******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= ../result/final_prediction/K562/fasta/RankLinear0.6_40/KDM5B.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr14:34420168-34420248 1.0000 80 chr1:153599900-153599980 1.0000 80 chr7:139227129-139227209 1.0000 80 chr17:27188915-27188995 1.0000 80 chr15:41221548-41221628 1.0000 80 chr10:126107430-12610751 1.0000 80 chr12:49259556-49259636 1.0000 80 chrX:151143052-151143132 1.0000 80 chr10:104195539-10419561 1.0000 80 chr16:4421840-4421920 1.0000 80 chr6:36515125-36515205 1.0000 80 chr1:36772727-36772807 1.0000 80 chr19:3670434-3670514 1.0000 80 chr18:57567230-57567310 1.0000 80 chr2:30454398-30454478 1.0000 80 chr17:11900941-11901021 1.0000 80 chr20:43976965-43977045 1.0000 80 chr16:48399714-48399794 1.0000 80 chr12:27091442-27091522 1.0000 80 chr7:1498991-1499071 1.0000 80 chr11:2950553-2950633 1.0000 80 chr22:21996244-21996324 1.0000 80 chr7:139227328-139227408 1.0000 80 chr9:131038564-131038644 1.0000 80 chr6:134495917-134495997 1.0000 80 chr13:111367622-11136770 1.0000 80 chr22:37595315-37595395 1.0000 80 chr17:79008964-79009044 1.0000 80 chr19:45971237-45971317 1.0000 80 chr19:18175906-18175986 1.0000 80 chr12:6579765-6579845 1.0000 80 chr20:57464216-57464296 1.0000 80 chr11:64879359-64879439 1.0000 80 chr11:66360665-66360745 1.0000 80 chr7:134896165-134896245 1.0000 80 chr11:34938211-34938291 1.0000 80 chr15:76628740-76628820 1.0000 80 chr10:3214870-3214950 1.0000 80 chr9:131580774-131580854 1.0000 80 chr7:155437018-155437098 1.0000 80 chr6:99968966-99969046 1.0000 80 chr4:174292120-174292200 1.0000 80 chr12:112820310-11282039 1.0000 80 chr3:194406611-194406691 1.0000 80 chr1:156084529-156084609 1.0000 80 chr11:65222758-65222838 1.0000 80 chrX:153599506-153599586 1.0000 80 chr12:8088699-8088779 1.0000 80 chrX:41193411-41193491 1.0000 80 chr22:43411384-43411464 1.0000 80 chr9:130590728-130590808 1.0000 80 chr11:64937703-64937783 1.0000 80 chr1:26362043-26362123 1.0000 80 chr19:11805690-11805770 1.0000 80 chr19:40931826-40931906 1.0000 80 chr2:97303603-97303683 1.0000 80 chr14:31889671-31889751 1.0000 80 chr1:70876945-70877025 1.0000 80 chr15:41624680-41624760 1.0000 80 chr11:842444-842524 1.0000 80 chr6:89790470-89790550 1.0000 80 chr6:26020685-26020765 1.0000 80 chr15:102264513-10226459 1.0000 80 chr8:37756911-37756991 1.0000 80 chr12:56497916-56497996 1.0000 80 chr11:65194605-65194685 1.0000 80 chr14:81687118-81687198 1.0000 80 chr12:6643687-6643767 1.0000 80 chr8:99956673-99956753 1.0000 80 chr14:20937569-20937649 1.0000 80 chr12:58335411-58335491 1.0000 80 chr8:11725494-11725574 1.0000 80 chr13:22615102-22615182 1.0000 80 chr6:26250773-26250853 1.0000 80 chr11:2906894-2906974 1.0000 80 chr20:5986723-5986803 1.0000 80 chr19:40502772-40502852 1.0000 80 chr16:14726517-14726597 1.0000 80 chr14:102553301-10255338 1.0000 80 chr15:30114539-30114619 1.0000 80 chr6:27798572-27798652 1.0000 80 chr4:173077190-173077270 1.0000 80 chr15:75182414-75182494 1.0000 80 chr16:15670697-15670777 1.0000 80 chr9:19049225-19049305 