******************************************************************************** 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/CEBPB.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr5:82737777-82737797 1.0000 20 chr6:147643814-147643834 1.0000 20 chr1:28573003-28573023 1.0000 20 chr10:13765504-13765524 1.0000 20 chr16:25017186-25017206 1.0000 20 chr12:122361934-12236195 1.0000 20 chr1:109757614-109757634 1.0000 20 chr1:234737534-234737554 1.0000 20 chr1:228678286-228678306 1.0000 20 chr6:88441691-88441711 1.0000 20 chr2:39356124-39356144 1.0000 20 chr2:190792750-190792770 1.0000 20 chr11:32852130-32852150 1.0000 20 chr14:77499708-77499728 1.0000 20 chr7:77168140-77168160 1.0000 20 chr7:123903683-123903703 1.0000 20 chr19:11531289-11531309 1.0000 20 chr3:4946680-4946700 1.0000 20 chr5:52319931-52319951 1.0000 20 chr8:131478786-131478806 1.0000 20 chr9:119267293-119267313 1.0000 20 chr12:46824401-46824421 1.0000 20 chr9:112827908-112827928 1.0000 20 chr16:126381-126401 1.0000 20 chr7:43005177-43005197 1.0000 20 chr12:93638088-93638108 1.0000 20 chr1:202012657-202012677 1.0000 20 chr1:153491293-153491313 1.0000 20 chr5:145061372-145061392 1.0000 20 chr15:92486416-92486436 1.0000 20 chr15:40129861-40129881 1.0000 20 chr14:62019824-62019844 1.0000 20 chr9:21096507-21096527 1.0000 20 chr15:52390720-52390740 1.0000 20 chrX:13777764-13777784 1.0000 20 chr14:93540644-93540664 1.0000 20 chr16:11198954-11198974 1.0000 20 chr4:55100558-55100578 1.0000 20 chr3:4753946-4753966 1.0000 20 chr5:142566423-142566443 1.0000 20 chr5:55750273-55750293 1.0000 20 chr17:71336374-71336394 1.0000 20 chr14:74252690-74252710 1.0000 20 chr1:109189630-109189650 1.0000 20 chr3:61504399-61504419 1.0000 20 chr2:65663780-65663800 1.0000 20 chr1:10615883-10615903 1.0000 20 chr2:119880400-119880420 1.0000 20 chr17:16966915-16966935 1.0000 20 chr7:69289862-69289882 1.0000 20 chr12:59991442-59991462 1.0000 20 chr1:167461277-167461297 1.0000 20 chr3:43078561-43078581 1.0000 20 chr19:18200069-18200089 1.0000 20 chr6:147178808-147178828 1.0000 20 chr10:118935627-11893564 1.0000 20 chr3:37066717-37066737 1.0000 20 chr3:121488291-121488311 1.0000 20 chr19:13908975-13908995 1.0000 20 chr17:66457612-66457632 1.0000 20 chr19:47288150-47288170 1.0000 20 chr12:50144348-50144368 1.0000 20 chr3:121553078-121553098 1.0000 20 chr5:111090094-111090114 1.0000 20 chr15:66994532-66994552 1.0000 20 chr19:50427746-50427766 1.0000 20 chr11:67297068-67297088 1.0000 20 chr6:108463636-108463656 1.0000 20 chr14:23292657-23292677 1.0000 20 chr20:20761253-20761273 1.0000 20 chr16:9022378-9022398 1.0000 20 chr4:122579454-122579474 1.0000 20 chr4:141349040-141349060 1.0000 20 chr15:91525505-91525525 1.0000 20 chr5:96870084-96870104 1.0000 20 chr14:30873178-30873198 1.0000 20 chr8:37010965-37010985 1.0000 20 chr1:30266096-30266116 1.0000 20 chr5:121312888-121312908 1.0000 20 chr8:6285962-6285982 1.0000 20 chr13:45914754-45914774 1.0000 20 chr2:68647591-68647611 1.0000 20 chr13:113954417-11395443 1.0000 20 chr3:183354142-183354162 1.0000 20 chr7:18901237-18901257 1.0000 20 chr2:67878069-67878089 1.0000 20 chr18:53925560-53925580 1.0000 20 chr8:24151506-24151526 1.0000 20 chr1:205288847-205288867 1.0000 20 chr4:163418927-163418947 1.0000 20 chr5:96566887-96566907 1.0000 20 chr1:6320199-6320219 1.0000 20 chr13:108922011-10892203 1.0000 20 chr12:99525166-99525186 1.0000 20 chrX:54665812-54665832 1.0000 20 chr10:92958683-92958703 1.0000 20 chr2:233949452-233949472 1.0000 20 chr12:26242078-26242098 1.0000 20 chr17:46133306-46133326 1.0000 20 chr21:40203620-40203640 1.0000 20 chr10:115747718-11574773 1.0000 20 chr11:8078719-8078739 1.0000 20 chr16:87887355-87887375 1.0000 20 chr3:174862313-174862333 1.0000 20 chr15:41982199-41982219 1.0000 20 chr3:16525843-16525863 1.0000 20 chr20:62372355-62372375 1.0000 20 chr16:30787357-30787377 1.0000 20 chr6:9528053-9528073 1.0000 20 chr11:130184941-13018496 1.0000 20 chr7:106554659-106554679 1.0000 20 chr10:24316273-24316293 1.0000 20 chr6:30483962-30483982 1.0000 20 chr20:821884-821904 1.0000 20 chr1:174787527-174787547 1.0000 20 chr9:126717460-126717480 1.0000 20 chr11:107695794-10769581 1.0000 20 chr2:219671243-219671263 1.0000 20 chr11:33279779-33279799 1.0000 20 chr5:106485186-106485206 1.0000 20 chr12:64349766-64349786 1.0000 20 chr1:167607210-167607230 1.0000 20 chr2:38713093-38713113 1.0000 20 chr16:69535949-69535969 1.0000 20 chr2:106413834-106413854 1.0000 20 chr11:116857752-11685777 1.0000 20 chr4:141295492-141295512 1.0000 20 chr1:179845530-179845550 1.0000 20 chr9:2158521-2158541 1.0000 20 chr6:51946185-51946205 1.0000 20 chr1:28576099-28576119 1.0000 20 chr1:167513987-167514007 1.0000 20 chr8:59290996-59291016 1.0000 20 chr9:19161904-19161924 1.0000 20 chr11:71984316-71984336 1.0000 20 chr10:22013730-22013750 1.0000 20 chr3:151818497-151818517 1.0000 20 chr3:125822347-125822367 1.0000 20 chr17:36715808-36715828 1.0000 20 chr1:183287744-183287764 1.0000 20 chr15:41194880-41194900 1.0000 20 chr7:23483793-23483813 1.0000 20 chr1:28441995-28442015 1.0000 20 chr6:85291804-85291824 1.0000 20 chr16:23893090-23893110 1.0000 20 chr11:63639741-63639761 1.0000 20 chr9:115293294-115293314 1.0000 20 chr8:95078153-95078173 1.0000 20 chr12:66501423-66501443 1.0000 20 chr1:209941761-209941781 1.0000 20 chr8:42912596-42912616 1.0000 20 chr4:693316-693336 1.0000 20 chr13:97778228-97778248 1.0000 20 chr13:51970711-51970731 