.0000 20 chr8:145239898-145239918 1.0000 20 chr21:32931786-32931806 1.0000 20 chr19:11924992-11925012 1.0000 20 chr7:150929531-150929551 1.0000 20 chrX:46988629-46988649 1.0000 20 chr2:227666004-227666024 1.0000 20 chr20:40247116-40247136 1.0000 20 chr1:153707471-153707491 1.0000 20 chr10:129862093-12986211 1.0000 20 chr12:56123506-56123526 1.0000 20 chr3:43663839-43663859 1.0000 20 chrX:14057693-14057713 1.0000 20 chr4:184580396-184580416 1.0000 20 chr4:78741376-78741396 1.0000 20 chr14:104060171-10406019 1.0000 20 chr2:44395599-44395619 1.0000 20 chr19:29768229-29768249 1.0000 20 chr6:20847043-20847063 1.0000 20 chr2:88316500-88316520 1.0000 20 chr2:98279979-98279999 1.0000 20 chrX:114795370-114795390 1.0000 20 chr19:4867728-4867748 1.0000 20 chr2:102500557-102500577 1.0000 20 chr19:13906065-13906085 1.0000 20 chr13:97874470-97874490 1.0000 20 chr7:139875211-139875231 1.0000 20 chr5:179159717-179159737 1.0000 20 chr10:104261973-10426199 1.0000 20 chr12:54120308-54120328 1.0000 20 chr4:124237-124257 1.0000 20 chr12:53473247-53473267 1.0000 20 chr11:58825988-58826008 1.0000 20 chr17:7236124-7236144 1.0000 20 chr8:66556924-66556944 1.0000 20 chrX:1780441-1780461 1.0000 20 chr8:145159249-145159269 1.0000 20 chr4:468069-468089 1.0000 20 chr7:97761420-97761440 1.0000 20 chr3:114866837-114866857 1.0000 20 chr1:117664761-117664781 1.0000 20 chr17:76628195-76628215 1.0000 20 chr18:57501157-57501177 1.0000 20 chr14:89882542-89882562 1.0000 20 chr6:116937486-116937506 1.0000 20 chr11:32197969-32197989 1.0000 20 chr10:104263616-10426363 1.0000 20 chr6:27219701-27219721 1.0000 20 chr8:25316026-25316046 1.0000 20 chr2:74685386-74685406 1.0000 20 chr15:99395700-99395720 1.0000 20 chr14:23340900-23340920 1.0000 20 chrX:47931292-47931312 1.0000 20 chr16:46723249-46723269 1.0000 20 chr15:44487572-44487592 1.0000 20 chrX:74493825-74493845 1.0000 20 chr2:219824249-219824269 1.0000 20 chr8:25242929-25242949 1.0000 20 chr3:185827013-185827033 1.0000 20 chr12:14927243-14927263 1.0000 20 chrX:70503405-70503425 1.0000 20 chr1:150669814-150669834 1.0000 20 chr18:3448215-3448235 1.0000 20 chr20:17663001-17663021 1.0000 20 chr19:2841370-2841390 1.0000 20 chr4:124318625-124318645 1.0000 20 chr3:101497968-101497988 1.0000 20 chr19:8408201-8408221 1.0000 20 chr22:38054448-38054468 1.0000 20 chr17:37321254-37321274 1.0000 20 chr5:116513196-116513216 1.0000 20 chr19:50320801-50320821 1.0000 20 chr3:184279427-184279447 1.0000 20 chr17:27139576-27139596 1.0000 20 chr19:6372601-6372621 1.0000 20 chr13:73633051-73633071 1.0000 20 chr4:48782465-48782485 1.0000 20 chr16:70052399-70052419 1.0000 20 chr19:19249331-19249351 1.0000 20 chr2:219152037-219152057 1.0000 20 chr6:32146119-32146139 1.0000 20 chr5:14145456-14145476 1.0000 20 chr11:111475243-11147526 1.0000 20 chr19:13944562-13944582 1.0000 20 chr6:112194718-112194738 1.0000 20 chr6:79943710-79943730 1.0000 20 chr1:17446042-17446062 1.0000 20 chr3:100211323-100211343 1.0000 20 chr4:52709093-52709113 1.0000 20 chr22:39190221-39190241 1.0000 20 chr19:12098347-12098367 1.0000 20 chr4:149363810-149363830 1.0000 20 chr19:17727929-17727949 1.0000 20 chr1:150601673-150601693 1.0000 20 chr6:43218925-43218945 1.0000 20 chr17:39943145-39943165 1.0000 20 chr20:45035332-45035352 1.0000 20 chr19:7894891-7894911 1.0000 20 chr17:47866503-47866523 1.0000 20 chr6:133084643-133084663 1.0000 20 chr12:49393538-49393558 1.0000 20 chr4:83206086-83206106 1.0000 20 chr17:74667892-74667912 1.0000 20 chr19:12595691-12595711 1.0000 20 chr18:71959344-71959364 1.0000 20 chr19:21688342-21688362 1.0000 20 chr19:18315097-18315117 1.0000 20 chr1:153940252-153940272 1.0000 20 chr17:17184058-17184078 1.0000 20 chr1:100889677-100889697 1.0000 20 chr19:46087683-46087703 1.0000 20 chr20:34127712-34127732 1.0000 20 chr15:82579031-82579051 1.0000 20 chrX:47077332-47077352 1.0000 20 chr8:90775961-90775981 1.0000 20 chr16:22386010-22386030 1.0000 20 chr6:32862470-32862490 1.0000 20 chr17:6950318-6950338 1.0000 20 chr19:12512094-12512114 1.0000 20 chr5:32313322-32313342 1.0000 20 chr19:12476569-12476589 1.0000 20 chr8:103875275-103875295 1.0000 20 chr15:70392084-70392104 1.0000 20 chr1:161228420-161228440 1.0000 20 chr16:67217584-67217604 1.0000 20 chrX:40440069-40440089 1.0000 20 chr19:21579804-21579824 1.0000 20 chr19:18414420-18414440 1.0000 20 chr11:64490737-64490757 1.0000 20 chr19:19496455-19496475 1.0000 20 chr17:79196862-79196882 1.0000 20 chr6:31795184-31795204 1.0000 20 chr15:89631522-89631542 1.0000 20 chrX:62975072-62975092 1.0000 20 chr9:84430242-84430262 1.0000 20 chr13:20532755-20532775 1.0000 20 chr2:73298505-73298525 1.0000 20 chr19:55973291-55973311 1.0000 20 chr17:41323128-41323148 1.0000 20 chr11:82867806-82867826 1.0000 20 chr5:145583084-145583104 1.0000 20 chr9:131940631-131940651 1.0000 20 chr2:62932672-62932692 1.0000 20 chr11:65894338-65894358 1.0000 20 chr12:6960557-6960577 1.0000 20 chr19:58892645-58892665 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_PKNOX1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/PKNOX1.