1.0000 80 chrX:12993258-12993338 1.0000 80 chr3:129035062-129035142 1.0000 80 chr8:74791286-74791366 1.0000 80 chr9:101836678-101836758 1.0000 80 chr7:77166091-77166171 1.0000 80 chr20:43104504-43104584 1.0000 80 chr9:114658851-114658931 1.0000 80 chr16:69563692-69563772 1.0000 80 chr20:48599533-48599613 1.0000 80 chr1:176176503-176176583 1.0000 80 chr17:76183425-76183505 1.0000 80 chr1:43232952-43233032 1.0000 80 chr1:47069816-47069896 1.0000 80 chr6:42713722-42713802 1.0000 80 chr12:133707221-13370730 1.0000 80 chr3:28282867-28282947 1.0000 80 chr1:173991655-173991735 1.0000 80 chrX:23801302-23801382 1.0000 80 chr1:23885906-23885986 1.0000 80 chr16:11349866-11349946 1.0000 80 chr4:120133851-120133931 1.0000 80 chr1:156391470-156391550 1.0000 80 chr6:52529204-52529284 1.0000 80 chr5:137805897-137805977 1.0000 80 chr10:94589085-94589165 1.0000 80 chr11:59314433-59314513 1.0000 80 chr2:223725736-223725816 1.0000 80 chr16:89989762-89989842 1.0000 80 chr17:7590738-7590818 1.0000 80 chr2:27851937-27852017 1.0000 80 chr11:64864054-64864134 1.0000 80 chrX:134654601-134654681 1.0000 80 chr1:206680878-206680958 1.0000 80 chr19:5791339-5791419 1.0000 80 chr15:72523443-72523523 1.0000 80 chr8:17941937-17942017 1.0000 80 chr1:189118896-189118976 1.0000 80 chr19:2476123-2476203 1.0000 80 chr8:48173286-48173366 1.0000 80 chr12:9913413-9913493 1.0000 80 chr17:6843644-6843724 1.0000 80 chr3:195163616-195163696 1.0000 80 chr3:137893633-137893713 1.0000 80 chr5:114962071-114962151 1.0000 80 chr6:107780634-107780714 1.0000 80 chr3:49058856-49058936 1.0000 80 chr6:159239150-159239230 1.0000 80 chr9:139557404-139557484 1.0000 80 chr7:6617118-6617198 1.0000 80 chr7:142960596-142960676 1.0000 80 chr10:60094749-60094829 1.0000 80 chr8:101734255-101734335 1.0000 80 chr2:103353238-103353318 1.0000 80 chr5:112043305-112043385 1.0000 80 chr2:48133522-48133602 1.0000 80 chr9:130186266-130186346 1.0000 80 chr15:65134129-65134209 1.0000 80 chr19:11925114-11925194 1.0000 80 chr4:186064441-186064521 1.0000 80 chr13:52027083-52027163 1.0000 80 chr2:86426595-86426675 1.0000 80 chr8:99129299-99129379 1.0000 80 chr3:121468531-121468611 1.0000 80 chr2:187454779-187454859 1.0000 80 chr15:81282071-81282151 1.0000 80 chr15:62682558-62682638 1.0000 80 chr6:42951959-42952039 1.0000 80 chr5:56205891-56205971 1.0000 80 chr8:82598465-82598545 1.0000 80 chr8:61193856-61193936 1.0000 80 chr5:137667377-137667457 1.0000 80 chr19:4539973-4540053 1.0000 80 chr15:50647710-50647790 1.0000 80 chr17:49021880-49021960 1.0000 80 chr5:176074083-176074163 1.0000 80 chr7:155089594-155089674 1.0000 80 chr1:68150877-68150957 1.0000 80 chr1:12079225-12079305 1.0000 80 chr2:32264949-32265029 1.0000 80 chr8:125827686-125827766 1.0000 80 chr1:37940174-37940254 1.0000 80 chr5:43313430-43313510 1.0000 80 chr17:72744780-72744860 1.0000 80 chr1:100828467-100828547 1.0000 80 chr19:49468878-49468958 1.0000 80 chr1:161391927-161392007 1.0000 80 chr18:3297352-3297432 1.0000 80 chr3:15643518-15643598 1.0000 80 chr2:173420492-173420572 1.0000 