1.0000 20 chr14:105818705-10581872 1.0000 20 chr7:69387154-69387174 1.0000 20 chr16:30579650-30579670 1.0000 20 chr2:113551912-113551932 1.0000 20 chr8:103665903-103665923 1.0000 20 chr11:46264935-46264955 1.0000 20 chr10:122728887-12272890 1.0000 20 chrX:1600795-1600815 1.0000 20 chr4:89724903-89724923 1.0000 20 chr20:17663355-17663375 1.0000 20 chr10:103764298-10376431 1.0000 20 chr9:123834650-123834670 1.0000 20 chr13:21348141-21348161 1.0000 20 chr9:115621273-115621293 1.0000 20 chr3:142779895-142779915 1.0000 20 chr14:64336758-64336778 1.0000 20 chr3:5023698-5023718 1.0000 20 chr13:44765701-44765721 1.0000 20 chr7:140577124-140577144 1.0000 20 chr6:123190775-123190795 1.0000 20 chr16:1360188-1360208 1.0000 20 chr15:95830510-95830530 1.0000 20 chr12:116010488-11601050 1.0000 20 chr8:117070641-117070661 1.0000 20 chr2:12596570-12596590 1.0000 20 chr12:70294612-70294632 1.0000 20 chr1:197153505-197153525 1.0000 20 chr20:19609425-19609445 1.0000 20 chr19:35838738-35838758 1.0000 20 chrX:39422660-39422680 1.0000 20 chr17:16892277-16892297 1.0000 20 chr15:66662650-66662670 1.0000 20 chr6:27102335-27102355 1.0000 20 chr8:71073048-71073068 1.0000 20 chrX:123012181-123012201 1.0000 20 chr4:74570454-74570474 1.0000 20 chr17:10018559-10018579 1.0000 20 chr5:112843541-112843561 1.0000 20 chr11:133038080-13303810 1.0000 20 chr1:207581426-207581446 1.0000 20 chr4:82327143-82327163 1.0000 20 chr17:55980836-55980856 1.0000 20 chr10:91056304-91056324 1.0000 20 chr15:33948490-33948510 1.0000 20 chr8:27062686-27062706 1.0000 20 chr5:81937320-81937340 1.0000 20 chr9:118758897-118758917 1.0000 20 chr21:43619726-43619746 1.0000 20 chr4:7967135-7967155 1.0000 20 chr1:70877944-70877964 1.0000 20 chr11:58941831-58941851 1.0000 20 chr8:104170506-104170526 1.0000 20 chr13:53718040-53718060 1.0000 20 chr5:59838033-59838053 1.0000 20 chr1:109705106-109705126 1.0000 20 chr19:46404964-46404984 1.0000 20 chr6:51928467-51928487 1.0000 20 chr15:63765272-63765292 1.0000 20 chr13:79832783-79832803 1.0000 20 chr16:30825696-30825716 1.0000 20 chrX:1656448-1656468 1.0000 20 chr2:225222230-225222250 1.0000 20 chr3:187957561-187957581 1.0000 20 chr19:11435101-11435121 1.0000 20 chr2:129381734-129381754 1.0000 20 chr1:40525335-40525355 1.0000 20 chr15:101739781-10173980 1.0000 20 chr4:113233922-113233942 1.0000 20 chr5:51370348-51370368 1.0000 20 chr4:95262824-95262844 1.0000 20 chr1:23857898-23857918 1.0000 20 chr2:24731928-24731948 1.0000 20 chr16:30480957-30480977 1.0000 20 chr11:34655800-34655820 1.0000 20 chr14:64195081-64195101 1.0000 20 chr8:72836452-72836472 1.0000 20 chr4:185781452-185781472 1.0000 20 chr1:27424123-27424143 1.0000 20 chr4:95136259-95136279 1.0000 20 chr10:112617511-11261753 1.0000 20 chr22:31978628-31978648 1.0000 20 chr8:119001815-119001835 1.0000 20 chr5:142431306-142431326 1.0000 20 chr15:80465811-80465831 1.0000 20 chr19:7273062-7273082 1.0000 20 chr2:28619428-28619448 1.0000 20 chr12:9874245-9874265 1.0000 20 chr14:70540778-70540798 1.0000 20 chr3:5168499-5168519 1.0000 20 chr6:64346212-64346232 1.0000 20 chr1:36852219-36852239 1.0000 20 chr12:64798815-64798835 1.0000 20 chr9:110045260-110045280 1.0000 20 chr3:121265767-121265787 1.0000 20 chr17:34413205-34413225 1.0000 20 chr2:74433379-74433399 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_CEBPB/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/CEBPB.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 0.265 C 0.239 G 0.236 T 0.26 Background letter frequencies (from file dataset with add-one prior applied): A 0.265 C 0.239 G 0.236 T 0.26 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TTGCGCAA MEME-1 width = 8 sites = 89 llr = 703 E-value = 1.0e-116 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::11319a pos.-specific C :::8:71: probability G ::9:7::: matrix T aa:2:2:: bits 2.1 1.9 ** * 1.7 ** * 1.5 *** ** Relative 1.3 *** ** Entropy 1.0 *** * ** (11.4 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TTGCGCAA consensus AT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:64346212-64346232 2 1.51e-05 C TTGCGCAA CGTCCTCGGC chr4:95136259-95136279 13 1.51e-05 TCCGTGACCA TTGCGCAA chr5:51370348-51370368 10 1.51e-05 CCGACCTGA TTGCGCAA TAG chr3:187957561-187957581 12 1.51e-05 TTAGTATTGA TTGCGCAA C chr8:104170506-104170526 13 1.51e-05 aggaaagcta ttgcgcaa chr9:118758897-118758917 2 1.51e-05 g ttgcgcaa tctctgggaa chr4:74570454-74570474 9 1.51e-05 GTAAAATG TTGCGCAA TTCC chr9:115293294-115293314 9 1.51e-05 GCATGTGA TTGCGCAA CAAC chr9:2158521-2158541 1 1.51e-05 . TTGCGCAA CACGTCACCA chr10:24316273-24316293 6 1.51e-05 atata ttgcgcaa tatctga chr3:16525843-16525863 2 1.51e-05 A TTGCGCAA TGTGCATGTC chr8:24151506-24151526 5 1.51e-05 GAGG TTGCGCAA CACCTTTA chr2:67878069-67878089 3 1.51e-05 AA TTGCGCAA CAGAGAGCCA chr4:141349040-141349060 6 1.51e-05 TCCTG TTGCGCAA TGATTGG chr7:69289862-69289882 10 1.51e-05 TTTCGGAGA TTGCGCAA TAA chr17:16966915-16966935 12 1.51e-05 TGGTGCCGGA TTGCGCAA T chr16:126381-126401 13 1.51e-05 TGCCCAGAGA TTGCGCAA chr9:119267293-119267313 12 1.51e-05 cttggttaaa ttgcgcaa c chr8:131478786-131478806 12 1.51e-05 GACTAGATTA TTGCGCAA C chr3:4946680-4946700 10 1.51e-05 TCCTGAAGA TTGCGCAA GAG chr19:11531289-11531309 2 1.51e-05 A TTGCGCAA CTCTGAGGCC chr11:32852130-32852150 5 1.51e-05 CTCA TTGCGCAA GAGGTCCA chr12:122361934-12236195 7 1.51e-05 AGAGTG TTGCGCAA TAGGGG chr16:25017186-25017206 5 1.51e-05 atta ttgcgcaa catcactt