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 0.206 C 0.292 G 0.294 T 0.208 Background letter frequencies (from file dataset with add-one prior applied): A 0.206 C 0.292 G 0.294 T 0.208 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GYCAATCA MEME-1 width = 8 sites = 47 llr = 362 E-value = 5.9e-036 ******************************************************************************** -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1::86::8 pos.-specific C :3a12:a: probability G 9:::2::1 matrix T :7:1:a:1 bits 2.3 * 2.0 * 1.8 * * 1.6 * ** Relative 1.4 * ** ** Entropy 1.1 **** *** (11.1 bits) 0.9 **** *** 0.7 **** *** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GTCAATCA consensus C G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr5:116513196-116513216 5 9.48e-06 GCCT GTCAATCA AGTGGCCT chr4:124318625-124318645 7 9.48e-06 CGGCCT GTCAATCA CCGGGA chr7:69133530-69133550 5 9.48e-06 TCCT GTCAATCA AGAGAGTA chr3:127555475-127555495 11 9.48e-06 TGGGGCAACT GTCAATCA AA chr14:21735931-21735951 4 9.48e-06 CCC GTCAATCA ATTTCAACT chr15:37393951-37393971 9 9.48e-06 GGCCGCGC GTCAATCA CTAC chr1:200379256-200379276 11 9.48e-06 CGGCCTGCCT GTCAATCA CT chr8:6598427-6598447 8 9.48e-06 TTTGGCT GTCAATCA AAGTT chr14:91882408-91882428 8 9.48e-06 GCAAGCT GTCAATCA GGCCG chr1:150601673-150601693 4 2.28e-05 TTG GCCAATCA GGAAGAGTA chr18:56206421-56206441 10 2.28e-05 ACCAGCACT GCCAATCA TTT chr7:66461580-66461600 1 2.28e-05 . GCCAATCA TTTCTCTCTG chr8:90775961-90775981 9 3.63e-05 cactgtca gtcagtca taga chr2:74685386-74685406 1 3.63e-05 . GTCAGTCA GGGCCGTGGG chr12:6663463-6663483 13 3.63e-05 ACCAAAGCCT GTCAGTCA chr19:21579804-21579824 8 4.98e-05 ATCTTCT GTCACTCA GGGCC chr1:100889677-100889697 5 4.98e-05 AGCT GTCACTCA AAGTGGAG chr19:12098347-12098367 9 4.98e-05 CTTCTGCT GTCACTCA GGGC chr4:184580396-184580416 9 4.98e-05 AGAGCGCG GTCACTCA GGCC chr1:153707471-153707491 9 4.98e-05 cttgctct gtcactca ggct chr1:185285410-185285430 9 4.98e-05 GCCCCGCA GTCACTCA GTAC chr19:12075742-12075762 11 4.98e-05 GGCTTCCGCT GTCACTCA GA chr22:39190221-39190241 7 6.60e-05 AAAAGT ATCAATCA GAGTGA chr11:58825988-58826008 9 6.60e-05 TAATGGAT GTCAATCT TCAC chr20:17663001-17663021 12 9.84e-05 CCGGTCGCTG GCCAGTCA G chr12:6960557-6960577 8 1.27e-04 GGAGAAC GTCTATCA TGGTG chr16:46723249-46723269 8 1.63e-04 AGCGCCA GCCAATCT CACCA chr3:114866194-114866214 5 1.63e-04 TCAC GCCAATCT TGGCTTCA chr14:37130972-37130992 6 1.63e-04 CCCGC ACCAATCA CCATGCA chr16:84158473-84158493 11 1.63e-04 ACAAATACCC ACCAATCA AT chr15:82579031-82579051 4 2.15e-04 CCT GTCATTCA ATGCTCTTT chr22:38054448-38054468 9 2.15e-04 AGAAGAGC GTCAGTCT CCCA chr1:31231816-31231836 9 2.15e-04 CTGCTGCA GCCCATCA TTTC chr3:107241735-107241755 9 2.84e-04 CGCGGCCT GTCCGTCA CTGC chr5:96144123-96144143 8 2.84e-04 GCTGGGT GTCCGTCA TCTCG chr17:44302809-44302829 8 2.84e-04 CAATGGT GTCCGTCA GAGCG chr15:44487572-44487592 2 3.62e-04 A GCCAATCG AGATAGAGTA chr19:45873931-45873951 13 3.62e-04 CTAGGGCAGA GCCAATCG chr6:32143937-32143957 7 3.62e-04 TGTTTT GCCAATCG TCTCCC chr6:159527936-159527956 8 4.57e-04 ggggccc atccatca tagcg chr20:34127712-34127732 4 4.95e-04 cag gccaatcc ttcataggt chr19:2841370-2841390 9 5.73e-04 GGGAATTC TCCAATCA GAGT chr15:70392084-70392104 13 6.09e-04 GCTGGGCCCT GTCAGTCC chr12:14927243-14927263 10 6.93e-04 GCGGAGCCT GCCTGTCA TTG chr2:102500557-102500577 10 6.93e-04 GGCCTTCAG GCCTGTCA CTC chr2:88316500-88316520 8 7.12e-04 GGGAGGA GTCACTAA TAAGA chr4:83206086-83206106 1 1.13e-03 . GTCCCTCT TCGCGCCTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:116513196-116513216 9.5e-06 4_[+1]_8 chr4:124318625-124318645 9.5e-06 6_[+1]_6 chr7:69133530-69133550 9.5e-06 4_[+1]_8 chr3:127555475-127555495 9.5e-06 10_[+1]_2 chr14:21735931-21735951 9.5e-06 3_[+1]_9 chr15:37393951-37393971 9.5e-06 8_[+1]_4 chr1:200379256-200379276 9.5e-06 10_[+1]_2 chr8:6598427-6598447 9.5e-06 7_[+1]_5 chr14:91882408-91882428 9.5e-06 7_[+1]_5 chr1:150601673-150601693 2.3e-05 3_[+1]_9 chr18:56206421-56206441 2.3e-05 9_[+1]_3 chr7:66461580-66461600 2.3e-05 [+1]_12 chr8:90775961-90775981 3.6e-05 8_[+1]_4 chr2:74685386-74685406 3.6e-05 [+1]_12 chr12:6663463-6663483 3.6e-05 12_[+1] chr19:21579804-21579824 5e-05 7_[+1]_5 chr1:100889677-100889697 5e-05 4_[+1]_8 chr19:12098347-12098367 5e-05 8_[+1]_4 chr4:184580396-184580416 