80 chr11:72525032-72525112 1.0000 80 chr9:74526029-74526109 1.0000 80 chr5:90679050-90679130 1.0000 80 chr6:126307677-126307757 1.0000 80 chr5:162864240-162864320 1.0000 80 chr1:192778157-192778237 1.0000 80 chr16:2955324-2955404 1.0000 80 chr14:90863349-90863429 1.0000 80 chr10:71930501-71930581 1.0000 80 chr17:5522661-5522741 1.0000 80 chr16:74640904-74640984 1.0000 80 chr15:89456527-89456607 1.0000 80 chr2:64067893-64067973 1.0000 80 chr3:186284969-186285049 1.0000 80 chr17:40575183-40575263 1.0000 80 chr12:27175491-27175571 1.0000 80 chr7:66093536-66093616 1.0000 80 chr1:59249642-59249722 1.0000 80 chr2:131862918-131862998 1.0000 80 chr3:182511057-182511137 1.0000 80 chr20:30795735-30795815 1.0000 80 chr15:83349296-83349376 1.0000 80 chr3:141944287-141944367 1.0000 80 chr17:75954435-75954515 1.0000 80 chr7:39988930-39989010 1.0000 80 chr19:39897502-39897582 1.0000 80 chrX:131157305-131157385 1.0000 80 chr20:8000292-8000372 1.0000 80 chr19:6531028-6531108 1.0000 80 chr2:8822189-8822269 1.0000 80 chr1:145470287-145470367 1.0000 80 chr6:160114192-160114272 1.0000 80 chr1:9294887-9294967 1.0000 80 chr14:36295821-36295901 1.0000 80 chr14:70233868-70233948 1.0000 80 chr15:74890845-74890925 1.0000 80 chr1:166808434-166808514 1.0000 80 chr18:29523378-29523458 1.0000 80 chr9:74980038-74980118 1.0000 80 chr3:193853941-193854021 1.0000 80 chr12:6976678-6976758 1.0000 80 chr4:127877217-127877297 1.0000 80 chr9:131940444-131940524 1.0000 80 chr10:74036323-74036403 1.0000 80 chr15:93443564-93443644 1.0000 80 chr1:40204574-40204654 1.0000 80 chr22:21213310-21213390 1.0000 80 chr1:32801740-32801820 1.0000 80 chr10:28966440-28966520 1.0000 80 chr9:36258620-36258700 1.0000 80 chr19:33793343-33793423 1.0000 80 chr3:49449664-49449744 1.0000 80 chr19:14247290-14247370 1.0000 80 chr16:11891395-11891475 1.0000 80 chr3:49066741-49066821 1.0000 80 chr1:202777472-202777552 1.0000 80 chr2:101869009-101869089 1.0000 80 chr1:118148681-118148761 1.0000 80 chr2:60983422-60983502 1.0000 80 chrX:53111552-53111632 1.0000 80 chr6:43445312-43445392 1.0000 80 chr17:41393362-41393442 1.0000 80 chr7:43966180-43966260 1.0000 80 chrX:71496994-71497074 1.0000 80 chr12:69004392-69004472 1.0000 80 chr1:35497206-35497286 1.0000 80 chr7:119547361-119547441 1.0000 80 chr5:132202337-132202417 1.0000 80 chr6:2903434-2903514 1.0000 80 chr6:29595700-29595780 1.0000 80 chr13:99852874-99852954 1.0000 80 chr1:6067452-6067532 1.0000 80 chr12:92028715-92028795 1.0000 80 chr11:67351283-67351363 1.0000 80 chr6:31628384-31628464 1.0000 80 chr1:11856527-11856607 1.0000 80 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc ../result/final_prediction/K562/inference_raw/MEME/RankLinear0.6_40_KDM5B/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/KDM5B.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.177 C 0.324 G 0.322 T 0.177 Background letter frequencies (from file dataset with add-one prior applied): A 0.177 C 0.324 G 0.322 T 0.177 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF RGAGVARR MEME-1 width = 8 sites = 63 llr = 458 E-value = 1.4e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 Description -------------------------------------------------------------------------------- Simplified A 43a13a65 pos.