chr5:82737777-82737797 3 1.51e-05 GA TTGCGCAA CCTCCTGGGA chr3:5168499-5168519 4 3.21e-05 TTA TTGCACAA TAAGTCATG chr15:63765272-63765292 2 3.21e-05 A TTGCACAA CAGCAGGGCA chr8:71073048-71073068 12 3.21e-05 ccatcaactg ttgcacaa t chr19:35838738-35838758 9 3.21e-05 CCCAATTC TTGCACAA CCCA chr16:30579650-30579670 6 3.21e-05 gtgta ttgcacaa ttactat chr1:183287744-183287764 13 3.21e-05 GACAGAATCA TTGCACAA chr11:116857752-11685777 5 3.21e-05 ttga ttgcacaa ctatacaa chr1:167607210-167607230 3 3.21e-05 TA TTGCACAA TCCAGCACCC chr5:106485186-106485206 1 3.21e-05 . ttgcacaa ccacatgaat chr2:233949452-233949472 6 3.21e-05 TGAAG TTGCACAA CAAGGGG chr13:45914754-45914774 10 3.21e-05 CGGGGAGGA TTGCACAA CCT chr10:91056304-91056324 4 4.85e-05 CTC TTGCGTAA GACACAAAA chr4:693316-693336 2 4.85e-05 g ttgcgtaa tgtgcttcgt chr3:121553078-121553098 6 4.85e-05 TTGGA TTGCGTAA TTACCCT chr1:109189630-109189650 8 4.85e-05 agtcgtg ttgcgtaa caacc chr6:88441691-88441711 12 4.85e-05 TTCTGAATCA TTGCGTAA T chr22:31978628-31978648 5 6.49e-05 caca ttgtgcaa tcatcatc chr1:40525335-40525355 3 6.49e-05 GC TTGTGCAA TATTTCCTGC chr13:44765701-44765721 11 6.49e-05 ATATGCAGGG TTGTGCAA TA chr1:209941761-209941781 3 6.49e-05 TA TTGTGCAA TACAAAAACG chr12:66501423-66501443 12 6.49e-05 ccctctggga ttgtgcaa c chr11:107695794-10769581 3 6.49e-05 CA TTGTGCAA TACTGTAGAT chr1:174787527-174787547 11 6.49e-05 aaagtagcta ttgtgcaa ta chr8:6285962-6285982 3 6.49e-05 ag ttgtgcaa ccgtcaccac chr1:30266096-30266116 6 6.49e-05 ctctg ttgtgcaa tttcttg chr15:91525505-91525525 10 6.49e-05 gtcatattg ttgtgcaa tca chr2:28619428-28619448 2 1.14e-04 A TTACGCAA TCCAGCCAGT chr12:116010488-11601050 10 1.14e-04 tctgccgta ttacgcaa ccc chr9:123834650-123834670 8 1.14e-04 AATGAGG TTACGCAA TAAAT chr6:30483962-30483982 10 1.14e-04 CGCCCCAGA TTGCATAA CAA chr6:147178808-147178828 2 1.14e-04 C TTACGCAA CGATGAGGGC chr14:77499708-77499728 4 1.14e-04 GGG TTACGCAA GAGCCACTC chr14:64336758-64336778 5 1.31e-04 ATTA TTGCGAAA CACAGCTC chr3:183354142-183354162 3 1.31e-04 GA TTGCGAAA TGCACTCGGC chr3:61504399-61504419 2 1.31e-04 G TTGCGAAA TAGCCCTGAC chr2:74433379-74433399 13 1.81e-04 GGGGGCATGA TTGAGCAA chr1:27424123-27424143 13 1.81e-04 CCATTAGGga ttgagcaa chr1:207581426-207581446 3 1.81e-04 TA TTGAGCAA TCATTGCAGA chr13:108922011-10892203 7 1.81e-04 GACAGA TTGAGCAA TCCAAT chr5:59838033-59838053 9 2.31e-04 ccttcatg ttgctcaa tcca chr16:69535949-69535969 10 2.31e-04 ctagaagtg ttgctcaa tct chr15:92486416-92486436 13 2.83e-04 atgtttcgtg ttgcaaaa chr5:112843541-112843561 10 3.17e-04 tatacagta ttgggcaa tac chr4:113233922-113233942 1 3.74e-04 . TTATGCAA CAGACAGGTT chr4:89724903-89724923 4 3.74e-04 TGA TTATGCAA TATGCTGCA chr15:66662650-66662670 12 4.24e-04 GCAATTGAAA TTGCATCA T chr7:69387154-69387174 4 4.24e-04 AAA TTGCATCA TCTTTGGCT chr16:30787357-30787377 7 4.24e-04 AGGATA TTGCATCA TAGAGA chrX:54665812-54665832 13 4.24e-04 CCCGACTCGA TTGCATCA chr5:96566887-96566907 7 4.24e-04 ACGTGA TTGTGAAA TAGCTG chr2:68647591-68647611 2 4.24e-04 A TTGCATCA TGCATACCCT chr19:47288150-47288170 11 4.24e-04 CCTGGACAGC TTGCATCA GC chr1:10615883-10615903 3 4.24e-04 CG TTGCATCA TAACAGCAGA chr7:123903683-123903703 13 4.24e-04 ccaggccagg ttgcatca chr1:228678286-228678306 3 4.24e-04 TG TTGCATCA GCCAGCCAGC chrX:1656448-1656468 10 4.57e-04 CTGTGCTCA TTGCGACA TCT chr2:219671243-219671263 10 4.57e-04 gtgccacag ttgagtaa tcc chrX:13777764-13777784 7 6.11e-04 tgtgga tttcgcaa tagccc chr3:121488291-121488311 4 6.81e-04 ATA TTATACAA TTTGGTCTT chr11:34655800-34655820 9 7.75e-04 GTAAGCTG TTGCAACA TCCT chr8:103665903-103665923 13 8.30e-04 GCGCCCGCCT TTATGTAA chr4:122579454-122579474 9 8.30e-04 CCTGAGCT TTGCAGAA TTGC chr21:43619726-43619746 3 1.07e-03 CA TTAGGCAA TATTATTACA chr19:11435101-11435121 9 1.24e-03 TGGGAACG TTGCTTCA TTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:64346212-64346232 1.5e-05 1_[+1]_11 chr4:95136259-95136279 1.5e-05 12_[+1] chr5:51370348-51370368 1.5e-05 9_[+1]_3 chr3:187957561-187957581 1.5e-05 11_[+1]_1 chr8:104170506-104170526 1.5e-05 12_[+1] chr9:118758897-118758917 1.5e-05 1_[+1]_11 chr4:74570454-74570474 1.5e-05 8_[+1]_4 chr9:115293294-115293314 1.5e-05 8_[+1]_4 chr9:2158521-2158541 1.5e-05 [+1]_12 chr10:24316273-24316293 1.5e-05 5_[+1]_7 chr3:16525843-16525863 1.5e-05 1_[+1]_11 chr8:24151506-24151526 1.5e-05 4_[+1]_8 chr2:67878069-67878089 1.5e-05 2_[+1]_10 chr4:141349040-141349060 1.5e-05 5_[+1]_7 chr7:69289862-69289882 1.5e-05 9_[+1]_3 chr17:16966915-16966935 1.5e-05 11_[+1]_1 chr16:126381-126401 1.5e-05 12_[+1] chr9:119267293-119267313 1.5e-05 11_[+1]_1 chr8:131478786-131478806 1.5e-05 11_[+1]_1 chr3:4946680-4946700 1.5e-05 9_[+1]_3 chr19:11531289-11531309 1.5e-05 1_[+1]_11 chr11:32852130-32852150 1.5e-05 4_[+1]_8 chr12:122361934-12236195 1.5e-05 6_[+1]_6 chr16:25017186-25017206 1.5e-05 4_[+1]_8 chr5:82737777-82737797 1.5e-05 2_[+1]_10 chr3:5168499-5168519 3.2e-05 3_[+1]_9 chr15:63765272-63765292 3.2e-05 1_[+1]_11 chr8:71073048-71073068 3.2e-05 11_[+1]_1 chr19:35838738-35838758 3.2e-05 8_[+1]_4 chr16:30579650-30579670 3.2e-05 5_[+1]_7 chr1:183287744-183287764 3.2e-05 12_[+1] chr11:116857752-11685777 3.2e-05 4_[+1]_8 chr1:167607210-167607230 3.2e-05 2_[+1]_10 chr5:106485186-106485206 3.2e-05 [+1]_12 chr2:233949452-233949472 3.2e-05 5_[+1]_7 chr13:45914754-45914774 3.2e-05 9_[+1]_3 chr10:91056304-91056324 4.8e-05 3_[+1]_9 chr4:693316-693336 4.8e-05 1_[+1]_11 chr3:121553078-121553098 4.8e-05 5_[+1]_7 