******************************************************************************** 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/NFYB.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2:160793182-160793202 1.0000 20 chr15:81290747-81290767 1.0000 20 chr16:82685584-82685604 1.0000 20 chr2:45060445-45060465 1.0000 20 chr5:14208793-14208813 1.0000 20 chr8:30506104-30506124 1.0000 20 chr20:40293413-40293433 1.0000 20 chr20:48951833-48951853 1.0000 20 chr11:45600022-45600042 1.0000 20 chr2:111880117-111880137 1.0000 20 chr1:55431822-55431842 1.0000 20 chr3:121749304-121749324 1.0000 20 chr4:185303502-185303522 1.0000 20 chr19:40728047-40728067 1.0000 20 chr19:46148948-46148968 1.0000 20 chr20:45323359-45323379 1.0000 20 chr3:4516795-4516815 1.0000 20 chr1:199141501-199141521 1.0000 20 chr3:61507136-61507156 1.0000 20 chr14:23280464-23280484 1.0000 20 chr1:113500287-113500307 1.0000 20 chr19:45430520-45430540 1.0000 20 chr15:91835088-91835108 1.0000 20 chr10:115934033-11593405 1.0000 20 chr16:78037082-78037102 1.0000 20 chr17:46024540-46024560 1.0000 20 chr4:40059634-40059654 1.0000 20 chr10:103879492-10387951 1.0000 20 chr16:78830286-78830306 1.0000 20 chr4:1872720-1872740 1.0000 20 chr11:64879251-64879271 1.0000 20 chr6:150067671-150067691 1.0000 20 chr3:42543998-42544018 1.0000 20 chr1:26361965-26361985 1.0000 20 chr2:37753668-37753688 1.0000 20 chr10:28592121-28592141 1.0000 20 chr9:1759126-1759146 1.0000 20 chr14:92725452-92725472 1.0000 20 chr10:43857790-43857810 1.0000 20 chr17:74236635-74236655 1.0000 20 chr19:14380040-14380060 1.0000 20 chr18:60746545-60746565 1.0000 20 chr16:28891294-28891314 1.0000 20 chr19:11602095-11602115 1.0000 20 chr10:102241438-10224145 1.0000 20 chr17:36875028-36875048 1.0000 20 chr9:136344267-136344287 1.0000 20 chr1:235111160-235111180 1.0000 20 chr9:135905929-135905949 1.0000 20 chr14:20801481-20801501 1.0000 20 chr12:124594465-12459448 1.0000 20 chr5:176543978-176543998 1.0000 20 chr9:35848217-35848237 1.0000 20 chr6:159495516-159495536 1.0000 20 chr1:31231860-31231880 1.0000 20 chr1:22755315-22755335 1.0000 20 chr1:53168769-53168789 1.0000 20 chr2:46771313-46771333 1.0000 20 chr11:19734314-19734334 1.0000 20 chr6:32595839-32595859 1.0000 20 chr20:48770313-48770333 1.0000 20 chr22:22006342-22006362 1.0000 20 chr11:560927-560947 1.0000 20 chr22:23412306-23412326 1.0000 20 chr19:51263342-51263362 1.0000 20 chr19:12267585-12267605 1.0000 20 chr2:64834344-64834364 1.0000 20 chr19:11909299-11909319 1.0000 20 chr3:67040818-67040838 1.0000 20 chr19:51275883-51275903 1.0000 20 chr10:91011652-91011672 1.0000 20 chr2:225810102-225810122 1.0000 20 chr13:26796010-26796030 1.0000 20 chr19:3035709-3035729 1.0000 20 chr3:50605192-50605212 1.0000 20 chrX:47415632-47415652 1.0000 20 chr19:12251198-12251218 1.0000 20 chr17:46184836-46184856 1.0000 20 chr5:96144107-96144127 1.0000 20 chr11:17725719-17725739 1.0000 20 chr5:149790279-149790299 1.0000 20 chr19:1041134-1041154 1.0000 20 chrX:47221704-47221724 1.0000 20 chr3:100211389-100211409 1.0000 20 chr14:68161606-68161626 1.0000 20 chr1:207925334-207925354 1.0000 20 chr10:102790943-10279096 1.0000 20 chr11:69197219-69197239 1.0000 20 chr22:20067677-20067697 1.0000 20 chr11:17298179-17298199 1.0000 20 chr1:145470390-145470410 1.0000 20 chr5:36724110-36724130 1.0000 20 chr12:113806341-11380636 1.0000 20 chr1:112282100-112282120 1.0000 20 chr9:99212346-99212366 1.0000 20 chrX:154444587-154444607 1.0000 20 chr1:28573855-28573875 1.0000 20 chr6:167000467-167000487 1.0000 20 chr16:16002045-16002065 1.0000 20 chr9:139844602-139844622 1.0000 20 chr19:3344317-3344337 1.0000 20 chr17:63226333-63226353 1.0000 20 chr19:40459548-40459568 1.0000 20 chr1:226254543-226254563 1.0000 20 chr3:98250655-98250675 1.0000 20 chr17:80056715-80056735 1.0000 20 chr6:30227243-30227263 1.0000 20 chr16:84300182-84300202 1.0000 20 chr6:27099760-27099780 1.0000 20 chr1:54518454-54518474 1.0000 20 chr17:79895207-79895227 1.0000 20 chr19:2042315-2042335 1.0000 20 chr13:107188066-10718808 1.0000 20 chr2:216778848-216778868 1.0000 20 chr19:11849834-11849854 1.0000 20 chr1:174959679-174959699 1.0000 20 chrX:48595676-48595696 1.0000 20 chr1:249132290-249132310 1.0000 20 chr19:13944527-13944547 1.0000 20 chr16:74729945-74729965 1.0000 20 chr3:119813857-119813877 1.0000 20 chr7:37393320-37393340 1.0000 20 chr12:51818541-51818561 1.0000 20 chr19:19249345-19249365 1.0000 20 chr6:32658186-32658206 1.0000 20 chr7:75947460-75947480 1.0000 20 chr19:38495355-38495375 1.0000 20 chr12:12878621-12878641 1.0000 20 chr11:2721338-2721358 1.0000 20 chr19:49217424-49217444 1.0000 20 chr1:160991012-160991032 1.0000 20 chr11:62495413-62495433 1.0000 20 chr22:20004446-20004466 1.0000 20 chr13:53029535-53029555 1.0000 20 chr19:41156347-41156367 1.0000 20 chr17:17653407-17653427 1.0000 20 chr16:4852955-4852975 1.0000 20 chr2:74881292-74881312 1.0000 20 chr18:60742514-60742534 1.0000 20 chr17:1531724-1531744 1.0000 20 chr19:15947918-15947938 1.0000 20 chr7:916476-916496 1.0000 20 chr12:54553124-54553144 1.0000 20 chr19:36139084-36139104 1.0000 20 chr19:12405719-12405739 1.0000 20 chr19:11925034-11925054 1.0000 20 chr11:88071743-88071763 1.0000 20 chr2:172967722-172967742 1.0000 20 chr2:61292930-61292950 1.0000 20 chr1:53792065-53792085 1.0000 20 chr3:39425808-39425828 1.0000 20 