-specific C ::::3::: probability G 47:94:45 matrix T 2::::::: bits 2.5 * * 2.2 * * 2.0 * * 1.7 * * Relative 1.5 * * Entropy 1.2 ** ** (10.5 bits) 1.0 *** *** 0.7 *** *** 0.5 **** *** 0.2 ******** 0.0 -------- Multilevel GGAGGAAA consensus AA C GG sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:119547361-119547441 57 3.19e-06 ggtagcagca agagaaaa tgaggacgaa chr16:15670697-15670777 37 3.19e-06 ggcaaaagaa agagaaaa gggaacagct chr17:41393362-41393442 25 1.65e-05 GGGGGTTTTT GGAGAAAA CGGTGGGGTT chr17:40575183-40575263 43 1.65e-05 AGCGGAGAGC AGAGGAAA CTCGAGCCAC chr5:43313430-43313510 49 1.65e-05 GAGCGGCAGC AGAGGAAA GGGAGTGAGC chr9:130186266-130186346 46 1.65e-05 AGAGCTGCGG AGAGGAAA CCAAGCGCCT chr1:23885906-23885986 45 1.65e-05 CCCCAAAGAG AAAGAAAA CCAAAAGAAG chr1:161391927-161392007 57 4.25e-05 CAGCACCTTC TGAGAAAA GATCTTAGGA chr15:62682558-62682638 32 4.25e-05 ACCACGCGTG GGAGGAAA CCCAGGACGG chr1:153599900-153599980 9 4.25e-05 GAGCCCAG GAAGAAAA AATGATCTCC chr12:69004392-69004472 47 8.13e-05 GCGCAGCTAG AGAGAAGA ACCTCGGCAG chr17:5522661-5522741 73 8.13e-05 tggcggcagg agagaaga chr8:82598465-82598545 1 8.13e-05 . TGAGGAAA ATAACGGTCT chr6:42951959-42952039 26 8.13e-05 AGAGCCTTTA GAAGGAAA GAGCAGGGCT chr19:5791339-5791419 37 8.13e-05 GCTTCTGGAC TGAGGAAA TTTAACTGTT chrX:134654601-134654681 66 1.06e-04 GCAGCAGAAG AGAGGAAG GGGGAGG chr10:94589085-94589165 47 1.06e-04 ctctctcagg agaggaag ctgttctcct chr15:76628740-76628820 13 1.06e-04 CGAAAGTCCA AGAGGAAG CTCAGAGTTG chr6:31628384-31628464 34 1.17e-04 CCCCAGTTAC GAAGCAAA GCGCGGGCCT chr2:187454779-187454859 47 1.17e-04 GAGCCGGAGG GAAGCAAA GGACCGTCTG chr1:100828467-100828547 5 1.55e-04 ggac agaggaga gagtagctct chr8:99129299-99129379 56 1.55e-04 AGCCCCTTCA GGAGAAGA AGCCCCAGCA chr11:65222758-65222838 37 1.55e-04 ACGGTTGCCC AGAGCAAG GTAAAGATAA chr9:74526029-74526109 12 1.92e-04 TCCGGTAGCG GGAGGAAG ACTGGAGGGG chr9:114658851-114658931 49 1.92e-04 GCGAGGAGCC GGAGGAAG CCCGGCCTGC chr12:58335411-58335491 43 1.92e-04 GCCTGAGCCA GGAGGAAG CAGCGGCGAG chr9:130590728-130590808 16 1.92e-04 CGCGGCCCCA GGAGGAAG GCGGCGCGGC chr7:139227328-139227408 27 1.92e-04 TGTAGCTGTG GAAGAAAG GGGATCTGAA chr6:159239150-159239230 57 2.06e-04 ACCTGGAGTC AGAGCAGA ACCCTTAGAG chr6:26020685-26020765 44 2.06e-04 TGGCTCGCAC TAAGCAAA CTGCTCGGAA chr17:6843644-6843724 15 2.67e-04 caaaacacac aaagcaag gcagggaaag chrX:23801302-23801382 66 2.67e-04 CCAGCCTGAC TGAGAAGA GGACGCT chr17:76183425-76183505 71 2.67e-04 AGGTTCCTTG GAAGAAGA TG chr1:156084529-156084609 58 2.67e-04 ACGCCTGCCA GGAGCAAG CCGAGAGCCA chr10:74036323-74036403 2 3.02e-04 G GAAGGAAG TCTGGACCAG chr5:112043305-112043385 62 3.02e-04 TGGCTGTTGG TGAGGAAG GTGAAGCACT chr8:48173286-48173366 48 3.02e-04 CAGCCCCGGG GAAGGAAG CTCGACTCTC chr16:48399714-48399794 45 3.02e-04 CGCTGGCTGA GAAGGAAG TGCGCTCCCT chr17:27188915-27188995 20 3.02e-04 