chr1:109189630-109189650 4.8e-05 7_[+1]_5 chr6:88441691-88441711 4.8e-05 11_[+1]_1 chr22:31978628-31978648 6.5e-05 4_[+1]_8 chr1:40525335-40525355 6.5e-05 2_[+1]_10 chr13:44765701-44765721 6.5e-05 10_[+1]_2 chr1:209941761-209941781 6.5e-05 2_[+1]_10 chr12:66501423-66501443 6.5e-05 11_[+1]_1 chr11:107695794-10769581 6.5e-05 2_[+1]_10 chr1:174787527-174787547 6.5e-05 10_[+1]_2 chr8:6285962-6285982 6.5e-05 2_[+1]_10 chr1:30266096-30266116 6.5e-05 5_[+1]_7 chr15:91525505-91525525 6.5e-05 9_[+1]_3 chr2:28619428-28619448 0.00011 1_[+1]_11 chr12:116010488-11601050 0.00011 9_[+1]_3 chr9:123834650-123834670 0.00011 7_[+1]_5 chr6:30483962-30483982 0.00011 9_[+1]_3 chr6:147178808-147178828 0.00011 1_[+1]_11 chr14:77499708-77499728 0.00011 3_[+1]_9 chr14:64336758-64336778 0.00013 4_[+1]_8 chr3:183354142-183354162 0.00013 2_[+1]_10 chr3:61504399-61504419 0.00013 1_[+1]_11 chr2:74433379-74433399 0.00018 12_[+1] chr1:27424123-27424143 0.00018 12_[+1] chr1:207581426-207581446 0.00018 2_[+1]_10 chr13:108922011-10892203 0.00018 6_[+1]_6 chr5:59838033-59838053 0.00023 8_[+1]_4 chr16:69535949-69535969 0.00023 9_[+1]_3 chr15:92486416-92486436 0.00028 12_[+1] chr5:112843541-112843561 0.00032 9_[+1]_3 chr4:113233922-113233942 0.00037 [+1]_12 chr4:89724903-89724923 0.00037 3_[+1]_9 chr15:66662650-66662670 0.00042 11_[+1]_1 chr7:69387154-69387174 0.00042 3_[+1]_9 chr16:30787357-30787377 0.00042 6_[+1]_6 chrX:54665812-54665832 0.00042 12_[+1] chr5:96566887-96566907 0.00042 6_[+1]_6 chr2:68647591-68647611 0.00042 1_[+1]_11 chr19:47288150-47288170 0.00042 10_[+1]_2 chr1:10615883-10615903 0.00042 2_[+1]_10 chr7:123903683-123903703 0.00042 12_[+1] chr1:228678286-228678306 0.00042 2_[+1]_10 chrX:1656448-1656468 0.00046 9_[+1]_3 chr2:219671243-219671263 0.00046 9_[+1]_3 chrX:13777764-13777784 0.00061 6_[+1]_6 chr3:121488291-121488311 0.00068 3_[+1]_9 chr11:34655800-34655820 0.00078 8_[+1]_4 chr8:103665903-103665923 0.00083 12_[+1] chr4:122579454-122579474 0.00083 8_[+1]_4 chr21:43619726-43619746 0.0011 2_[+1]_10 chr19:11435101-11435121 0.0012 8_[+1]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTGCGCAA width=8 seqs=89 chr6:64346212-64346232 ( 2) TTGCGCAA 1 chr4:95136259-95136279 ( 13) TTGCGCAA 1 chr5:51370348-51370368 ( 10) TTGCGCAA 1 chr3:187957561-187957581 ( 12) TTGCGCAA 1 chr8:104170506-104170526 ( 13) TTGCGCAA 1 chr9:118758897-118758917 ( 2) TTGCGCAA 1 chr4:74570454-74570474 ( 9) TTGCGCAA 1 chr9:115293294-115293314 ( 9) TTGCGCAA 1 chr9:2158521-2158541 ( 1) TTGCGCAA 1 chr10:24316273-24316293 ( 6) TTGCGCAA 1 chr3:16525843-16525863 ( 2) TTGCGCAA 1 chr8:24151506-24151526 ( 5) TTGCGCAA 1 chr2:67878069-67878089 ( 3) TTGCGCAA 1 chr4:141349040-141349060 ( 6) TTGCGCAA 1 chr7:69289862-69289882 ( 10) TTGCGCAA 1 chr17:16966915-16966935 ( 12) TTGCGCAA 1 chr16:126381-126401 ( 13) TTGCGCAA 1 chr9:119267293-119267313 ( 12) TTGCGCAA 1 chr8:131478786-131478806 ( 12) TTGCGCAA 1 chr3:4946680-4946700 ( 10) TTGCGCAA 1 chr19:11531289-11531309 ( 2) TTGCGCAA 1 chr11:32852130-32852150 ( 5) TTGCGCAA 1 chr12:122361934-12236195 ( 7) TTGCGCAA 1 chr16:25017186-25017206 ( 5) TTGCGCAA 1 chr5:82737777-82737797 ( 3) TTGCGCAA 1 chr3:5168499-5168519 ( 4) TTGCACAA 1 chr15:63765272-63765292 ( 2) TTGCACAA 1 chr8:71073048-71073068 ( 12) TTGCACAA 1 chr19:35838738-35838758 ( 9) TTGCACAA 1 chr16:30579650-30579670 ( 6) TTGCACAA 1 chr1:183287744-183287764 ( 13) TTGCACAA 1 chr11:116857752-11685777 ( 5) TTGCACAA 1 chr1:167607210-167607230 ( 3) TTGCACAA 1 chr5:106485186-106485206 ( 1) TTGCACAA 1 chr2:233949452-233949472 ( 6) TTGCACAA 1 chr13:45914754-45914774 ( 10) TTGCACAA 1 chr10:91056304-91056324 ( 4) TTGCGTAA 1 chr4:693316-693336 ( 2) TTGCGTAA 1 chr3:121553078-121553098 ( 6) TTGCGTAA 1 chr1:109189630-109189650 ( 8) TTGCGTAA 1 chr6:88441691-88441711 ( 12) TTGCGTAA 1 chr22:31978628-31978648 ( 5) TTGTGCAA 1 chr1:40525335-40525355 ( 3) TTGTGCAA 1 chr13:44765701-44765721 ( 11) TTGTGCAA 1 chr1:209941761-209941781 ( 3) TTGTGCAA 1 chr12:66501423-66501443 ( 12) TTGTGCAA 1 chr11:107695794-10769581 ( 3) TTGTGCAA 1 chr1:174787527-174787547 ( 11) TTGTGCAA 1 chr8:6285962-6285982 ( 3) TTGTGCAA 1 chr1:30266096-30266116 ( 6) TTGTGCAA 1 chr15:91525505-91525525 ( 10) TTGTGCAA 1 chr2:28619428-28619448 ( 2) TTACGCAA 1 chr12:116010488-11601050 ( 10) TTACGCAA 1 chr9:123834650-123834670 ( 8) TTACGCAA 1 chr6:30483962-30483982 ( 10) TTGCATAA 1 chr6:147178808-147178828 ( 2) TTACGCAA 1 chr14:77499708-77499728 ( 4) TTACGCAA 1 chr14:64336758-64336778 ( 5) TTGCGAAA 1 chr3:183354142-183354162 ( 3) TTGCGAAA 1 chr3:61504399-61504419 ( 2) TTGCGAAA 1 chr2:74433379-74433399 ( 13) TTGAGCAA 1 chr1:27424123-27424143 ( 13) TTGAGCAA 1 chr1:207581426-207581446 ( 3) TTGAGCAA 1 chr13:108922011-10892203 ( 7) TTGAGCAA 1 chr5:59838033-59838053 ( 9) TTGCTCAA 1 chr16:69535949-69535969 ( 10) TTGCTCAA 1 chr15:92486416-92486436 ( 13) TTGCAAAA 1 chr5:112843541-112843561 ( 10) TTGGGCAA 1 chr4:113233922-113233942 ( 1) TTATGCAA 1 chr4:89724903-89724923 ( 4) TTATGCAA 1 chr15:66662650-66662670 ( 12) TTGCATCA 1 chr7:69387154-69387174 ( 4) TTGCATCA 1 chr16:30787357-30787377 ( 7) TTGCATCA 1 chrX:54665812-54665832 ( 13) TTGCATCA 1 chr5:96566887-96566907 ( 7) TTGTGAAA 1 chr2:68647591-68647611 ( 2) TTGCATCA 1 chr19:47288150-47288170 ( 11) TTGCATCA 1 chr1:10615883-10615903 ( 3) TTGCATCA 1 chr7:123903683-123903703 ( 13) TTGCATCA 1 chr1:228678286-228678306 ( 3) TTGCATCA 1 chrX:1656448-1656468 ( 10) TTGCGACA 1 