chr6:152024211-152024231 1.0000 20 chr4:177240927-177240947 1.0000 20 chr14:65878527-65878547 1.0000 20 chr1:70876859-70876879 1.0000 20 chr19:10362572-10362592 1.0000 20 chr4:175204434-175204454 1.0000 20 chr12:6665279-6665299 1.0000 20 chr19:3572701-3572721 1.0000 20 chr6:52529106-52529126 1.0000 20 chr16:765024-765044 1.0000 20 chr6:153304251-153304271 1.0000 20 chr17:80416459-80416479 1.0000 20 chr19:6604165-6604185 1.0000 20 chr10:111971042-11197106 1.0000 20 chr2:9144149-9144169 1.0000 20 chr6:116601174-116601194 1.0000 20 chr6:35296018-35296038 1.0000 20 chr2:10262794-10262814 1.0000 20 chr19:2945045-2945065 1.0000 20 chr3:48672957-48672977 1.0000 20 chr16:2932853-2932873 1.0000 20 chr22:42342814-42342834 1.0000 20 chr19:45829639-45829659 1.0000 20 chr1:197115838-197115858 1.0000 20 chr3:67705879-67705899 1.0000 20 chr2:59098017-59098037 1.0000 20 chr17:47866558-47866578 1.0000 20 chr10:101190510-10119053 1.0000 20 chrX:13671210-13671230 1.0000 20 chr3:149530941-149530961 1.0000 20 chr11:329626-329646 1.0000 20 chr1:150669777-150669797 1.0000 20 chr1:232765949-232765969 1.0000 20 chr10:46168287-46168307 1.0000 20 chr14:23388556-23388576 1.0000 20 chr2:36845711-36845731 1.0000 20 chr11:13299059-13299079 1.0000 20 chr7:139045301-139045321 1.0000 20 chr19:4342960-4342980 1.0000 20 chr5:32313339-32313359 1.0000 20 chr22:35696192-35696212 1.0000 20 chr19:51182819-51182839 1.0000 20 chr14:78083246-78083266 1.0000 20 chr14:23755465-23755485 1.0000 20 chr20:3668501-3668521 1.0000 20 chr17:26646098-26646118 1.0000 20 chr6:26045503-26045523 1.0000 20 chr22:50682993-50683013 1.0000 20 chr17:21187943-21187963 1.0000 20 chr6:27834274-27834294 1.0000 20 chr9:131940639-131940659 1.0000 20 chr22:27366959-27366979 1.0000 20 chr6:45650187-45650207 1.0000 20 chr10:120788921-12078894 1.0000 20 chr5:54830983-54831003 1.0000 20 chr12:6960521-6960541 1.0000 20 chr19:45418422-45418442 1.0000 20 chr14:54863580-54863600 1.0000 20 chr3:51832812-51832832 1.0000 20 chr9:73029315-73029335 1.0000 20 chr22:37726699-37726719 1.0000 20 chr1:225615861-225615881 1.0000 20 chr15:90895441-90895461 1.0000 20 chr16:57569976-57569996 1.0000 20 chr11:34379635-34379655 1.0000 20 chr17:17295088-17295108 1.0000 20 chr9:120439973-120439993 1.0000 20 chr1:28562494-28562514 1.0000 20 chr9:34646632-34646652 1.0000 20 chr10:70748430-70748450 1.0000 20 chr19:17420300-17420320 1.0000 20 chr9:35829188-35829208 1.0000 20 chr11:61582158-61582178 1.0000 20 chr1:200589884-200589904 1.0000 20 chr6:53213839-53213859 1.0000 20 chr10:58121070-58121090 1.0000 20 chr19:11877780-11877800 1.0000 20 chr19:40931815-40931835 1.0000 20 chr19:6372631-6372651 1.0000 20 chr9:37465732-37465752 1.0000 20 chr17:48944859-48944879 1.0000 20 chr22:37582471-37582491 1.0000 20 chr3:126422994-126423014 1.0000 20 chr10:82444181-82444201 1.0000 20 chr15:43803109-43803129 1.0000 20 chrX:70273264-70273284 1.0000 20 chr1:43390010-43390030 1.0000 20 chr12:133485277-13348529 1.0000 20 chr20:48367331-48367351 1.0000 20 chr19:49224039-49224059 1.0000 20 chr9:130159139-130159159 1.0000 20 chr12:122204505-12220452 1.0000 20 chr12:14927235-14927255 1.0000 20 chr17:37275028-37275048 1.0000 20 chr9:101088795-101088815 1.0000 20 chr16:22229444-22229464 1.0000 20 chr11:119205075-11920509 1.0000 20 chr19:37808616-37808636 1.0000 20 chr7:128099612-128099632 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_NFYB/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/NFYB.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 0.205 C 0.303 G 0.284 T 0.208 Background letter frequencies (from file dataset with add-one prior applied): A 0.205 C 0.303 G 0.284 T 0.208 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CCAATBRG MEME-1 width = 8 sites = 77 llr = 527 E-value = 2.3e-057 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::6a:14: pos.-specific C a82::4:1 probability G ::2::268 matrix T :21:a4:: bits 2.3 ** 2.1 ** 1.8 ** 1.6 * ** Relative 1.4 * ** Entropy 1.1 * ** ** (9.9 bits) 0.9 ** ** ** 0.7 ***** ** 0.5 ***** ** 0.2 ******** 0.0 -------- Multilevel CCAATCGG consensus TA sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:111880117-111880137 12 1.35e-05 CGCGCGCGGA CCAATTGG G chr17:21187943-21187963 13 4.28e-05 AACGAAAGGA CCAATCGG chr10:111971042-11197106 7 4.28e-05 GTTCAG CCAATCGG CAGCTC chr20:48770313-48770333 11 4.28e-05 cgcgTCACAG CCAATCGG GG chr19:40931815-40931835 5 5.70e-05 ACAA CCAATCAG GAAACGGC chr19:11877780-11877800 1 5.70e-05 . CCAATCAG GGCCGCGGGG chr6:27834274-27834294 9 5.70e-05 AAAACTGG CCAATCAG ATTA chr10:46168287-46168307 6 5.70e-05 GCCCT CCAATCAG CGCGGGC chr3:48672957-48672977 10 5.70e-05 AGGCTTGGG CCAATCAG CGC chr12:6665279-6665299 12 5.70e-05 ACAGAGCCGA CCAATCAG G chr1:53792065-53792085 7 5.70e-05 GCCCAG CCAATCAG GGGCCC chr19:19249345-19249365 2 5.70e-05 A CCAATCAG TGTGTCTTGA chr3:98250655-98250675 3 5.70e-05 CA CCAATCAG AGTGGTGCTC chr19:11909299-11909319 8 5.70e-05 ACCCCAT CCAATCAG GGGCC chr12:124594465-12459448 2 5.70e-05 g ccaatcag ctgtaagtgg chr17:46024540-46024560 10 5.70e-05 CCAACCTGG CCAATCAG ATT chr3:4516795-4516815 11 5.70e-05 tatttctggt ccaatcag tt chr9:101088795-101088815 9 7.53e-05 aagtctgg ccaatggg ctgt chr20:3668501-3668521 9 7.53e-05 tactccag ccaatggg aagt chr2:10262794-10262814 6 7.53e-05 CAAAG CCAATGGG AAGGGCC chr1:112282100-112282120 8 7.53e-05 TCTTCAG