5e-05 8_[+1]_4 chr1:153707471-153707491 5e-05 8_[+1]_4 chr1:185285410-185285430 5e-05 8_[+1]_4 chr19:12075742-12075762 5e-05 10_[+1]_2 chr22:39190221-39190241 6.6e-05 6_[+1]_6 chr11:58825988-58826008 6.6e-05 8_[+1]_4 chr20:17663001-17663021 9.8e-05 11_[+1]_1 chr12:6960557-6960577 0.00013 7_[+1]_5 chr16:46723249-46723269 0.00016 7_[+1]_5 chr3:114866194-114866214 0.00016 4_[+1]_8 chr14:37130972-37130992 0.00016 5_[+1]_7 chr16:84158473-84158493 0.00016 10_[+1]_2 chr15:82579031-82579051 0.00021 3_[+1]_9 chr22:38054448-38054468 0.00021 8_[+1]_4 chr1:31231816-31231836 0.00021 8_[+1]_4 chr3:107241735-107241755 0.00028 8_[+1]_4 chr5:96144123-96144143 0.00028 7_[+1]_5 chr17:44302809-44302829 0.00028 7_[+1]_5 chr15:44487572-44487592 0.00036 1_[+1]_11 chr19:45873931-45873951 0.00036 12_[+1] chr6:32143937-32143957 0.00036 6_[+1]_6 chr6:159527936-159527956 0.00046 7_[+1]_5 chr20:34127712-34127732 0.0005 3_[+1]_9 chr19:2841370-2841390 0.00057 8_[+1]_4 chr15:70392084-70392104 0.00061 12_[+1] chr12:14927243-14927263 0.00069 9_[+1]_3 chr2:102500557-102500577 0.00069 9_[+1]_3 chr2:88316500-88316520 0.00071 7_[+1]_5 chr4:83206086-83206106 0.0011 [+1]_12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GYCAATCA width=8 seqs=47 chr5:116513196-116513216 ( 5) GTCAATCA 1 chr4:124318625-124318645 ( 7) GTCAATCA 1 chr7:69133530-69133550 ( 5) GTCAATCA 1 chr3:127555475-127555495 ( 11) GTCAATCA 1 chr14:21735931-21735951 ( 4) GTCAATCA 1 chr15:37393951-37393971 ( 9) GTCAATCA 1 chr1:200379256-200379276 ( 11) GTCAATCA 1 chr8:6598427-6598447 ( 8) GTCAATCA 1 chr14:91882408-91882428 ( 8) GTCAATCA 1 chr1:150601673-150601693 ( 4) GCCAATCA 1 chr18:56206421-56206441 ( 10) GCCAATCA 1 chr7:66461580-66461600 ( 1) GCCAATCA 1 chr8:90775961-90775981 ( 9) GTCAGTCA 1 chr2:74685386-74685406 ( 1) GTCAGTCA 1 chr12:6663463-6663483 ( 13) GTCAGTCA 1 chr19:21579804-21579824 ( 8) GTCACTCA 1 chr1:100889677-100889697 ( 5) GTCACTCA 1 chr19:12098347-12098367 ( 9) GTCACTCA 1 chr4:184580396-184580416 ( 9) GTCACTCA 1 chr1:153707471-153707491 ( 9) GTCACTCA 1 chr1:185285410-185285430 ( 9) GTCACTCA 1 chr19:12075742-12075762 ( 11) GTCACTCA 1 chr22:39190221-39190241 ( 7) ATCAATCA 1 chr11:58825988-58826008 ( 9) GTCAATCT 1 chr20:17663001-17663021 ( 12) GCCAGTCA 1 chr12:6960557-6960577 ( 8) GTCTATCA 1 chr16:46723249-46723269 ( 8) GCCAATCT 1 chr3:114866194-114866214 ( 5) GCCAATCT 1 chr14:37130972-37130992 ( 6) ACCAATCA 1 chr16:84158473-84158493 ( 11) ACCAATCA 1 chr15:82579031-82579051 ( 4) GTCATTCA 1 chr22:38054448-38054468 ( 9) GTCAGTCT 1 chr1:31231816-31231836 ( 9) GCCCATCA 1 chr3:107241735-107241755 ( 9) GTCCGTCA 1 chr5:96144123-96144143 ( 8) GTCCGTCA 1 chr17:44302809-44302829 ( 8) GTCCGTCA 1 chr15:44487572-44487592 ( 2) GCCAATCG 1 chr19:45873931-45873951 ( 13) GCCAATCG 1 chr6:32143937-32143957 ( 7) GCCAATCG 1 chr6:159527936-159527956 ( 8) ATCCATCA 1 chr20:34127712-34127732 ( 4) GCCAATCC 1 chr19:2841370-2841390 ( 9) TCCAATCA 1 chr15:70392084-70392104 ( 13) GTCAGTCC 1 chr12:14927243-14927263 ( 10) GCCTGTCA 1 chr2:102500557-102500577 ( 10) GCCTGTCA 1 chr2:88316500-88316520 ( 8) GTCACTAA 1 chr4:83206086-83206106 ( 1) GTCCCTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.67734 E= 5.9e-036 -128 -1220 161 -329 -1220 22 -1220 166 -1220 178 -1220 -1220 197 -119 -1220 -171 142 -61 -33 -329 -1220 -1220 -1220 226 -328 175 -1220 -1220 193 -278 -220 -97 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 47 E= 5.9e-036 0.085106 0.000000 0.893617 0.021277 0.000000 0.340426 0.000000 0.659574 0.000000 1.000000 0.000000 0.000000 0.808511 0.127660 0.000000 0.063830 0.553191 0.191489 0.234043 0.021277 0.000000 0.000000 0.000000 1.000000 0.021277 0.978723 0.000000 0.000000 0.787234 0.042553 0.063830 0.106383 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GYCAATCA MEME-1 regular expression -------------------------------------------------------------------------------- G[TC]CA[AG]TCA -------------------------------------------------------------------------------- Time 3.34 secs. ******************************************************************************** ******************************************************************************** MOTIF TGAKTGRC MEME-2 width = 8 sites = 37 llr = 272 E-value = 9.1e-016 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::a12:51 pos.