chr2:219671243-219671263 ( 10) TTGAGTAA 1 chrX:13777764-13777784 ( 7) TTTCGCAA 1 chr3:121488291-121488311 ( 4) TTATACAA 1 chr11:34655800-34655820 ( 9) TTGCAACA 1 chr8:103665903-103665923 ( 13) TTATGTAA 1 chr4:122579454-122579474 ( 9) TTGCAGAA 1 chr21:43619726-43619746 ( 3) TTAGGCAA 1 chr19:11435101-11435121 ( 9) TTGCTTCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.20721 E= 1.0e-116 -1312 -1312 -1312 195 -1312 -1312 -1312 195 -124 -1312 190 -453 -224 165 -339 -62 8 -1312 154 -294 -175 156 -439 -36 170 -83 -1312 -1312 191 -1312 -1312 -1312 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 89 E= 1.0e-116 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.112360 0.000000 0.876404 0.011236 0.056180 0.752809 0.022472 0.168539 0.280899 0.000000 0.685393 0.033708 0.078652 0.707865 0.011236 0.202247 0.865169 0.134831 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTGCGCAA MEME-1 regular expression -------------------------------------------------------------------------------- TTGC[GA][CT]AA -------------------------------------------------------------------------------- Time 1.88 secs. ******************************************************************************** ******************************************************************************** MOTIF TGATGCAA MEME-2 width = 8 sites = 9 llr = 93 E-value = 9.0e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::a1:1aa pos.-specific C :::::9:: probability G :a::a::: matrix T a::9:::: bits 2.1 * * 1.9 *** * ** 1.7 *** * ** 1.5 ******** Relative 1.3 ******** Entropy 1.0 ******** (14.8 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGATGCAA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr8:72836452-72836472 10 1.67e-05 gattcagta tgatgcaa tac chrX:39422660-39422680 6 1.67e-05 caaaa tgatgcaa tactgca chr1:28576099-28576119 3 1.67e-05 GC TGATGCAA GAGTTGAGAG chr6:9528053-9528073 2 1.67e-05 a tgatgcaa tcatgggttc chr9:21096507-21096527 10 1.67e-05 CAATGAGGG TGATGCAA CAA chr14:62019824-62019844 4 1.67e-05 GGG TGATGCAA TCAGGACTT chr1:109757614-109757634 5 1.67e-05 TGTC TGATGCAA TAGGTCTG chr12:59991442-59991462 10 3.38e-05 TAGCTCTGG TGAAGCAA TCC chr15:95830510-95830530 5 5.24e-05 CCCT TGATGAAA ACTAGTTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr8:72836452-72836472 1.7e-05 9_[+2]_3 chrX:39422660-39422680 1.7e-05 5_[+2]_7 chr1:28576099-28576119 1.7e-05 2_[+2]_10 chr6:9528053-9528073 1.7e-05 1_[+2]_11 chr9:21096507-21096527 1.7e-05 9_[+2]_3 chr14:62019824-62019844 1.7e-05 3_[+2]_9 chr1:109757614-109757634 1.7e-05 4_[+2]_8 chr12:59991442-59991462 3.4e-05 9_[+2]_3 chr15:95830510-95830530 5.2e-05 4_[+2]_8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGATGCAA width=8 seqs=9 chr8:72836452-72836472 ( 10) TGATGCAA 1 chrX:39422660-39422680 ( 6) TGATGCAA 1 chr1:28576099-28576119 ( 3) TGATGCAA 1 chr6:9528053-9528073 ( 2) TGATGCAA 1 chr9:21096507-21096527 ( 10) TGATGCAA 1 chr14:62019824-62019844 ( 4) TGATGCAA 1 chr1:109757614-109757634 ( 5) TGATGCAA 1 chr12:59991442-59991462 ( 10) TGAAGCAA 1 chr15:95830510-95830530 ( 5) TGATGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.62696 E= 9.0e-003 -982 -982 -982 194 -982 -982 208 -982 191 -982 -982 -982 -125 -982 -982 177 -982 -982 208 -982 -125 189 -982 -982 191 -982 -982 -982 191 -982 -982 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 9.0e-003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.111111 0.000000 0.000000 0.888889 0.000000 0.000000 1.000000 0.000000 0.111111 0.888889 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGCAA MEME-2 regular expression -------------------------------------------------------------------------------- TGATGCAA -------------------------------------------------------------------------------- Time 2.56 secs. ******************************************************************************** ******************************************************************************** MOTIF CBGGGCGG MEME-3 width = 8 sites = 3 llr = 31 E-value = 5.3e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a3:::a:: probability G :3aaa:aa matrix T :3:::::: bits 2.1 * ****** 1.9 * ****** 1.7 * ****** 1.5 * ****** Relative 1.3 * ****** Entropy 1.0 * ****** (15.0 bits) 0.8 * ****** 0.6 * ****** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CCGGGCGG consensus G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr17:36715808-36715828 2 9.87e-06 A CGGGGCGG TACCTGGAGC chr9:110045260-110045280 13 1.99e-05 ACTTCGGCAG CCGGGCGG chr21:40203620-40203640 8 3.07e-05 GTAACTC CTGGGCGG AGTCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr17:36715808-36715828 9.9e-06 1_[+3]_11 chr9:110045260-110045280 2e-05 12_[+3] chr21:40203620-40203640 3.1e-05 7_[+3]_5 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CBGGGCGG width=8 seqs=3 chr17:36715808-36715828 ( 2) CGGGGCGG 1 chr9:110045260-110045280 ( 13) CCGGGCGG 1 chr21:40203620-40203640 ( 8) CTGGGCGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.5277 E= 5.3e+003 -823 206 -823 -823 -823 48 50 36 -823 -823 208 -823 -823 -823 208 -823 -823 -823 208 -823 -823 206 -823 -823 -823 -823 208 -823 -823 -823 208 -823 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 5.3e+003 0.000000 1.000000 0.000000 0.000000 0.000000 0.333333 0.333333 0.333333 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CBGGGCGG MEME-3 regular expression -------------------------------------------------------------------------------- C[CGT]GGGCGG -------------------------------------------------------------------------------- Time 4.19 secs. ******************************************************************************** ******************************************************************************** MOTIF GKKGSTGA MEME-4 width = 8 sites = 15 llr = 118 E-value = 2.3e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::1:2::9 pos.