CCAATGGG CAGGG chr19:3035709-3035729 9 7.53e-05 GAAACTGG CCAATGGG GATT chr11:19734314-19734334 5 7.53e-05 TGGA CCAATggg cgcgccgg chr2:37753668-37753688 2 7.53e-05 g ccaatggg aagtgagagg chr6:45650187-45650207 11 8.86e-05 attcctttgg ccaatgag aa chr3:100211389-100211409 10 8.86e-05 CTGCGGCCA CCAATGAG CTG chr19:14380040-14380060 8 8.86e-05 gctctaa ccaatgag ctgtg chr1:55431822-55431842 11 8.86e-05 tcagttctga ccaatgag ag chr8:30506104-30506124 12 8.86e-05 ctaactctgg ccaatgag c chr10:82444181-82444201 9 1.18e-04 agatccag ccaatagg atta chr9:1759126-1759146 12 1.18e-04 cttgcctgga ccaatagg a chr19:46148948-46148968 6 1.18e-04 CTTCA CCAATAGG GATGCAG chr19:6372631-6372651 7 1.27e-04 TGGCGC CCAATAAG CTCAAG chr3:126422994-126423014 13 1.89e-04 TCAGCGCCAC CCGATTGG chr16:57569976-57569996 12 1.89e-04 CCGCATGGCC CCCATTGG C chr1:225615861-225615881 2 1.89e-04 T CCCATTGG CTCCTCGACC chr7:916476-916496 11 1.89e-04 cccgccgcct cccattgg cc chr13:53029535-53029555 1 1.89e-04 . CCCATTGG CTTATTCAAT chr1:160991012-160991032 9 1.89e-04 TGCACGTT CCGATTGG TGTA chr13:107188066-10718808 2 1.89e-04 G CCCATTGG CCCGCGGCTC chr12:113806341-11380636 10 1.89e-04 cacccatat cccattgg cca chr11:17725719-17725739 7 1.89e-04 tcatac cccattgg ctacaa chr5:96144107-96144127 5 1.89e-04 GACG CCCATTGG ACTCGCTG chr15:91835088-91835108 3 1.89e-04 at cccattgg ccaaaactaa chr20:40293413-40293433 3 1.89e-04 ct cccattgg tcagaactta chr14:20801481-20801501 10 2.63e-04 CCTGATTGG CTAATGAG TTC chr20:48367331-48367351 4 3.81e-04 aaa ccaatcgc tgtgactgg chr14:92725452-92725472 13 3.81e-04 caggtctcag ccaatcgc chr9:139844602-139844622 8 4.19e-04 CCCTCCA CCAATCAC GTTAG chr1:26361965-26361985 13 4.19e-04 CCCCGGTTGG CCAATCAC chr5:14208793-14208813 13 4.19e-04 tgactctcag ccaatcac chr17:80056715-80056735 6 5.87e-04 CCGGC CCAATGGC GGCGCGC chr17:48944859-48944879 11 6.54e-04 GCAACGACGC CTGATTGG CT chr1:200589884-200589904 10 6.54e-04 CCCCGCCTT CTGATTGG CTG chr19:2945045-2945065 1 6.54e-04 . CTGATTGG AGAATTCTCC chr19:15947918-15947938 12 6.54e-04 GGCTACGCTC CTGATTGG A chr17:1531724-1531744 10 6.54e-04 CCCGGCGCG CTCATTGG CCG chr7:37393320-37393340 7 6.54e-04 agagag ctgattgg gccgtt chr16:16002045-16002065 6 6.54e-04 tctca ctgattgg ttcgggt chr2:64834344-64834364 5 6.54e-04 CCTG CTGATTGG TTCAGAAG chr2:46771313-46771333 6 6.54e-04 GGTCC CTCATTGG TGAGTGG chr5:176543978-176543998 8 6.54e-04 GCCGCCG CTGATTGG CCCGT chr19:3344317-3344337 6 7.01e-04 TGTGG CCTATCAG AAGATGG chr9:35829188-35829208 7 7.73e-04 CAGGGA CCAATCGA GCCGGC chr6:32595839-32595859 7 7.73e-04 CTTCAG CAAATCAG AACCCG chr9:73029315-73029335 2 8.31e-04 T CCAATCAA AAGTAAGTTG chr15:90895441-90895461 11 9.12e-04 AACTGAAAAG CCAATAGC AA chr1:113500287-113500307 1 9.76e-04 . CCAATAAC AGTTCAGTAT chr19:37808616-37808636 3 1.05e-03 TT CTTATTGG CTAATGTGGA chr1:70876859-70876879 9 1.05e-03 GCCTGCGC TCAATGGG CCGC chr11:62495413-62495433 2 1.05e-03 T CTTATTGG ACAACTTGAA chr3:67040818-67040838 13 1.05e-03 cttgttatgg ccaatgaa chr17:17295088-17295108 2 1.31e-03 t caaataag ggaataaaag chr19:4342960-4342980 4 1.77e-03 CTA TCGATTGG TTGAGGGTG chr3:39425808-39425828 8 1.77e-03 CCGGCGT TCGATTGG TCATC chr20:48951833-48951853 11 2.04e-03 gaatgacgta cacatcag tt chr1:54518454-54518474 8 2.17e-03 cccccag cctatcac agggt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:111880117-111880137 1.3e-05 11_[+1]_1 chr17:21187943-21187963 4.3e-05 12_[+1] chr10:111971042-11197106 4.3e-05 6_[+1]_6 chr20:48770313-48770333 4.3e-05 10_[+1]_2 chr19:40931815-40931835 5.7e-05 4_[+1]_8 chr19:11877780-11877800 5.7e-05 [+1]_12 chr6:27834274-27834294 5.7e-05 8_[+1]_4 chr10:46168287-46168307 5.7e-05 5_[+1]_7 chr3:48672957-48672977 5.7e-05 9_[+1]_3 chr12:6665279-6665299 5.7e-05 11_[+1]_1 chr1:53792065-53792085 5.7e-05 6_[+1]_6 chr19:19249345-19249365 5.7e-05 1_[+1]_11 chr3:98250655-98250675 5.7e-05 2_[+1]_10 chr19:11909299-11909319 5.7e-05 7_[+1]_5 chr12:124594465-12459448 5.7e-05 1_[+1]_11 chr17:46024540-46024560 5.7e-05 9_[+1]_3 chr3:4516795-4516815 5.7e-05 10_[+1]_2 chr9:101088795-101088815 7.5e-05 8_[+1]_4 chr20:3668501-3668521 7.5e-05 8_[+1]_4 chr2:10262794-10262814 7.5e-05 5_[+1]_7 chr1:112282100-112282120 7.5e-05 7_[+1]_5 chr19:3035709-3035729 7.5e-05 8_[+1]_4 chr11:19734314-19734334 7.5e-05 4_[+1]_8 chr2:37753668-37753688 7.5e-05 1_[+1]_11 chr6:45650187-45650207 8.9e-05 10_[+1]_2 chr3:100211389-100211409 8.9e-05 9_[+1]_3 chr19:14380040-14380060 8.9e-05 7_[+1]_5 chr1:55431822-55431842 8.9e-05 10_[+1]_2 chr8:30506104-30506124 8.9e-05 11_[+1]_1 chr10:82444181-82444201 0.00012 8_[+1]_4 chr9:1759126-1759146 0.00012 11_[+1]_1 chr19:46148948-46148968 0.00012 5_[+1]_7 chr19:6372631-6372651 0.00013 6_[+1]_6 chr3:126422994-126423014 0.00019 12_[+1] chr16:57569976-57569996 0.00019 11_[+1]_1 chr1:225615861-225615881 0.00019 1_[+1]_11 chr7:916476-916496 0.00019 10_[+1]_2 chr13:53029535-53029555 0.00019 [+1]_12 chr1:160991012-160991032 0.00019 8_[+1]_4 chr13:107188066-10718808 0.00019 1_[+1]_11 chr12:113806341-11380636 0.00019 9_[+1]_3 chr11:17725719-17725739 0.00019 6_[+1]_6 chr5:96144107-96144127 0.00019 4_[+1]_8 chr15:91835088-91835108 0.00019 2_[+1]_10 chr20:40293413-40293433 0.00019 2_[+1]_10 chr14:20801481-20801501 0.00026 9_[+1]_3 chr20:48367331-48367351 0.00038 3_[+1]_9 chr14:92725452-92725472 0.00038 12_[+1] chr9:139844602-139844622 0.00042 7_[+1]_5 chr1:26361965-26361985 