-specific C :::1:::8 probability G 1a:41a5: matrix T 9::47::2 bits 2.3 * 2.0 * 1.8 ** * 1.6 *** * Relative 1.4 *** * Entropy 1.1 *** ** (10.6 bits) 0.9 *** **** 0.7 *** **** 0.5 *** **** 0.2 ******** 0.0 -------- Multilevel TGATTGAC consensus GA G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:32862470-32862490 5 9.64e-06 GCCC TGATTGAC GTTCAGCC chr4:124317866-124317886 9 9.64e-06 AGCCCGAG TGATTGAC ACAT chr17:58679466-58679486 1 9.64e-06 . TGATTGAC TCAAAAACCA chrX:70503405-70503425 7 2.34e-05 AAACCT TGATTGGC AGTTTA chr11:32197969-32197989 1 3.70e-05 . TGAGTGAC AGCCAGAGTC chr6:474916-474936 11 3.70e-05 AAGCTGTGTG TGAGTGAC TG chr19:12267642-12267662 1 3.70e-05 . TGAGTGAC AGCGGAAGCC chr6:132834319-132834339 1 3.70e-05 . TGAGTGAC AGCGGCCCTC chr1:247242166-247242186 5 3.70e-05 GTCC TGAGTGAC GGGAGATG chr11:64009004-64009024 4 5.65e-05 CGG TGAGTGGC GTGGCTACG chr19:19143355-19143375 1 5.65e-05 . TGAGTGGC GGGACCCCCA chr2:219152037-219152057 13 6.60e-05 ACTCTCTGAG TGATAGAC chr9:84430242-84430262 7 7.29e-05 TGACAT TGATTGAT AGCATT chrX:119831186-119831206 5 1.00e-04 cacc tgataggc agcccatg chr17:37321254-37321274 6 1.33e-04 TCCAG TGATTGGT CCCCCTG chr3:9885733-9885753 6 1.33e-04 CGCGC TGATTGGT CAGCTGG chr10:112624552-11262457 6 1.33e-04 TGCGC TGAATGAC TGTCAAT chr22:50682988-50683008 1 1.33e-04 . TGAATGAC AGGCGGCCTC chr11:65894338-65894358 3 1.62e-04 GG TGACTGGC AGCAAGGGCC chr3:114866837-114866857 11 2.02e-04 CGGTGGCCAG TGAGAGGC AG chr19:50320801-50320821 5 2.52e-04 GATG TGATTGGA TCCTTCTC chr22:25632028-25632048 5 2.52e-04 GCCC TGATTGGA GGCAAGCG chr8:103875275-103875295 7 2.69e-04 CTGGGG TGAGTGAA GGCGAC chr6:27219701-27219721 4 3.08e-04 GTA TGATGGGC AGACGGGAG chr6:116937486-116937506 3 3.08e-04 TC GGATTGGC TGCGATAGAA chr8:66556924-66556944 9 3.08e-04 TGGGGCGG GGATTGGC TGAT chr2:73298505-73298525 2 3.60e-04 G GGAGTGAC GGCGCCAAGG chr6:133084643-133084663 13 3.60e-04 CCCTTTGAGA TGACAGAC chr8:145159249-145159269 10 3.60e-04 CGAGAAGAG TGACAGAC AGG chr19:4867728-4867748 5 3.60e-04 CACT GGAGTGAC GGGCGAGG chr9:131940631-131940651 1 4.93e-04 . TGACAGGC GCAGCCCGCC chrX:114795370-114795390 5 4.93e-04 GATG TGACAGGC TCGTGGCC chr19:11909278-11909298 4 4.93e-04 GGC TGAGGGGC GGAGCCTGG chr16:84538296-84538316 3 4.93e-04 GC TGAGGGGC AGTCATTTGG chrX:200063-200083 13 7.63e-04 agcgctgagg ggattggt chr18:57501157-57501177 9 8.00e-04 TGAAATTA TGAGGGAT TCCC chr5:139123228-139123248 13 9.04e-04 GTGGGAGAGG TGAAAGAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:32862470-32862490 9.6e-06 4_[+2]_8 chr4:124317866-124317886 9.6e-06 8_[+2]_4 chr17:58679466-58679486 9.6e-06 [+2]_12 chrX:70503405-70503425 2.3e-05 6_[+2]_6 chr11:32197969-32197989 3.7e-05 [+2]_12 chr6:474916-474936 3.7e-05 10_[+2]_2 chr19:12267642-12267662 3.7e-05 [+2]_12 chr6:132834319-132834339 3.7e-05 [+2]_12 chr1:247242166-247242186 3.7e-05 4_[+2]_8 chr11:64009004-64009024 5.6e-05 3_[+2]_9 chr19:19143355-19143375 5.6e-05 [+2]_12 chr2:219152037-219152057 6.6e-05 12_[+2] chr9:84430242-84430262 7.3e-05 6_[+2]_6 chrX:119831186-119831206 0.0001 4_[+2]_8 chr17:37321254-37321274 0.00013 5_[+2]_7 chr3:9885733-9885753 0.00013 5_[+2]_7 chr10:112624552-11262457 0.00013 5_[+2]_7 chr22:50682988-50683008 0.00013 [+2]_12 chr11:65894338-65894358 0.00016 2_[+2]_10 chr3:114866837-114866857 0.0002 10_[+2]_2 chr19:50320801-50320821 0.00025 4_[+2]_8 chr22:25632028-25632048 0.00025 4_[+2]_8 chr8:103875275-103875295 0.00027 6_[+2]_6 chr6:27219701-27219721 0.00031 3_[+2]_9 chr6:116937486-116937506 0.00031 2_[+2]_10 chr8:66556924-66556944 0.00031 8_[+2]_4 chr2:73298505-73298525 0.00036 1_[+2]_11 chr6:133084643-133084663 0.00036 12_[+2] chr8:145159249-145159269 0.00036 9_[+2]_3 chr19:4867728-4867748 0.00036 4_[+2]_8 chr9:131940631-131940651 0.00049 [+2]_12 chrX:114795370-114795390 0.00049 4_[+2]_8 chr19:11909278-11909298 0.00049 3_[+2]_9 chr16:84538296-84538316 0.00049 2_[+2]_10 chrX:200063-200083 0.00076 12_[+2] chr18:57501157-57501177 0.0008 8_[+2]_4 chr5:139123228-139123248 0.0009 12_[+2] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGAKTGRC width=8 seqs=37 chr6:32862470-32862490 ( 5) TGATTGAC 1 chr4:124317866-124317886 ( 9) TGATTGAC 1 chr17:58679466-58679486 ( 1) TGATTGAC 1 chrX:70503405-70503425 ( 7) TGATTGGC 1 chr11:32197969-32197989 ( 1) TGAGTGAC 1 chr6:474916-474936 ( 11) TGAGTGAC 1 chr19:12267642-12267662 ( 1) TGAGTGAC 1 chr6:132834319-132834339 ( 1) TGAGTGAC 1 chr1:247242166-247242186 ( 5) TGAGTGAC 1 chr11:64009004-64009024 ( 4) TGAGTGGC 1 chr19:19143355-19143375 ( 1) TGAGTGGC 1 chr2:219152037-219152057 ( 13) TGATAGAC 1 chr9:84430242-84430262 ( 7) TGATTGAT 1 chrX:119831186-119831206 ( 5) TGATAGGC 1 chr17:37321254-37321274 ( 6) TGATTGGT 1 chr3:9885733-9885753 ( 6) TGATTGGT 1 chr10:112624552-11262457 ( 6) TGAATGAC 1 chr22:50682988-50683008 ( 1) TGAATGAC 1 chr11:65894338-65894358 ( 3) TGACTGGC 1 chr3:114866837-114866857 ( 11) TGAGAGGC 1 chr19:50320801-50320821 ( 5) TGATTGGA 1 chr22:25632028-25632048 ( 5) TGATTGGA 1 chr8:103875275-103875295 ( 7) TGAGTGAA 1 chr6:27219701-27219721 ( 4) TGATGGGC 1 