-specific C ::::3::: probability G a55a51a1 matrix T :55::9:: bits 2.1 * * * 1.9 * * * 1.7 * * * 1.5 * * *** Relative 1.3 * * *** Entropy 1.0 ** * *** (11.4 bits) 0.8 ** * *** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGGGTGA consensus TT C sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:28441995-28442015 4 2.50e-05 tga ggtggtga aattagtgg chr3:37066717-37066737 6 2.50e-05 tagct ggtggtga tggttgc chr1:167461277-167461297 6 2.50e-05 cggat ggtggtga tggttgc chr5:52319931-52319951 5 3.81e-05 CAGA Gtgggtga cattgcgc chr3:43078561-43078581 9 7.79e-05 cactcttg ggtgctga ccct chr20:17663355-17663375 5 9.12e-05 GGCG GTGGCTGA ACAGGGTT chr15:41194880-41194900 2 9.12e-05 T GTGGCTGA AGATCGCACG chr17:34413205-34413225 9 1.06e-04 tccaaaaa gttgctga ttgc chr1:202012657-202012677 10 1.34e-04 gagatggat ggtgatga tga chr12:26242078-26242098 12 1.49e-04 AAGACTGAAA GTGGATGA G chr16:1360188-1360208 12 1.86e-04 GCTGGCTCGC GGGGGTGG G chr11:58941831-58941851 9 2.47e-04 AAGGTTGT GGAGGTGA GGGT chr10:103764298-10376431 12 2.47e-04 AATCAAGTGT GTGGGTGG A chr2:38713093-38713113 13 2.73e-04 cagagtttct gttgggga chr13:45914754-45914774 2 4.21e-04 C GGGGAGGA TTGCACAACC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:28441995-28442015 2.5e-05 3_[+4]_9 chr3:37066717-37066737 2.5e-05 5_[+4]_7 chr1:167461277-167461297 2.5e-05 5_[+4]_7 chr5:52319931-52319951 3.8e-05 4_[+4]_8 chr3:43078561-43078581 7.8e-05 8_[+4]_4 chr20:17663355-17663375 9.1e-05 4_[+4]_8 chr15:41194880-41194900 9.1e-05 1_[+4]_11 chr17:34413205-34413225 0.00011 8_[+4]_4 chr1:202012657-202012677 0.00013 9_[+4]_3 chr12:26242078-26242098 0.00015 11_[+4]_1 chr16:1360188-1360208 0.00019 11_[+4]_1 chr11:58941831-58941851 0.00025 8_[+4]_4 chr10:103764298-10376431 0.00025 11_[+4]_1 chr2:38713093-38713113 0.00027 12_[+4] chr13:45914754-45914774 0.00042 1_[+4]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GKKGSTGA width=8 seqs=15 chr1:28441995-28442015 ( 4) GGTGGTGA 1 chr3:37066717-37066737 ( 6) GGTGGTGA 1 chr1:167461277-167461297 ( 6) GGTGGTGA 1 chr5:52319931-52319951 ( 5) GTGGGTGA 1 chr3:43078561-43078581 ( 9) GGTGCTGA 1 chr20:17663355-17663375 ( 5) GTGGCTGA 1 chr15:41194880-41194900 ( 2) GTGGCTGA 1 chr17:34413205-34413225 ( 9) GTTGCTGA 1 chr1:202012657-202012677 ( 10) GGTGATGA 1 chr12:26242078-26242098 ( 12) GTGGATGA 1 chr16:1360188-1360208 ( 12) GGGGGTGG 1 chr11:58941831-58941851 ( 9) GGAGGTGA 1 chr10:103764298-10376431 ( 12) GTGGGTGG 1 chr2:38713093-38713113 ( 13) GTTGGGGA 1 chr13:45914754-45914774 ( 2) GGGGAGGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.46255 E= 2.3e+002 -1055 -1055 208 -1055 -1055 -1055 118 85 -199 -1055 99 85 -1055 -1055 208 -1055 -41 16 118 -1055 -1055 -1055 -82 174 -1055 -1055 208 -1055 171 -1055 -82 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 2.3e+002 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.533333 0.466667 0.066667 0.000000 0.466667 0.466667 0.000000 0.000000 1.000000 0.000000 0.200000 0.266667 0.533333 0.000000 0.000000 0.000000 0.133333 0.866667 0.000000 0.000000 1.000000 0.000000 0.866667 0.000000 0.133333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GKKGSTGA MEME-4 regular expression -------------------------------------------------------------------------------- G[GT][GT]G[GCA]TGA -------------------------------------------------------------------------------- Time 4.93 secs. ******************************************************************************** ******************************************************************************** MOTIF CCAGCCAG MEME-5 width = 8 sites = 5 llr = 51 E-value = 5.5e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A 2:a:::a: pos.-specific C 8a::aa:: probability G :::a:::8 matrix T :::::::2 bits 2.1 * *** 1.9 ****** 1.7 ****** 1.5 ****** Relative 1.3 ******** Entropy 1.0 ******** (14.7 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CCAGCCAG consensus A T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:28619428-28619448 11 1.28e-05 ATTACGCAAT CCAGCCAG TT chr17:10018559-10018579 11 1.28e-05 GAGTGAGTCA CCAGCCAG CA chr1:228678286-228678306 12 1.28e-05 GTTGCATCAG CCAGCCAG C chr2:106413834-106413854 4 2.68e-05 CTG CCAGCCAT GCGGTTCCA chr8:27062686-27062706 1 4.10e-05 . ACAGCCAG AGCACCACCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:28619428-28619448 1.3e-05 10_[+5]_2 chr17:10018559-10018579 1.3e-05 10_[+5]_2 chr1:228678286-228678306 1.3e-05 11_[+5]_1 chr2:106413834-106413854 2.7e-05 3_[+5]_9 chr8:27062686-27062706 4.1e-05 [+5]_12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCAGCCAG width=8 seqs=5 chr2:28619428-28619448 ( 11) CCAGCCAG 1 chr17:10018559-10018579 ( 11) CCAGCCAG 1 chr1:228678286-228678306 ( 12) CCAGCCAG 1 chr2:106413834-106413854 ( 4) CCAGCCAT 1 chr8:27062686-27062706 ( 1) ACAGCCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.59397 E= 5.5e+003 -41 174 -897 -897 -897 206 -897 -897 191 -897 -897 -897 -897 -897 208 -897 -897 206 -897 -897 -897 206 -897 -897 191 -897 -897 -897 -897 -897 176 -38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 