0.00042 12_[+1] chr5:14208793-14208813 0.00042 12_[+1] chr17:80056715-80056735 0.00059 5_[+1]_7 chr17:48944859-48944879 0.00065 10_[+1]_2 chr1:200589884-200589904 0.00065 9_[+1]_3 chr19:2945045-2945065 0.00065 [+1]_12 chr19:15947918-15947938 0.00065 11_[+1]_1 chr17:1531724-1531744 0.00065 9_[+1]_3 chr7:37393320-37393340 0.00065 6_[+1]_6 chr16:16002045-16002065 0.00065 5_[+1]_7 chr2:64834344-64834364 0.00065 4_[+1]_8 chr2:46771313-46771333 0.00065 5_[+1]_7 chr5:176543978-176543998 0.00065 7_[+1]_5 chr19:3344317-3344337 0.0007 5_[+1]_7 chr9:35829188-35829208 0.00077 6_[+1]_6 chr6:32595839-32595859 0.00077 6_[+1]_6 chr9:73029315-73029335 0.00083 1_[+1]_11 chr15:90895441-90895461 0.00091 10_[+1]_2 chr1:113500287-113500307 0.00098 [+1]_12 chr19:37808616-37808636 0.0011 2_[+1]_10 chr1:70876859-70876879 0.0011 8_[+1]_4 chr11:62495413-62495433 0.0011 1_[+1]_11 chr3:67040818-67040838 0.0011 12_[+1] chr17:17295088-17295108 0.0013 1_[+1]_11 chr19:4342960-4342980 0.0018 3_[+1]_9 chr3:39425808-39425828 0.0018 7_[+1]_5 chr20:48951833-48951853 0.002 10_[+1]_2 chr1:54518454-54518474 0.0022 7_[+1]_5 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCAATBRG width=8 seqs=77 chr2:111880117-111880137 ( 12) CCAATTGG 1 chr17:21187943-21187963 ( 13) CCAATCGG 1 chr10:111971042-11197106 ( 7) CCAATCGG 1 chr20:48770313-48770333 ( 11) CCAATCGG 1 chr19:40931815-40931835 ( 5) CCAATCAG 1 chr19:11877780-11877800 ( 1) CCAATCAG 1 chr6:27834274-27834294 ( 9) CCAATCAG 1 chr10:46168287-46168307 ( 6) CCAATCAG 1 chr3:48672957-48672977 ( 10) CCAATCAG 1 chr12:6665279-6665299 ( 12) CCAATCAG 1 chr1:53792065-53792085 ( 7) CCAATCAG 1 chr19:19249345-19249365 ( 2) CCAATCAG 1 chr3:98250655-98250675 ( 3) CCAATCAG 1 chr19:11909299-11909319 ( 8) CCAATCAG 1 chr12:124594465-12459448 ( 2) CCAATCAG 1 chr17:46024540-46024560 ( 10) CCAATCAG 1 chr3:4516795-4516815 ( 11) CCAATCAG 1 chr9:101088795-101088815 ( 9) CCAATGGG 1 chr20:3668501-3668521 ( 9) CCAATGGG 1 chr2:10262794-10262814 ( 6) CCAATGGG 1 chr1:112282100-112282120 ( 8) CCAATGGG 1 chr19:3035709-3035729 ( 9) CCAATGGG 1 chr11:19734314-19734334 ( 5) CCAATGGG 1 chr2:37753668-37753688 ( 2) CCAATGGG 1 chr6:45650187-45650207 ( 11) CCAATGAG 1 chr3:100211389-100211409 ( 10) CCAATGAG 1 chr19:14380040-14380060 ( 8) CCAATGAG 1 chr1:55431822-55431842 ( 11) CCAATGAG 1 chr8:30506104-30506124 ( 12) CCAATGAG 1 chr10:82444181-82444201 ( 9) CCAATAGG 1 chr9:1759126-1759146 ( 12) CCAATAGG 1 chr19:46148948-46148968 ( 6) CCAATAGG 1 chr19:6372631-6372651 ( 7) CCAATAAG 1 chr3:126422994-126423014 ( 13) CCGATTGG 1 chr16:57569976-57569996 ( 12) CCCATTGG 1 chr1:225615861-225615881 ( 2) CCCATTGG 1 chr7:916476-916496 ( 11) CCCATTGG 1 chr13:53029535-53029555 ( 1) CCCATTGG 1 chr1:160991012-160991032 ( 9) CCGATTGG 1 chr13:107188066-10718808 ( 2) CCCATTGG 1 chr12:113806341-11380636 ( 10) CCCATTGG 1 chr11:17725719-17725739 ( 7) CCCATTGG 1 chr5:96144107-96144127 ( 5) CCCATTGG 1 chr15:91835088-91835108 ( 3) CCCATTGG 1 chr20:40293413-40293433 ( 3) CCCATTGG 1 chr14:20801481-20801501 ( 10) CTAATGAG 1 chr20:48367331-48367351 ( 4) CCAATCGC 1 chr14:92725452-92725472 ( 13) CCAATCGC 1 chr9:139844602-139844622 ( 8) CCAATCAC 1 chr1:26361965-26361985 ( 13) CCAATCAC 1 chr5:14208793-14208813 ( 13) CCAATCAC 1 chr17:80056715-80056735 ( 6) CCAATGGC 1 chr17:48944859-48944879 ( 11) CTGATTGG 1 chr1:200589884-200589904 ( 10) CTGATTGG 1 chr19:2945045-2945065 ( 1) CTGATTGG 1 chr19:15947918-15947938 ( 12) CTGATTGG 1 chr17:1531724-1531744 ( 10) CTCATTGG 1 chr7:37393320-37393340 ( 7) CTGATTGG 1 chr16:16002045-16002065 ( 6) CTGATTGG 1 chr2:64834344-64834364 ( 5) CTGATTGG 1 chr2:46771313-46771333 ( 6) CTCATTGG 1 chr5:176543978-176543998 ( 8) CTGATTGG 1 chr19:3344317-3344337 ( 6) CCTATCAG 1 chr9:35829188-35829208 ( 7) CCAATCGA 1 chr6:32595839-32595859 ( 7) CAAATCAG 1 chr9:73029315-73029335 ( 2) CCAATCAA 1 chr15:90895441-90895461 ( 11) CCAATAGC 1 chr1:113500287-113500307 ( 1) CCAATAAC 1 chr19:37808616-37808636 ( 3) CTTATTGG 1 chr1:70876859-70876879 ( 9) TCAATGGG 1 chr11:62495413-62495433 ( 2) CTTATTGG 1 chr3:67040818-67040838 ( 13) CCAATGAA 1 chr17:17295088-17295108 ( 2) CAAATAAG 1 chr19:4342960-4342980 ( 4) TCGATTGG 1 chr3:39425808-39425828 ( 8) TCGATTGG 1 chr20:48951833-48951853 ( 11) CACATCAG 1 chr1:54518454-54518474 ( 8) CCTATCAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.29036 E= 2.3e-057 -1291 167 -1291 -241 -240 139 -1291 -30 160 -84 -87 -200 228 -1291 -1291 -1291 -1291 -1291 -1291 227 -118 21 -45 75 97 -1291 107 -1291 -240 -137 157 -1291 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 77 E= 2.3e-057 0.000000 0.961039 0.000000 0.038961 0.038961 0.792208 0.000000 0.168831 0.623377 0.168831 0.155844 0.051948 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.090909 0.350649 0.207792 0.350649 0.402597 0.000000 0.597403 0.000000 0.038961 0.116883 0.844156 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAATBRG MEME-1 regular expression -------------------------------------------------------------------------------- CCAAT[CTG][GA]G -------------------------------------------------------------------------------- Time 5.27 secs. ******************************************************************************** ******************************************************************************** MOTIF ATTGGYTG MEME-2 width = 8 sites = 14 llr = 129 E-value = 4.2e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 Description -------------------------------------------------------------------------------- Simplified A a::::::: pos.