chr6:116937486-116937506 ( 3) GGATTGGC 1 chr8:66556924-66556944 ( 9) GGATTGGC 1 chr2:73298505-73298525 ( 2) GGAGTGAC 1 chr6:133084643-133084663 ( 13) TGACAGAC 1 chr8:145159249-145159269 ( 10) TGACAGAC 1 chr19:4867728-4867748 ( 5) GGAGTGAC 1 chr9:131940631-131940651 ( 1) TGACAGGC 1 chrX:114795370-114795390 ( 5) TGACAGGC 1 chr19:11909278-11909298 ( 4) TGAGGGGC 1 chr16:84538296-84538316 ( 3) TGAGGGGC 1 chrX:200063-200083 ( 13) GGATTGGT 1 chr18:57501157-57501177 ( 9) TGAGGGAT 1 chr5:139123228-139123248 ( 13) TGAAAGAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.87349 E= 9.1e-016 -1185 -1185 -112 205 -1185 -1185 177 -1185 228 -1185 -1185 -1185 -135 -111 37 96 7 -1185 -144 170 -1185 -1185 177 -1185 131 -1185 73 -1185 -135 137 -1185 -36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 9.1e-016 0.000000 0.000000 0.135135 0.864865 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.081081 0.135135 0.378378 0.405405 0.216216 0.000000 0.108108 0.675676 0.000000 0.000000 1.000000 0.000000 0.513514 0.000000 0.486486 0.000000 0.081081 0.756757 0.000000 0.162162 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGAKTGRC MEME-2 regular expression -------------------------------------------------------------------------------- TGA[TG][TA]G[AG]C -------------------------------------------------------------------------------- Time 4.08 secs. ******************************************************************************** ******************************************************************************** MOTIF AGCCAATG MEME-3 width = 8 sites = 10 llr = 94 E-value = 1.6e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 Description -------------------------------------------------------------------------------- Simplified A a:::98:1 pos.-specific C :1aa12:: probability G :8:::::9 matrix T :1::::a: bits 2.3 * * 2.0 * * 1.8 * *** * 1.6 * *** * Relative 1.4 * ****** Entropy 1.1 * ****** (13.6 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AGCCAATG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr13:20532755-20532775 3 1.34e-05 GG AGCCAATG GGCGTGCCCG chr11:64490737-64490757 9 1.34e-05 AGCAGCGC AGCCAATG CAAG chr1:198128279-198128299 8 1.34e-05 CCTTCGC AGCCAATG CGCAG chr17:43697627-43697647 12 1.34e-05 ACCATTGCTC AGCCAATG G chrX:62975072-62975092 2 4.19e-05 G AGCCACTG ACATACCCGC chr19:6372601-6372621 4 4.19e-05 CTC AGCCACTG GTGTAAGTC chr1:150669814-150669834 4 4.19e-05 TCA ATCCAATG AAGGAACCT chr1:120838409-120838429 5 5.13e-05 CCAT AGCCAATA GGAAGAGC chr17:74667892-74667912 1 6.46e-05 . ACCCAATG GGGATCAAGG chrX:119831186-119831206 13 8.36e-05 cctgataggc agcccatg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr13:20532755-20532775 1.3e-05 2_[+3]_10 chr11:64490737-64490757 1.3e-05 8_[+3]_4 chr1:198128279-198128299 1.3e-05 7_[+3]_5 chr17:43697627-43697647 1.3e-05 11_[+3]_1 chrX:62975072-62975092 4.2e-05 1_[+3]_11 chr19:6372601-6372621 4.2e-05 3_[+3]_9 chr1:150669814-150669834 4.2e-05 3_[+3]_9 chr1:120838409-120838429 5.1e-05 4_[+3]_8 chr17:74667892-74667912 6.5e-05 [+3]_12 chrX:119831186-119831206 8.4e-05 12_[+3] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGCCAATG width=8 seqs=10 chr13:20532755-20532775 ( 3) AGCCAATG 1 chr11:64490737-64490757 ( 9) AGCCAATG 1 chr1:198128279-198128299 ( 8) AGCCAATG 1 chr17:43697627-43697647 ( 12) AGCCAATG 1 chrX:62975072-62975092 ( 2) AGCCACTG 1 chr19:6372601-6372621 ( 4) AGCCACTG 1 chr1:150669814-150669834 ( 4) ATCCAATG 1 chr1:120838409-120838429 ( 5) AGCCAATA 1 chr17:74667892-74667912 ( 1) ACCCAATG 1 chrX:119831186-119831206 ( 13) AGCCCATG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.5921 E= 1.6e+000 228 -997 -997 -997 -997 -154 145 -106 -997 178 -997 -997 -997 178 -997 -997 212 -154 -997 -997 195 -54 -997 -997 -997 -997 -997 226 -104 -997 162 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.6e+000 1.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.800000 0.100000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.900000 0.100000 0.000000 0.000000 0.800000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.100000 0.000000 0.900000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGCCAATG MEME-3 regular expression -------------------------------------------------------------------------------- AGCCA[AC]TG -------------------------------------------------------------------------------- Time 4.82 secs. ******************************************************************************** ******************************************************************************** MOTIF CCCGCCCC MEME-4 width = 8 sites = 7 llr = 69 E-value = 1.8e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C aaa:aaaa probability G :::a:::: matrix T :::::::: bits 2.3 2.0 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.1 ******** (14.2 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CCCGCCCC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr9:131940631-131940651 13 5.32e-05 ACAGGCGCAG CCCGCCCC chr19:12512094-12512114 4 5.32e-05 GAA CCCGCCCC ACGGCCCTT chr19:46087683-46087703 1 5.32e-05 . CCCGCCCC TTACGCCCCG chr1:17446042-17446062 8 5.32e-05 GCGTGGT CCCGCCCC TAACT chr16:67927008-67927028 9 5.32e-05 TGCCCGTC CCCGCCCC GAAG chr1:145476983-145477003 3 5.32e-05 CT CCCGCCCC ATCACTGGTG chr19:14640079-14640099 11 5.32e-05 AACTTCTTAC CCCGCCCC CG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:131940631-131940651 5.3e-05 12_[+4] chr19:12512094-12512114 5.3e-05 3_[+4]_9 chr19:46087683-46087703 5.3e-05 [+4]_12 chr1:17446042-17446062 5.3e-05 7_[+4]_5 chr16:67927008-67927028 5.3e-05 8_[+4]_4 chr1:145476983-145477003 5.3e-05 2_[+4]_10 chr19:14640079-14640099 5.3e-05 10_[+4]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCCGCCCC width=8 seqs=7 chr9:131940631-131940651 ( 13) CCCGCCCC 1 chr19:12512094-12512114 ( 4) CCCGCCCC 1 chr19:46087683-46087703 ( 1) CCCGCCCC 1 chr1:17446042-17446062 ( 8) CCCGCCCC 1 chr16:67927008-67927028 ( 9) CCCGCCCC 1 chr1:145476983-145477003 ( 3) CCCGCCCC 1 chr19:14640079-14640099 ( 11) CCCGCCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.69928 E= 1.8e+001 -945 178 -945 -945 -945 178 -945 -945 -945 178 -945 -945 -945 -945 177 -945 -945 178 -945 -945 -945 178 -945 -945 -945 178 -945 -945 -945 178 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 1.8e+001 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 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 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCCCC MEME-4 regular expression -------------------------------------------------------------------------------- CCCGCCCC -------------------------------------------------------------------------------- Time 5.57 secs. ******************************************************************************** ******************************************************************************** MOTIF AAAAACCA MEME-5 width = 8 sites = 4 llr = 45 E-value = 4.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 Description -------------------------------------------------------------------------------- Simplified A aa8aa::a pos.-specific C ::3::aa: probability G :::::::: matrix T :::::::: bits 2.3 ** ** * 2.0 ** ** * 1.8 ** ***** 1.6 ** ***** Relative 1.4 ******** Entropy 1.1 ******** (16.3 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AAAAACCA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:62932672-62932692 5 6.52e-06 GGGG AAAAACCA CCTCCCGA chr2:16845657-16845677 10 6.52e-06 CGGACCAAT AAAAACCA GCT chr17:58679466-58679486 11 6.52e-06 TGATTGACTC AAAAACCA GC chrX:47497046-47497066 2 1.58e-05 G AACAACCA CACTCACCCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:62932672-62932692 6.5e-06 4_[+5]_8 chr2:16845657-16845677 6.5e-06 9_[+5]_3 chr17:58679466-58679486 6.5e-06 10_[+5]_2 chrX:47497046-47497066 1.6e-05 1_[+5]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAAACCA width=8 seqs=4 chr2:62932672-62932692 ( 5) AAAAACCA 1 chr2:16845657-16845677 ( 10) AAAAACCA 1 chr17:58679466-58679486 ( 11) AAAAACCA 1 chrX:47497046-47497066 ( 2) AACAACCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.4021 E= 4.1e+001 227 -865 -865 -865 227 -865 -865 -865 186 -22 -865 -865 227 -865 -865 -865 227 -865 -865 -865 -865 177 -865 -865 -865 177 -865 -865 227 -865 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 4.1e+001 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAACCA MEME-5 regular expression -------------------------------------------------------------------------------- AA[AC]AACCA -------------------------------------------------------------------------------- Time 6.32 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:120838409-120838429 1.82e-03 4_[+3(5.13e-05)]_8 chrX:47497046-47497066 1.36e-02 1_[+5(1.58e-05)]_11 chr14:91882408-91882428 1.29e-02 7_[+1(9.48e-06)]_5 chr19:12075742-12075762 5.04e-02 10_[+1(4.98e-05)]_2 chr4:603399-603419 4.78e-01 20 chr16:15116157-15116177 8.86e-01 20 chr19:56623149-56623169 1.39e-01 20 chr17:43697627-43697647 7.74e-03 11_[+3(1.34e-05)]_1 chrX:1611086-1611106 4.66e-01 20 chr4:102268865-102268885 4.97e-01 20 chr1:155057897-155057917 9.44e-01 20 chr16:84158473-84158493 2.21e-03 20 chr2:196941702-196941722 8.42e-01 20 chr2:76643121-76643141 1.02e-01 20 chr7:135665756-135665776 6.51e-01 20 chr1:247242166-247242186 6.42e-02 4_[+2(3.70e-05)]_8 chr7:66461580-66461600 3.49e-02 [+1(2.28e-05)]_12 chr8:6598427-6598447 