5.5e+003 0.200000 0.800000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.200000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCAGCCAG MEME-5 regular expression -------------------------------------------------------------------------------- [CA]CAGCCA[GT] -------------------------------------------------------------------------------- Time 6.35 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:82737777-82737797 8.47e-03 2_[+1(1.51e-05)]_10 chr6:147643814-147643834 1.44e-01 20 chr1:28573003-28573023 9.45e-01 20 chr10:13765504-13765524 6.26e-01 20 chr16:25017186-25017206 1.14e-02 4_[+1(1.51e-05)]_8 chr12:122361934-12236195 3.90e-03 6_[+1(1.51e-05)]_6 chr1:109757614-109757634 1.01e-02 4_[+2(1.67e-05)]_8 chr1:234737534-234737554 2.37e-01 20 chr1:228678286-228678306 6.77e-05 11_[+5(1.28e-05)]_1 chr6:88441691-88441711 1.53e-02 11_[+1(4.85e-05)]_1 chr2:39356124-39356144 9.73e-01 20 chr2:190792750-190792770 8.96e-01 20 chr11:32852130-32852150 9.67e-03 4_[+1(1.51e-05)]_8 chr14:77499708-77499728 3.14e-03 20 chr7:77168140-77168160 1.27e-01 20 chr7:123903683-123903703 7.58e-03 20 chr19:11531289-11531309 4.83e-03 1_[+1(1.51e-05)]_11 chr3:4946680-4946700 9.40e-03 9_[+1(1.51e-05)]_3 chr5:52319931-52319951 1.54e-02 4_[+4(3.81e-05)]_8 chr8:131478786-131478806 1.69e-02 11_[+1(1.51e-05)]_1 chr9:119267293-119267313 6.86e-03 11_[+1(1.51e-05)]_1 chr12:46824401-46824421 7.34e-01 20 chr9:112827908-112827928 4.37e-01 20 chr16:126381-126401 3.31e-03 12_[+1(1.51e-05)] chr7:43005177-43005197 1.98e-01 20 chr12:93638088-93638108 6.97e-01 20 chr1:202012657-202012677 4.19e-02 20 chr1:153491293-153491313 8.11e-01 20 chr5:145061372-145061392 8.42e-01 20 chr15:92486416-92486436 4.60e-03 20 chr15:40129861-40129881 1.04e-01 20 chr14:62019824-62019844 4.03e-04 3_[+2(1.67e-05)]_9 chr9:21096507-21096527 5.35e-04 9_[+2(1.67e-05)]_3 chr15:52390720-52390740 4.37e-01 20 chrX:13777764-13777784 1.21e-01 20 chr14:93540644-93540664 9.26e-01 20 chr16:11198954-11198974 9.54e-02 20 chr4:55100558-55100578 2.76e-01 20 chr3:4753946-4753966 8.91e-01 20 chr5:142566423-142566443 3.75e-01 20 chr5:55750273-55750293 9.78e-01 20 chr17:71336374-71336394 8.45e-01 20 chr14:74252690-74252710 3.13e-01 20 chr1:109189630-109189650 1.12e-02 7_[+1(4.85e-05)]_5 chr3:61504399-61504419 8.78e-03 20 chr2:65663780-65663800 2.06e-01 20 chr1:10615883-10615903 9.52e-02 20 chr2:119880400-119880420 9.82e-01 20 chr17:16966915-16966935 1.18e-03 11_[+1(1.51e-05)]_1 chr7:69289862-69289882 5.57e-03 9_[+1(1.51e-05)]_3 chr12:59991442-59991462 5.25e-03 9_[+2(3.38e-05)]_3 chr1:167461277-167461297 2.64e-02 5_[+4(2.50e-05)]_7 chr3:43078561-43078581 3.98e-02 8_[+4(7.79e-05)]_4 chr19:18200069-18200089 5.71e-02 20 chr6:147178808-147178828 1.32e-03 20 chr10:118935627-11893564 4.99e-01 20 chr3:37066717-37066737 1.96e-02 5_[+4(2.50e-05)]_7 chr3:121488291-121488311 1.03e-01 20 chr19:13908975-13908995 7.54e-01 20 chr17:66457612-66457632 8.87e-01 20 chr19:47288150-47288170 1.72e-02 20 chr12:50144348-50144368 5.93e-01 20 chr3:121553078-121553098 6.85e-02 5_[+1(4.85e-05)]_7 chr5:111090094-111090114 7.66e-01 20 chr15:66994532-66994552 2.03e-01 20 chr19:50427746-50427766 7.05e-01 20 chr11:67297068-67297088 7.95e-01 20 chr6:108463636-108463656 5.71e-01 20 chr14:23292657-23292677 4.56e-01 20 chr20:20761253-20761273 1.85e-01 20 chr16:9022378-9022398 1.13e-01 20 chr4:122579454-122579474 6.23e-02 20 chr4:141349040-141349060 3.90e-03 5_[+1(1.51e-05)]_7 chr15:91525505-91525525 1.33e-02 9_[+1(6.49e-05)]_3 chr5:96870084-96870104 7.37e-01 20 chr14:30873178-30873198 7.61e-01 20 chr8:37010965-37010985 3.04e-01 20 chr1:30266096-30266116 1.33e-02 5_[+1(6.49e-05)]_7 chr5:121312888-121312908 9.66e-01 20 chr8:6285962-6285982 6.87e-03 2_[+1(6.49e-05)]_10 chr13:45914754-45914774 3.21e-05 9_[+1(3.21e-05)]_3 chr2:68647591-68647611 5.10e-02 20 chr13:113954417-11395443 4.07e-01 20 chr3:183354142-183354162 6.55e-02 20 chr7:18901237-18901257 8.27e-01 20 chr2:67878069-67878089 2.59e-03 2_[+1(1.51e-05)]_10 chr18:53925560-53925580 1.00e+00 20 chr8:24151506-24151526 2.85e-03 4_[+1(1.51e-05)]_8 chr1:205288847-205288867 3.61e-01 20 chr4:163418927-163418947 7.35e-02 10_[+5(5.66e-05)]_2 chr5:96566887-96566907 4.54e-02 20 chr1:6320199-6320219 9.28e-01 20 chr13:108922011-10892203 2.33e-02 20 chr12:99525166-99525186 3.81e-01 20 chrX:54665812-54665832 2.27e-01 20 chr10:92958683-92958703 6.57e-01 20 chr2:233949452-233949472 4.50e-03 5_[+1(3.21e-05)]_7 chr12:26242078-26242098 5.45e-02 20 chr17:46133306-46133326 6.86e-01 20 chr21:40203620-40203640 1.60e-02 7_[+3(3.07e-05)]_5 chr10:115747718-11574773 5.92e-01 20 chr11:8078719-8078739 8.32e-02 20 chr16:87887355-87887375 5.80e-01 20 chr3:174862313-174862333 9.48e-01 20 chr15:41982199-41982219 2.52e-01 20 chr3:16525843-16525863 1.13e-02 1_[+1(1.51e-05)]_11 chr20:62372355-62372375 4.27e-01 20 chr16:30787357-30787377 1.64e-01 20 chr6:9528053-9528073 8.09e-03 1_[+2(1.67e-05)]_11 chr11:130184941-13018496 7.76e-01 20 chr7:106554659-106554679 9.99e-01 20 chr10:24316273-24316293 1.54e-02 5_[+1(1.51e-05)]_7 chr6:30483962-30483982 6.18e-02 20 chr20:821884-821904 4.86e-01 20 chr1:174787527-174787547 9.64e-03 10_[+1(6.49e-05)]_2 chr9:126717460-126717480 2.64e-01 20 chr11:107695794-10769581 2.30e-02 2_[+1(6.49e-05)]_10 chr2:219671243-219671263 7.92e-02 20 chr11:33279779-33279799 4.89e-01 20 chr5:106485186-106485206 1.50e-02 [+1(3.21e-05)]_12 chr12:64349766-64349786 