-specific C :1:::611 probability G :::aa:19 matrix T :9a::491 bits 2.3 * * 2.1 * * 1.8 * *** 1.6 ***** Relative 1.4 ***** * Entropy 1.1 ***** ** (13.3 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel ATTGGCTG consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr17:63226333-63226353 2 8.79e-06 c attggttg gcctttggtc chr16:78037082-78037102 2 8.79e-06 C ATTGGTTG ATCCAGCGGA chr10:58121070-58121090 12 2.16e-05 GGGGCAGGCG ATTGGCTG C chr14:23755465-23755485 5 2.16e-05 AGGT ATTGGCTG CGTGGGCC chrX:13671210-13671230 1 2.16e-05 . ATTGGCTG AGCCTTGACG chr19:10362572-10362592 2 2.16e-05 C ATTGGCTG AATTGGGCCA chr11:2721338-2721358 1 2.16e-05 . ATTGGCTG GGTGCGGAAA chr19:45430520-45430540 5 2.16e-05 TGGG ATTGGCTG TCCTCCTT chr19:51182819-51182839 8 5.95e-05 TGACGTC ACTGGCTG CCGGG chr17:47866558-47866578 8 5.95e-05 CTCTCCC ACTGGCTG GAGAG chr1:174959679-174959699 13 5.95e-05 ATCAGCGATC ATTGGTTT chr19:49224039-49224059 8 7.82e-05 GTTTGGT ATTGGTTC TCAAG chr1:43390010-43390030 1 1.17e-04 . ATTGGTGG AGTCTTGGAG chr1:232765949-232765969 2 1.17e-04 C ATTGGTCG CTGCCTGCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr17:63226333-63226353 8.8e-06 1_[+2]_11 chr16:78037082-78037102 8.8e-06 1_[+2]_11 chr10:58121070-58121090 2.2e-05 11_[+2]_1 chr14:23755465-23755485 2.2e-05 4_[+2]_8 chrX:13671210-13671230 2.2e-05 [+2]_12 chr19:10362572-10362592 2.2e-05 1_[+2]_11 chr11:2721338-2721358 2.2e-05 [+2]_12 chr19:45430520-45430540 2.2e-05 4_[+2]_8 chr19:51182819-51182839 5.9e-05 7_[+2]_5 chr17:47866558-47866578 5.9e-05 7_[+2]_5 chr1:174959679-174959699 5.9e-05 12_[+2] chr19:49224039-49224059 7.8e-05 7_[+2]_5 chr1:43390010-43390030 0.00012 [+2]_12 chr1:232765949-232765969 0.00012 1_[+2]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ATTGGYTG width=8 seqs=14 chr17:63226333-63226353 ( 2) ATTGGTTG 1 chr16:78037082-78037102 ( 2) ATTGGTTG 1 chr10:58121070-58121090 ( 12) ATTGGCTG 1 chr14:23755465-23755485 ( 5) ATTGGCTG 1 chrX:13671210-13671230 ( 1) ATTGGCTG 1 chr19:10362572-10362592 ( 2) ATTGGCTG 1 chr11:2721338-2721358 ( 1) ATTGGCTG 1 chr19:45430520-45430540 ( 5) ATTGGCTG 1 chr19:51182819-51182839 ( 8) ACTGGCTG 1 chr17:47866558-47866578 ( 8) ACTGGCTG 1 chr1:174959679-174959699 ( 13) ATTGGTTT 1 chr19:49224039-49224059 ( 8) ATTGGTTC 1 chr1:43390010-43390030 ( 1) ATTGGTGG 1 chr1:232765949-232765969 ( 2) ATTGGTCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.0786 E= 4.2e-005 228 -1045 -1045 -1045 -1045 -108 -1045 204 -1045 -1045 -1045 227 -1045 -1045 181 -1045 -1045 -1045 181 -1045 -1045 92 -1045 104 -1045 -208 -199 204 -1045 -208 159 -154 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 4.2e-005 1.000000 0.000000 0.000000 0.000000 0.000000 0.142857 0.000000 0.857143 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 0.571429 0.000000 0.428571 0.000000 0.071429 0.071429 0.857143 0.000000 0.071429 0.857143 0.071429 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGGYTG MEME-2 regular expression -------------------------------------------------------------------------------- ATTGG[CT]TG -------------------------------------------------------------------------------- Time 8.21 secs. ******************************************************************************** ******************************************************************************** MOTIF CCGCCCCB MEME-3 width = 8 sites = 15 llr = 122 E-value = 4.6e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::::1 pos.-specific C aa:aaaa2 probability G ::9::::4 matrix T ::1::::3 bits 2.3 2.1 1.8 ** **** 1.6 ** **** Relative 1.4 ******* Entropy 1.1 ******* (11.7 bits) 0.9 ******* 0.7 ******* 0.5 ******* 0.2 ******* 0.0 -------- Multilevel CCGCCCCG consensus T sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr9:131940639-131940659 6 6.24e-05 GCAGC CCGCCCCG GGGCTAC chr16:765024-765044 4 6.24e-05 gct ccgccccg cgccTGCTA chr10:102790943-10279096 5 6.24e-05 TGCA CCGCCCCG GGCTCCCA chr1:207925334-207925354 1 6.24e-05 . CCGCCCCG CGGCCCGCCG chr19:12251198-12251218 9 6.24e-05 GCCGGGCT CCGCCCCG GCGC chr4:177240927-177240947 8 1.08e-04 ACAAACC CCGCCCCT CCCTC chr22:23412306-23412326 6 1.08e-04 CGACC CCGCCCCT GTCCGTC chr9:136344267-136344287 1 1.08e-04 . CCGCCCCT TGGCCGCTAT chr17:26646098-26646118 8 2.20e-04 GGGAGTG CCGCCCCC TGTCC chr19:11849834-11849854 8 2.20e-04 ACAATCC CCGCCCCC TCATC chr19:12267585-12267605 6 2.20e-04 GGACC CCGCCCCA GCGCCCC chr3:42543998-42544018 3 2.20e-04 CC CCGCCCCA TACCTGCGCG chr11:64879251-64879271 3 2.20e-04 GT CCGCCCCC GAGCGCCGAT chrX:47221704-47221724 3 2.65e-04 CA CCTCCCCG ATGCAGCCAC chr11:69197219-69197239 5 2.99e-04 gact cctcccct tgcaactc -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:131940639-131940659 6.2e-05 5_[+3]_7 chr16:765024-765044 6.2e-05 3_[+3]_9 chr10:102790943-10279096 6.2e-05 4_[+3]_8 chr1:207925334-207925354 6.2e-05 [+3]_12 chr19:12251198-12251218 6.2e-05 8_[+3]_4 chr4:177240927-177240947 0.00011 7_[+3]_5 chr22:23412306-23412326 0.00011 5_[+3]_7 chr9:136344267-136344287 0.00011 [+3]_12 chr17:26646098-26646118 0.00022 7_[+3]_5 chr19:11849834-11849854 0.00022 7_[+3]_5 chr19:12267585-12267605 0.00022 5_[+3]_7 chr3:42543998-42544018 0.00022 