7.27e-03 7_[+1(9.48e-06)]_5 chr1:200379256-200379276 4.56e-03 10_[+1(9.48e-06)]_2 chr6:132834319-132834339 1.31e-02 [+2(3.70e-05)]_12 chr14:37130972-37130992 5.54e-04 20 chr19:47220368-47220388 3.27e-01 20 chr19:12267642-12267662 6.15e-02 [+2(3.70e-05)]_12 chr17:44302809-44302829 3.01e-01 20 chr16:84538296-84538316 6.50e-02 20 chr18:14132573-14132593 4.46e-01 20 chr11:118799364-11879938 8.09e-01 20 chr16:27248910-27248930 5.39e-01 20 chr8:100675933-100675953 5.47e-01 20 chr9:84304874-84304894 9.53e-01 20 chr19:11909278-11909298 3.81e-01 20 chr1:13994354-13994374 5.79e-01 20 chr12:6663463-6663483 5.33e-03 12_[+1(3.63e-05)] chr1:198128279-198128299 8.76e-03 7_[+3(1.34e-05)]_5 chr19:19143355-19143375 7.68e-03 [+2(5.65e-05)]_12 chr7:99798042-99798062 5.75e-01 20 chr16:639812-639832 5.17e-01 20 chr17:58679466-58679486 5.48e-06 [+2(9.64e-06)]_2_[+5(6.52e-06)]_2 chr10:102802599-10280261 7.58e-01 20 chr6:32143937-32143957 4.84e-02 20 chr9:119449522-119449542 9.62e-01 20 chr5:139123228-139123248 4.97e-01 20 chr18:74204993-74205013 6.94e-01 20 chr1:41174601-41174621 5.28e-01 20 chr15:37393951-37393971 1.12e-03 8_[+1(9.48e-06)]_4 chr3:114866194-114866214 3.31e-02 20 chr7:25894874-25894894 9.44e-01 20 chr19:14640079-14640099 4.84e-02 10_[+4(5.32e-05)]_2 chr18:56206421-56206441 3.54e-03 9_[+1(2.28e-05)]_3 chr1:145476983-145477003 3.49e-03 2_[+4(5.32e-05)]_10 chr3:9142368-9142388 2.34e-01 20 chr6:474916-474936 2.14e-02 10_[+2(3.70e-05)]_2 chr1:164528105-164528125 9.32e-01 20 chr10:102790962-10279098 8.08e-01 20 chr2:136288872-136288892 9.37e-01 20 chr5:96144123-96144143 1.91e-01 20 chr13:50209830-50209850 3.60e-01 20 chr6:15399044-15399064 9.91e-01 20 chr9:34989544-34989564 9.95e-01 20 chr17:17566765-17566785 4.33e-01 20 chr2:16845657-16845677 5.28e-04 9_[+5(6.52e-06)]_3 chrX:80377247-80377267 3.93e-01 20 chr9:123884032-123884052 4.39e-01 20 chr22:37582481-37582501 2.39e-01 20 chr7:72299014-72299034 2.92e-01 20 chr19:19843987-19844007 1.34e-01 20 chr22:50682988-50683008 6.87e-02 20 chr10:112624552-11262457 3.28e-02 20 chr1:7843980-7844000 7.52e-01 20 chrX:119831186-119831206 7.61e-04 12_[+3(8.36e-05)] chr20:57580399-57580419 6.00e-01 20 chr19:1041091-1041111 3.23e-01 20 chr4:175204409-175204429 7.51e-01 20 chr1:167691138-167691158 2.17e-01 20 chr17:33570013-33570033 8.08e-01 20 chr4:124317866-124317886 1.40e-02 8_[+2(9.64e-06)]_4 chr1:185285410-185285430 1.32e-02 8_[+1(4.98e-05)]_4 chr14:21735931-21735951 6.18e-03 3_[+1(9.48e-06)]_9 chr21:47012387-47012407 2.34e-01 20 chr22:25632028-25632048 1.55e-01 20 chr3:107241735-107241755 6.46e-02 20 chr6:159527936-159527956 6.08e-02 20 chrX:200063-200083 4.72e-01 20 chr3:127555475-127555495 4.61e-03 10_[+1(9.48e-06)]_2 chr15:43785417-43785437 1.25e-01 20 chr1:25757241-25757261 6.43e-01 20 chr11:64009004-64009024 1.23e-01 3_[+2(5.65e-05)]_9 chr3:9885733-9885753 1.58e-01 20 chr15:78799617-78799637 5.50e-01 20 chr10:54577936-54577956 3.74e-01 20 chr14:65007115-65007135 9.78e-01 20 chr13:64650200-64650220 4.11e-01 20 chr17:3539616-3539636 7.19e-02 20 chr19:45873931-45873951 3.59e-03 20 chr1:31231816-31231836 1.62e-02 20 chr11:34272871-34272891 9.97e-01 20 chr19:12035795-12035815 3.85e-01 20 chr16:67927008-67927028 1.00e-02 8_[+4(5.32e-05)]_4 chr7:69133530-69133550 9.77e-03 4_[+1(9.48e-06)]_8 chr19:55592109-55592129 7.65e-01 20 chr16:89238041-89238061 6.30e-01 20 chr1:21934468-21934488 2.94e-01 20 chr5:81046995-81047015 6.36e-01 20 chr3:194490005-194490025 6.68e-02 20 chr13:44716215-44716235 7.59e-01 20 chr8:145239898-145239918 8.39e-01 20 chr21:32931786-32931806 7.81e-01 20 chr19:11924992-11925012 9.68e-01 20 chr7:150929531-150929551 6.19e-01 20 chrX:46988629-46988649 9.09e-02 20 chr2:227666004-227666024 8.16e-01 20 chr20:40247116-40247136 6.93e-02 20 chr1:153707471-153707491 8.05e-02 8_[+1(4.98e-05)]_4 chr10:129862093-12986211 9.91e-01 20 chr12:56123506-56123526 8.06e-01 20 chr3:43663839-43663859 6.86e-01 20 chrX:14057693-14057713 5.23e-01 20 chr4:184580396-184580416 8.10e-02 8_[+1(4.98e-05)]_4 chr4:78741376-78741396 5.49e-01 20 chr14:104060171-10406019 9.25e-01 20 chr2:44395599-44395619 9.19e-01 20 chr19:29768229-29768249 1.00e+00 20 chr6:20847043-20847063 6.05e-01 20 chr2:88316500-88316520 8.48e-03 20 chr2:98279979-98279999 7.29e-01 20 chrX:114795370-114795390 2.74e-01 20 chr19:4867728-4867748 2.85e-01 20 chr2:102500557-102500577 2.24e-01 20 chr19:13906065-13906085 9.68e-01 20 chr13:97874470-97874490 3.70e-01 20 chr7:139875211-139875231 1.17e-01 20 chr5:179159717-179159737 6.36e-01 20 chr10:104261973-10426199 5.93e-01 20 chr12:54120308-54120328 1.82e-01 20 chr4:124237-124257 4.08e-01 20 chr12:53473247-53473267 5.83e-01 20 chr11:58825988-58826008 