6.83e-01 20 chr1:167607210-167607230 6.97e-03 2_[+1(3.21e-05)]_10 chr2:38713093-38713113 1.54e-01 20 chr16:69535949-69535969 1.93e-02 20 chr2:106413834-106413854 1.34e-02 3_[+5(2.68e-05)]_9 chr11:116857752-11685777 1.26e-02 4_[+1(3.21e-05)]_8 chr4:141295492-141295512 9.89e-01 20 chr1:179845530-179845550 1.67e-01 20 chr9:2158521-2158541 2.18e-02 [+1(1.51e-05)]_12 chr6:51946185-51946205 4.54e-01 20 chr1:28576099-28576119 4.08e-03 2_[+2(1.67e-05)]_10 chr1:167513987-167514007 3.04e-01 20 chr8:59290996-59291016 7.56e-01 20 chr9:19161904-19161924 9.15e-01 20 chr11:71984316-71984336 8.26e-01 20 chr10:22013730-22013750 7.86e-02 20 chr3:151818497-151818517 8.88e-01 20 chr3:125822347-125822367 7.26e-01 20 chr17:36715808-36715828 7.36e-03 1_[+3(9.87e-06)]_11 chr1:183287744-183287764 3.76e-02 12_[+1(3.21e-05)] chr15:41194880-41194900 1.12e-02 1_[+4(9.12e-05)]_11 chr7:23483793-23483813 9.80e-01 20 chr1:28441995-28442015 4.42e-04 3_[+4(2.50e-05)]_9 chr6:85291804-85291824 5.01e-01 20 chr16:23893090-23893110 9.07e-01 20 chr11:63639741-63639761 8.06e-01 20 chr9:115293294-115293314 9.86e-03 8_[+1(1.51e-05)]_4 chr8:95078153-95078173 6.86e-01 20 chr12:66501423-66501443 9.69e-03 11_[+1(6.49e-05)]_1 chr1:209941761-209941781 2.25e-02 2_[+1(6.49e-05)]_10 chr8:42912596-42912616 9.20e-01 20 chr4:693316-693336 2.38e-02 1_[+1(4.85e-05)]_11 chr13:97778228-97778248 3.36e-01 20 chr13:51970711-51970731 9.65e-01 20 chr14:105818705-10581872 5.51e-01 20 chr7:69387154-69387174 2.54e-01 20 chr16:30579650-30579670 3.76e-02 5_[+1(3.21e-05)]_7 chr2:113551912-113551932 3.72e-01 20 chr8:103665903-103665923 7.33e-03 20 chr11:46264935-46264955 5.23e-01 20 chr10:122728887-12272890 1.02e-01 20 chrX:1600795-1600815 7.01e-01 20 chr4:89724903-89724923 1.44e-02 20 chr20:17663355-17663375 1.82e-02 4_[+4(9.12e-05)]_8 chr10:103764298-10376431 5.44e-02 20 chr9:123834650-123834670 1.48e-02 20 chr13:21348141-21348161 4.52e-01 20 chr9:115621273-115621293 4.99e-01 20 chr3:142779895-142779915 9.89e-01 20 chr14:64336758-64336778 5.66e-02 20 chr3:5023698-5023718 3.66e-01 20 chr13:44765701-44765721 1.41e-03 10_[+1(6.49e-05)]_2 chr7:140577124-140577144 7.74e-01 20 chr6:123190775-123190795 7.03e-02 20 chr16:1360188-1360208 3.84e-02 20 chr15:95830510-95830530 1.48e-03 4_[+2(5.24e-05)]_8 chr12:116010488-11601050 1.16e-02 20 chr8:117070641-117070661 2.62e-01 20 chr2:12596570-12596590 8.05e-01 20 chr12:70294612-70294632 9.86e-01 20 chr1:197153505-197153525 8.45e-01 20 chr20:19609425-19609445 7.17e-01 20 chr19:35838738-35838758 2.66e-02 8_[+1(3.21e-05)]_4 chrX:39422660-39422680 1.42e-02 5_[+2(1.67e-05)]_7 chr17:16892277-16892297 4.97e-01 20 chr15:66662650-66662670 2.61e-01 20 chr6:27102335-27102355 2.41e-01 20 chr8:71073048-71073068 2.38e-03 11_[+1(3.21e-05)]_1 chrX:123012181-123012201 7.16e-01 20 chr4:74570454-74570474 3.90e-03 8_[+1(1.51e-05)]_4 chr17:10018559-10018579 1.45e-03 10_[+5(1.28e-05)]_2 chr5:112843541-112843561 4.80e-02 20 chr11:133038080-13303810 8.83e-01 20 chr1:207581426-207581446 1.41e-02 20 chr4:82327143-82327163 7.37e-01 20 chr17:55980836-55980856 4.38e-02 20 chr10:91056304-91056324 2.61e-02 3_[+1(4.85e-05)]_9 chr15:33948490-33948510 8.55e-02 20 chr8:27062686-27062706 6.23e-02 [+5(4.10e-05)]_12 chr5:81937320-81937340 8.36e-01 20 chr9:118758897-118758917 8.35e-04 1_[+1(1.51e-05)]_11 chr21:43619726-43619746 8.04e-02 20 chr4:7967135-7967155 9.56e-01 20 chr1:70877944-70877964 9.64e-01 20 chr11:58941831-58941851 4.76e-02 20 chr8:104170506-104170526 1.47e-03 12_[+1(1.51e-05)] chr13:53718040-53718060 9.65e-01 20 chr5:59838033-59838053 1.72e-02 20 chr1:109705106-109705126 3.54e-01 20 chr19:46404964-46404984 4.99e-01 20 chr6:51928467-51928487 5.59e-01 20 chr15:63765272-63765292 2.80e-03 1_[+1(3.21e-05)]_11 chr13:79832783-79832803 3.42e-01 20 chr16:30825696-30825716 9.82e-01 20 chrX:1656448-1656468 1.17e-01 20 chr2:225222230-225222250 6.42e-01 20 chr3:187957561-187957581 1.69e-02 11_[+1(1.51e-05)]_1 chr19:11435101-11435121 1.85e-01 20 chr2:129381734-129381754 4.34e-01 20 chr1:40525335-40525355 2.05e-02 2_[+1(6.49e-05)]_10 chr15:101739781-10173980 4.49e-01 20 chr4:113233922-113233942 5.28e-04 20 chr5:51370348-51370368 2.95e-03 9_[+1(1.51e-05)]_3 chr4:95262824-95262844 7.88e-01 20 chr1:23857898-23857918 2.37e-01 20 chr2:24731928-24731948 3.29e-01 20 chr16:30480957-30480977 4.59e-01 20 chr11:34655800-34655820 1.79e-02 20 chr14:64195081-64195101 3.37e-01 20 chr8:72836452-72836472 1.32e-02 9_[+2(1.67e-05)]_3 chr4:185781452-185781472 9.88e-01 20 chr1:27424123-27424143 2.01e-02 20 chr4:95136259-95136279 1.04e-02 12_[+1(1.51e-05)] chr10:112617511-11261753 8.05e-01 20 chr22:31978628-31978648 1.44e-02 4_[+1(6.49e-05)]_8 chr8:119001815-119001835 8.80e-03 20 chr5:142431306-142431326 9.44e-01 20 chr15:80465811-80465831 5.61e-01 20 chr19:7273062-7273082 6.68e-01 20 chr2:28619428-28619448 2.06e-05 10_[+5(1.28e-05)]_2 chr12:9874245-9874265 3.35e-01 20 chr14:70540778-70540798 1.21e-01 20 chr3:5168499-5168519 2.79e-02 3_[+1(3.21e-05)]_9 chr6:64346212-64346232 1.29e-02 1_[+1(1.51e-05)]_11 chr1:36852219-36852239 8.57e-01 20 chr12:64798815-64798835 3.48e-01 20 chr9:110045260-110045280 2.00e-03 12_[+3(1.99e-05)] chr3:121265767-121265787 9.16e-01 20 chr17:34413205-34413225 2.77e-02 20 chr2:74433379-74433399 3.54e-03 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n04.farnam.hpc.yale.internal ********************************************************************************