2_[+3]_10 chr11:64879251-64879271 0.00022 2_[+3]_10 chrX:47221704-47221724 0.00027 2_[+3]_10 chr11:69197219-69197239 0.0003 4_[+3]_8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCGCCCCB width=8 seqs=15 chr9:131940639-131940659 ( 6) CCGCCCCG 1 chr16:765024-765044 ( 4) CCGCCCCG 1 chr10:102790943-10279096 ( 5) CCGCCCCG 1 chr1:207925334-207925354 ( 1) CCGCCCCG 1 chr19:12251198-12251218 ( 9) CCGCCCCG 1 chr4:177240927-177240947 ( 8) CCGCCCCT 1 chr22:23412306-23412326 ( 6) CCGCCCCT 1 chr9:136344267-136344287 ( 1) CCGCCCCT 1 chr17:26646098-26646118 ( 8) CCGCCCCC 1 chr19:11849834-11849854 ( 8) CCGCCCCC 1 chr19:12267585-12267605 ( 6) CCGCCCCA 1 chr3:42543998-42544018 ( 3) CCGCCCCA 1 chr11:64879251-64879271 ( 3) CCGCCCCC 1 chrX:47221704-47221724 ( 3) CCTCCCCG 1 chr11:69197219-69197239 ( 5) CCTCCCCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.67734 E= 4.6e+000 -1055 172 -1055 -1055 -1055 172 -1055 -1055 -1055 -1055 161 -64 -1055 172 -1055 -1055 -1055 172 -1055 -1055 -1055 172 -1055 -1055 -1055 172 -1055 -1055 -62 -60 49 36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 4.6e+000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.866667 0.133333 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 0.133333 0.200000 0.400000 0.266667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCCCB MEME-3 regular expression -------------------------------------------------------------------------------- CCGCCCC[GTC] -------------------------------------------------------------------------------- Time 9.11 secs. ******************************************************************************** ******************************************************************************** MOTIF DGARGCAG MEME-4 width = 8 sites = 8 llr = 72 E-value = 1.9e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 Description -------------------------------------------------------------------------------- Simplified A 5:a4:1a: pos.-specific C :::::9:: probability G 3a:6a::a matrix T 3::::::: bits 2.3 * * 2.1 * * 1.8 ** * ** 1.6 ** * ** Relative 1.4 ** * ** Entropy 1.1 ******* (13.0 bits) 0.9 ******* 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AGAGGCAG consensus G A sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr19:51275883-51275903 5 1.70e-05 tgta agaggcag caatcaat chr22:37726699-37726719 2 2.92e-05 C AGAAGCAG GCACTTCTTG chr6:167000467-167000487 13 2.92e-05 tgtacCTTAA AGAAGCAG chr9:130159139-130159159 5 4.65e-05 GTTC TGAGGCAG CTCTCTGG chr6:32658186-32658206 4 4.65e-05 TGA TGAGGCAG AGTCACTTG chr1:150669777-150669797 6 8.24e-05 CAAAA GGAGGCAG GTTTGCG chr16:78830286-78830306 9 9.94e-05 tcaagcct ggaagcag tgag chr6:27099760-27099780 10 1.11e-04 TCAGGATGC AGAGGAAG GGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr19:51275883-51275903 1.7e-05 4_[+4]_8 chr22:37726699-37726719 2.9e-05 1_[+4]_11 chr6:167000467-167000487 2.9e-05 12_[+4] chr9:130159139-130159159 4.6e-05 4_[+4]_8 chr6:32658186-32658206 4.6e-05 3_[+4]_9 chr1:150669777-150669797 8.2e-05 5_[+4]_7 chr16:78830286-78830306 9.9e-05 8_[+4]_4 chr6:27099760-27099780 0.00011 9_[+4]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF DGARGCAG width=8 seqs=8 chr19:51275883-51275903 ( 5) AGAGGCAG 1 chr22:37726699-37726719 ( 2) AGAAGCAG 1 chr6:167000467-167000487 ( 13) AGAAGCAG 1 chr9:130159139-130159159 ( 5) TGAGGCAG 1 chr6:32658186-32658206 ( 4) TGAGGCAG 1 chr1:150669777-150669797 ( 6) GGAGGCAG 1 chr16:78830286-78830306 ( 9) GGAAGCAG 1 chr6:27099760-27099780 ( 10) AGAGGAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.40106 E= 1.9e+003 128 -965 -18 27 -965 -965 181 -965 228 -965 -965 -965 87 -965 114 -965 -965 -965 181 -965 -72 153 -965 -965 228 -965 -965 -965 -965 -965 181 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 1.9e+003 0.500000 0.000000 0.250000 0.250000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.375000 0.000000 0.625000 0.000000 0.000000 0.000000 1.000000 0.000000 0.125000 0.875000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGARGCAG MEME-4 regular expression -------------------------------------------------------------------------------- [AGT]GA[GA]GCAG -------------------------------------------------------------------------------- Time 9.76 secs. ******************************************************************************** ******************************************************************************** MOTIF GAATRAAA MEME-5 width = 8 sites = 2 llr = 23 E-value = 2.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :aa:5aaa pos.-specific C :::::::: probability G a:::5::: matrix T :::a:::: bits 2.3 *** *** 2.1 *** *** 1.8 **** *** 1.6 **** *** Relative 1.4 **** *** Entropy 1.1 ******** (16.5 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GAATAAAA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr17:17295088-17295108 11 4.38e-06 tcaaataagg gaataaaa gc chr22:27366959-27366979 13 1.05e-05 aggttctagc gaatgaaa -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr17:17295088-17295108 4.4e-06 10_[+5]_2 chr22:27366959-27366979 1e-05 12_[+5] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAATRAAA width=8 seqs=2 chr17:17295088-17295108 ( 11) GAATAAAA 1 chr22:27366959-27366979 ( 13) GAATGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 2.4e+003 -765 -765 181 -765 228 -765 -765 -765 228 -765 -765 -765 -765 -765 -765 