1.84e-02 8_[+1(6.60e-05)]_4 chr17:7236124-7236144 6.23e-01 20 chr8:66556924-66556944 3.06e-01 20 chrX:1780441-1780461 2.91e-01 20 chr8:145159249-145159269 1.15e-01 20 chr4:468069-468089 4.83e-02 20 chr7:97761420-97761440 3.98e-01 20 chr3:114866837-114866857 1.14e-02 20 chr1:117664761-117664781 7.44e-01 20 chr17:76628195-76628215 9.59e-01 20 chr18:57501157-57501177 3.03e-01 20 chr14:89882542-89882562 4.46e-01 20 chr6:116937486-116937506 2.88e-01 20 chr11:32197969-32197989 2.76e-03 [+2(3.70e-05)]_12 chr10:104263616-10426363 8.52e-01 20 chr6:27219701-27219721 2.85e-01 20 chr8:25316026-25316046 1.60e-01 20 chr2:74685386-74685406 4.10e-02 [+1(3.63e-05)]_12 chr15:99395700-99395720 7.51e-02 20 chr14:23340900-23340920 3.71e-01 20 chrX:47931292-47931312 5.67e-01 20 chr16:46723249-46723269 2.98e-03 20 chr15:44487572-44487592 4.78e-03 20 chrX:74493825-74493845 4.20e-02 20 chr2:219824249-219824269 6.58e-01 20 chr8:25242929-25242949 1.59e-01 20 chr3:185827013-185827033 8.72e-01 20 chr12:14927243-14927263 1.60e-01 20 chrX:70503405-70503425 4.51e-02 6_[+2(2.34e-05)]_6 chr1:150669814-150669834 8.27e-04 3_[+3(4.19e-05)]_9 chr18:3448215-3448235 6.70e-01 20 chr20:17663001-17663021 5.05e-02 11_[+1(9.84e-05)]_1 chr19:2841370-2841390 7.31e-02 20 chr4:124318625-124318645 4.37e-03 6_[+1(9.48e-06)]_6 chr3:101497968-101497988 7.14e-01 20 chr19:8408201-8408221 2.36e-02 20 chr22:38054448-38054468 1.31e-01 20 chr17:37321254-37321274 1.90e-02 20 chr5:116513196-116513216 2.47e-03 4_[+1(9.48e-06)]_8 chr19:50320801-50320821 6.11e-02 20 chr3:184279427-184279447 6.46e-01 20 chr17:27139576-27139596 8.66e-02 20 chr19:6372601-6372621 1.01e-02 3_[+3(4.19e-05)]_9 chr13:73633051-73633071 8.02e-01 20 chr4:48782465-48782485 3.59e-01 20 chr16:70052399-70052419 5.31e-01 20 chr19:19249331-19249351 1.63e-01 20 chr2:219152037-219152057 5.86e-02 12_[+2(6.60e-05)] chr6:32146119-32146139 7.93e-01 20 chr5:14145456-14145476 8.17e-01 20 chr11:111475243-11147526 9.29e-01 20 chr19:13944562-13944582 1.20e-01 20 chr6:112194718-112194738 1.81e-01 20 chr6:79943710-79943730 9.69e-01 20 chr1:17446042-17446062 3.14e-03 7_[+4(5.32e-05)]_5 chr3:100211323-100211343 7.54e-01 20 chr4:52709093-52709113 8.57e-01 20 chr22:39190221-39190241 1.95e-02 6_[+1(6.60e-05)]_6 chr19:12098347-12098367 8.10e-02 8_[+1(4.98e-05)]_4 chr4:149363810-149363830 9.56e-01 20 chr19:17727929-17727949 6.28e-02 20 chr1:150601673-150601693 3.62e-03 3_[+1(2.28e-05)]_9 chr6:43218925-43218945 8.95e-01 20 chr17:39943145-39943165 3.90e-01 20 chr20:45035332-45035352 7.80e-01 20 chr19:7894891-7894911 2.84e-01 20 chr17:47866503-47866523 4.57e-01 20 chr6:133084643-133084663 9.04e-02 20 chr12:49393538-49393558 6.50e-01 20 chr4:83206086-83206106 2.74e-01 20 chr17:74667892-74667912 8.45e-02 [+3(6.46e-05)]_12 chr19:12595691-12595711 9.92e-01 20 chr18:71959344-71959364 9.84e-01 20 chr19:21688342-21688362 5.20e-01 20 chr19:18315097-18315117 5.04e-01 20 chr1:153940252-153940272 5.99e-02 20 chr17:17184058-17184078 3.73e-01 20 chr1:100889677-100889697 1.84e-02 4_[+1(4.98e-05)]_8 chr19:46087683-46087703 2.09e-02 [+4(5.32e-05)]_12 chr20:34127712-34127732 2.29e-02 20 chr15:82579031-82579051 1.00e-02 20 chrX:47077332-47077352 9.27e-01 20 chr8:90775961-90775981 3.65e-02 4_[+1(3.63e-05)]_8 chr16:22386010-22386030 8.95e-01 20 chr6:32862470-32862490 3.55e-02 4_[+2(9.64e-06)]_8 chr17:6950318-6950338 5.61e-01 20 chr19:12512094-12512114 3.46e-02 3_[+4(5.32e-05)]_9 chr5:32313322-32313342 4.80e-01 20 chr19:12476569-12476589 1.12e-01 20 chr8:103875275-103875295 1.31e-01 20 chr15:70392084-70392104 5.27e-02 20 chr1:161228420-161228440 7.14e-01 20 chr16:67217584-67217604 6.89e-01 20 chrX:40440069-40440089 6.90e-01 20 chr19:21579804-21579824 3.06e-02 7_[+1(4.98e-05)]_5 chr19:18414420-18414440 4.25e-01 20 chr11:64490737-64490757 8.89e-03 8_[+3(1.34e-05)]_4 chr19:19496455-19496475 2.11e-01 20 chr17:79196862-79196882 7.90e-01 20 chr6:31795184-31795204 8.68e-01 20 chr15:89631522-89631542 8.37e-02 20 chrX:62975072-62975092 1.78e-03 1_[+3(4.19e-05)]_11 chr9:84430242-84430262 6.82e-02 6_[+2(7.29e-05)]_6 chr13:20532755-20532775 7.08e-03 2_[+3(1.34e-05)]_10 chr2:73298505-73298525 6.53e-02 20 chr19:55973291-55973311 9.49e-01 20 chr17:41323128-41323148 3.68e-01 20 chr11:82867806-82867826 8.90e-01 20 chr5:145583084-145583104 8.37e-01 20 chr9:131940631-131940651 1.84e-03 12_[+4(5.32e-05)] chr2:62932672-62932692 3.09e-03 4_[+5(6.52e-06)]_8 chr11:65894338-65894358 1.21e-01 20 chr12:6960557-6960577 9.47e-02 20 chr19:58892645-58892665 9.80e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n04.farnam.hpc.yale.internal ********************************************************************************