226 128 -765 81 -765 228 -765 -765 -765 228 -765 -765 -765 228 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.4e+003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.500000 0.000000 0.500000 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAATRAAA MEME-5 regular expression -------------------------------------------------------------------------------- GAAT[AG]AAA -------------------------------------------------------------------------------- Time 10.41 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:160793182-160793202 1.24e-01 20 chr15:81290747-81290767 2.62e-01 20 chr16:82685584-82685604 9.78e-01 20 chr2:45060445-45060465 7.14e-02 20 chr5:14208793-14208813 9.26e-02 20 chr8:30506104-30506124 3.25e-02 11_[+1(8.86e-05)]_1 chr20:40293413-40293433 1.94e-02 20 chr20:48951833-48951853 6.21e-02 20 chr11:45600022-45600042 4.44e-01 20 chr2:111880117-111880137 1.21e-02 11_[+1(1.35e-05)]_1 chr1:55431822-55431842 1.50e-02 10_[+1(8.86e-05)]_2 chr3:121749304-121749324 8.09e-01 20 chr4:185303502-185303522 1.02e-01 20 chr19:40728047-40728067 7.51e-01 20 chr19:46148948-46148968 2.46e-03 20 chr20:45323359-45323379 4.58e-01 20 chr3:4516795-4516815 8.71e-03 10_[+1(5.70e-05)]_2 chr1:199141501-199141521 3.45e-01 20 chr3:61507136-61507156 7.06e-01 20 chr14:23280464-23280484 1.96e-01 20 chr1:113500287-113500307 2.91e-02 20 chr19:45430520-45430540 3.36e-02 4_[+2(2.16e-05)]_8 chr15:91835088-91835108 1.18e-02 20 chr10:115934033-11593405 2.82e-01 20 chr16:78037082-78037102 3.73e-03 1_[+2(8.79e-06)]_11 chr17:46024540-46024560 3.67e-03 9_[+1(5.70e-05)]_3 chr4:40059634-40059654 6.36e-01 20 chr10:103879492-10387951 6.44e-01 20 chr16:78830286-78830306 5.84e-02 8_[+4(9.94e-05)]_4 chr4:1872720-1872740 7.69e-01 20 chr11:64879251-64879271 1.46e-01 20 chr6:150067671-150067691 6.02e-01 20 chr3:42543998-42544018 1.11e-01 20 chr1:26361965-26361985 1.74e-01 20 chr2:37753668-37753688 2.04e-02 1_[+1(7.53e-05)]_11 chr10:28592121-28592141 3.71e-01 20 chr9:1759126-1759146 9.17e-03 20 chr14:92725452-92725472 1.59e-01 20 chr10:43857790-43857810 7.93e-02 20 chr17:74236635-74236655 4.54e-01 20 chr19:14380040-14380060 1.40e-02 7_[+1(8.86e-05)]_5 chr18:60746545-60746565 1.66e-01 20 chr16:28891294-28891314 4.63e-01 20 chr19:11602095-11602115 6.46e-01 20 chr10:102241438-10224145 8.80e-01 20 chr17:36875028-36875048 9.58e-02 20 chr9:136344267-136344287 7.12e-03 20 chr1:235111160-235111180 6.65e-01 20 chr9:135905929-135905949 2.58e-01 20 chr14:20801481-20801501 6.45e-03 20 chr12:124594465-12459448 1.11e-02 1_[+1(5.70e-05)]_11 chr5:176543978-176543998 1.72e-03 20 chr9:35848217-35848237 2.43e-01 20 chr6:159495516-159495536 7.99e-01 20 chr1:31231860-31231880 6.67e-01 20 chr1:22755315-22755335 7.92e-01 20 chr1:53168769-53168789 5.01e-01 20 chr2:46771313-46771333 6.69e-02 20 chr11:19734314-19734334 5.36e-03 4_[+1(7.53e-05)]_8 chr6:32595839-32595859 2.76e-02 20 chr20:48770313-48770333 2.69e-02 10_[+1(4.28e-05)]_2 chr22:22006342-22006362 6.46e-01 20 chr11:560927-560947 9.87e-01 20 chr22:23412306-23412326 1.01e-01 20 chr19:51263342-51263362 3.04e-01 20 chr19:12267585-12267605 1.09e-01 20 chr2:64834344-64834364 1.89e-03 7_[+2(7.82e-05)]_5 chr19:11909299-11909319 2.84e-02 7_[+1(5.70e-05)]_5 chr3:67040818-67040838 2.30e-01 20 chr19:51275883-51275903 2.40e-03 4_[+4(1.70e-05)]_8 chr10:91011652-91011672 8.62e-01 20 chr2:225810102-225810122 9.45e-01 20 chr13:26796010-26796030 9.20e-01 20 chr19:3035709-3035729 1.87e-02 8_[+1(7.53e-05)]_4 chr3:50605192-50605212 7.76e-01 20 chrX:47415632-47415652 2.29e-02 20 chr19:12251198-12251218 9.30e-02 8_[+3(6.24e-05)]_4 chr17:46184836-46184856 3.51e-01 20 chr5:96144107-96144127 6.48e-03 20 chr11:17725719-17725739 3.02e-03 20 chr5:149790279-149790299 4.73e-01 20 chr19:1041134-1041154 8.27e-01 20 chrX:47221704-47221724 2.03e-02 20 chr3:100211389-100211409 6.78e-03 9_[+1(8.86e-05)]_3 chr14:68161606-68161626 8.34e-02 20 chr1:207925334-207925354 1.24e-01 [+3(6.24e-05)]_12 chr10:102790943-10279096 9.10e-02 4_[+3(6.24e-05)]_8 chr11:69197219-69197239 9.78e-02 20 chr22:20067677-20067697 7.77e-01 20 chr11:17298179-17298199 6.48e-01 20 chr1:145470390-145470410 9.82e-01 20 chr5:36724110-36724130 5.62e-01 20 chr12:113806341-11380636 3.00e-02 20 chr1:112282100-112282120 7.26e-03 7_[+1(7.53e-05)]_5 chr9:99212346-99212366 6.34e-01 20 chrX:154444587-154444607 4.47e-01 20 chr1:28573855-28573875 9.04e-01 20 chr6:167000467-167000487 2.54e-02 12_[+4(2.92e-05)] chr16:16002045-16002065 6.49e-03 8_[+2(7.82e-05)]_4 chr9:139844602-139844622 4.92e-02 20 chr19:3344317-3344337 2.47e-02 20 chr17:63226333-63226353 2.78e-02 1_[+2(8.79e-06)]_11 chr19:40459548-40459568 8.78e-01 20 chr1:226254543-226254563 2.84e-01 20 chr3:98250655-98250675 2.06e-03 2_[+1(5.70e-05)]_10 chr17:80056715-80056735 5.92e-03 20 chr6:30227243-30227263 9.04e-01 20 chr16:84300182-84300202 1.65e-01 20 chr6:27099760-27099780 6.02e-02 20 chr1:54518454-54518474 3.94e-01 20 chr17:79895207-79895227 7.06e-01 20 chr19:2042315-2042335 8.15e-01 20 chr13:107188066-10718808 3.83e-03 20 chr2:216778848-216778868 7.39e-01 20 chr19:11849834-11849854 1.92e-01 20 chr1:174959679-174959699 2.45e-02 12_[+2(5.95e-05)] chrX:48595676-48595696 9.81e-01 20 chr1:249132290-249132310 9.18e-01 20 chr19:13944527-13944547 9.21e-01 20 chr16:74729945-74729965 8.72e-01 20 chr3:119813857-119813877 3.93e-01 20 chr7:37393320-37393340 7.52e-02 20 chr12:51818541-51818561 8.05e-01 20 chr19:19249345-19249365 2.36e-02 1_[+1(5.70e-05)]_11 chr6:32658186-32658206 6.66e-02 3_[+4(4.65e-05)]_9 chr7:75947460-75947480 7.03e-01 20 chr19:38495355-38495375 2.76e-01 20 chr12:12878621-12878641 7.53e-01 20 chr11:2721338-2721358 2.94e-02 [+2(2.16e-05)]_12 chr19:49217424-49217444 4.20e-01 20 chr1:160991012-160991032 6.46e-03 20 chr11:62495413-62495433 1.32e-01 20 chr22:20004446-20004466 2.81e-01 20 chr13:53029535-53029555 1.50e-03 3_[+2(6.89e-05)]_9 chr19:41156347-41156367 1.68e-01 20 chr17:17653407-17653427 6.96e-01 20 chr16:4852955-4852975 6.76e-01 20 chr2:74881292-74881312 6.77e-01 20 chr18:60742514-60742534 8.03e-01 20 chr17:1531724-1531744 2.56e-03 20 chr19:15947918-15947938 8.67e-02 20 chr7:916476-916496 4.79e-02 20 chr12:54553124-54553144 2.77e-01 20 chr19:36139084-36139104 4.42e-01 20 chr19:12405719-12405739 1.77e-01 20 chr19:11925034-11925054 8.43e-01 20 chr11:88071743-88071763 1.45e-01 20 chr2:172967722-172967742 8.96e-01 20 chr2:61292930-61292950 5.12e-01 20 chr1:53792065-53792085 2.10e-02 6_[+1(5.70e-05)]_6 chr3:39425808-39425828 9.12e-02 20 chr6:152024211-152024231 2.94e-01 20 chr4:177240927-177240947 1.67e-01 20 chr14:65878527-65878547 6.46e-01 20 chr1:70876859-70876879 3.84e-02 20 chr19:10362572-10362592 2.80e-03 1_[+2(2.16e-05)]_11 chr4:175204434-175204454 5.58e-01 20 chr12:6665279-6665299 1.99e-02 11_[+1(5.70e-05)]_1 chr19:3572701-3572721 1.28e-01 20 chr6:52529106-52529126 7.92e-01 20 chr16:765024-765044 1.21e-01 3_[+3(6.24e-05)]_9 chr6:153304251-153304271 9.48e-01 20 chr17:80416459-80416479 3.58e-02 20 chr19:6604165-6604185 6.40e-01 20 chr10:111971042-11197106 5.63e-03 6_[+1(4.28e-05)]_6 chr2:9144149-9144169 3.27e-01 20 chr6:116601174-116601194 5.86e-01 20 chr6:35296018-35296038 4.79e-01 20 chr2:10262794-10262814 2.01e-02 5_[+1(7.53e-05)]_7 chr19:2945045-2945065 4.46e-02 20 chr3:48672957-48672977 2.20e-02 9_[+1(5.70e-05)]_3 chr16:2932853-2932873 3.75e-01 20 chr22:42342814-42342834 6.88e-01 20 chr19:45829639-45829659 9.93e-01 20 chr1:197115838-197115858 5.11e-01 20 chr3:67705879-67705899 8.97e-01 20 chr2:59098017-59098037 9.72e-01 20 chr17:47866558-47866578 1.35e-02 7_[+2(5.95e-05)]_5 chr10:101190510-10119053 1.32e-01 20 chrX:13671210-13671230 3.67e-02 [+2(2.16e-05)]_12 chr3:149530941-149530961 9.88e-01 20 chr11:329626-329646 9.01e-01 20 chr1:150669777-150669797 4.51e-02 5_[+4(8.24e-05)]_7 chr1:232765949-232765969 9.25e-02 20 chr10:46168287-46168307 1.39e-02 5_[+1(5.70e-05)]_7 chr14:23388556-23388576 6.19e-01 20 chr2:36845711-36845731 1.43e-01 20 chr11:13299059-13299079 2.04e-01 20 chr7:139045301-139045321 4.67e-01 20 chr19:4342960-4342980 7.60e-04 6_[+2(8.79e-06)]_6 chr5:32313339-32313359 5.60e-01 20 chr22:35696192-35696212 3.82e-01 20 chr19:51182819-51182839 4.46e-02 7_[+2(5.95e-05)]_5 chr14:78083246-78083266 4.97e-01 20 chr14:23755465-23755485 4.29e-02 4_[+2(2.16e-05)]_8 chr20:3668501-3668521 1.57e-02 8_[+1(7.53e-05)]_4 chr17:26646098-26646118 1.60e-01 20 chr6:26045503-26045523 8.29e-01 20 chr22:50682993-50683013 1.08e-01 20 chr17:21187943-21187963 7.35e-03 12_[+1(4.28e-05)] chr6:27834274-27834294 1.37e-03 8_[+1(5.70e-05)]_4 chr9:131940639-131940659 1.07e-01 5_[+3(6.24e-05)]_7 chr22:27366959-27366979 6.63e-03 12_[+5(1.05e-05)] chr6:45650187-45650207 5.74e-03 10_[+1(8.86e-05)]_2 chr10:120788921-12078894 9.40e-01 20 chr5:54830983-54831003 6.31e-01 20 chr12:6960521-6960541 7.86e-02 20 chr19:45418422-45418442 6.65e-01 20 chr14:54863580-54863600 1.71e-02 20 chr3:51832812-51832832 8.27e-01 20 chr9:73029315-73029335 7.14e-03 20 chr22:37726699-37726719 5.62e-03 1_[+4(2.92e-05)]_11 chr1:225615861-225615881 1.98e-03 4_[+2(9.19e-05)]_8 chr15:90895441-90895461 5.17e-02 20 chr16:57569976-57569996 9.04e-02 20 chr11:34379635-34379655 2.15e-01 20 chr17:17295088-17295108 7.27e-04 10_[+5(4.38e-06)]_2 chr9:120439973-120439993 5.42e-01 20 chr1:28562494-28562514 5.28e-02 20 chr9:34646632-34646652 3.87e-01 20 chr10:70748430-70748450 7.01e-01 20 chr19:17420300-17420320 8.33e-01 20 chr9:35829188-35829208 1.44e-01 20 chr11:61582158-61582178 7.87e-01 20 chr1:200589884-200589904 4.96e-04 12_[+2(2.16e-05)] chr6:53213839-53213859 9.81e-01 20 chr10:58121070-58121090 2.52e-03 11_[+2(2.16e-05)]_1 chr19:11877780-11877800 2.83e-02 [+1(5.70e-05)]_12 chr19:40931815-40931835 2.21e-02 4_[+1(5.70e-05)]_8 chr19:6372631-6372651 7.77e-03 20 chr9:37465732-37465752 6.05e-01 20 chr17:48944859-48944879 1.30e-01 20 chr22:37582471-37582491 6.51e-01 20 chr3:126422994-126423014 6.77e-02 20 chr10:82444181-82444201 1.75e-03 20 chr15:43803109-43803129 4.42e-01 20 chrX:70273264-70273284 9.72e-01 20 chr1:43390010-43390030 1.03e-01 20 chr12:133485277-13348529 6.27e-01 20 chr20:48367331-48367351 5.71e-02 20 chr19:49224039-49224059 1.25e-01 7_[+2(7.82e-05)]_5 chr9:130159139-130159159 8.42e-02 4_[+4(4.65e-05)]_8 chr12:122204505-12220452 2.93e-02 20 chr12:14927235-14927255 8.38e-01 20 chr17:37275028-37275048 7.11e-01 20 chr9:101088795-101088815 5.04e-03 8_[+1(7.53e-05)]_4 chr16:22229444-22229464 5.09e-01 20 chr11:119205075-11920509 1.37e-01 20 chr19:37808616-37808636 3.94e-02 20 chr7:128099612-128099632 9.60e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n10.farnam.hpc.yale.internal ********************************************************************************