AGACAGACCC AGAGAAGG TGCACTTACC chr19:3670434-3670514 32 3.27e-04 ggaggcacca ggagcaga ggggtgtgga chrX:53111552-53111632 9 3.73e-04 CGAGGTGG TGAGGAGA GCTGGTTGCG chr5:176074083-176074163 36 3.73e-04 CCCAGCAGGG GAAGCAAG GCTTCTACAC chr6:52529204-52529284 70 3.73e-04 GGGTGTGTTA GAAGCAAG TTA chr8:74791286-74791366 42 3.73e-04 CTCTCGTTAC TGAGGAGA CACGGCTCCA chr8:101734255-101734335 52 4.23e-04 TAACCGCCGG GGAGAAGG GGAAGCACCG chr20:43976965-43977045 73 4.23e-04 ACCGCGGACT GGAGAAGG chr10:104195539-10419561 14 4.23e-04 GGAGCCATAG AGAGGAGG TTTCGTGGGT chr16:11891395-11891475 3 4.46e-04 CC TGAGCAGA AGCGCTAGGA chr1:173991655-173991735 38 4.46e-04 TCACACGCCC TGAGCAGA TGAACCGGTC chr11:64864054-64864134 3 4.77e-04 GG AGAGCAGG TGTTCATAAG chr7:134896165-134896245 38 4.77e-04 AACCCGCGGA AGAGCAGG TACTCCCGGA chr5:137667377-137667457 6 5.44e-04 AGGGG AAAGGAGG TAGTTAACTA chr12:56497916-56497996 5 5.44e-04 ATCC GAAGAAGG GCGCACCCAG chr11:64937703-64937783 45 5.44e-04 GCTCGCTGCA GGAGGAGG CTGGGTTGCT chr13:111367622-11136770 10 5.57e-04 TGGGGGCAA AAAAAAAA ATTGACCGCT chr15:81282071-81282151 19 6.02e-04 TCAGAGGCAC AAAGCAGG ACCACGGCCT chr10:60094749-60094829 51 6.02e-04 GGGCGCACAC GGAGCAGG GACCGGCGCC chr19:18175906-18175986 13 6.02e-04 cactctgcaa ggagcagg acttctgctg chr3:137893633-137893713 15 6.50e-04 TCTGCCGGCC TGAGGAGG TGAGCGCTGC chr9:19049225-19049305 10 6.50e-04 AGCTGCAAC AGAACAAA AGACCGAAGT chr1:40204574-40204654 31 7.03e-04 TGTACGTGGG TGAGCAGG AGGGGTTGCT chrX:41193411-41193491 40 7.21e-04 CCTTCGCGGT GGAACAAA CACTCGCTTA chr6:36515125-36515205 41 7.83e-04 TCCAACTGCC GGAAAAGA CGCGAGCGCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:119547361-119547441 3.2e-06 56_[+1]_16 chr16:15670697-15670777 3.2e-06 36_[+1]_36 chr17:41393362-41393442 1.7e-05 24_[+1]_48 chr17:40575183-40575263 1.7e-05 42_[+1]_30 chr5:43313430-43313510 1.7e-05 48_[+1]_24 chr9:130186266-130186346 1.7e-05 45_[+1]_27 chr1:23885906-23885986 1.7e-05 44_[+1]_28 chr1:161391927-161392007 4.2e-05 56_[+1]_16 chr15:62682558-62682638 4.2e-05 31_[+1]_41 chr1:153599900-153599980 4.2e-05 8_[+1]_64 chr12:69004392-69004472 8.1e-05 46_[+1]_26 chr17:5522661-5522741 8.1e-05 72_[+1] chr8:82598465-82598545 8.1e-05 [+1]_72 chr6:42951959-42952039 8.1e-05 25_[+1]_47 chr19:5791339-5791419 8.1e-05 36_[+1]_36 chrX:134654601-134654681 0.00011 65_[+1]_7 chr10:94589085-94589165 0.00011 46_[+1]_26 chr15:76628740-76628820 0.00011 12_[+1]_60 chr6:31628384-31628464 0.00012 33_[+1]_39 chr2:187454779-187454859 0.00012 46_[+1]_26 chr1:100828467-100828547 0.00016 4_[+1]_68 chr8:99129299-99129379 0.00016 55_[+1]_17 chr11:65222758-65222838 0.00016 36_[+1]_36 chr9:74526029-74526109 0.00019 11_[+1]_61 chr9:114658851-114658931 0.00019 48_[+1]_24 chr12:58335411-58335491 0.00019 42_[+1]_30 chr9:130590728-130590808 0.00019 15_[+1]_57 chr7:139227328-139227408 0.00019 26_[+1]_46 chr6:159239150-159239230 0.00021 56_[+1]_16 chr6:26020685-26020765 0.00021 43_[+1]_29 chr17:6843644-6843724 0.00027 14_[+1]_58 chrX:23801302-23801382 0.00027 65_[+1]_7 chr17:76183425-76183505 0.00027 70_[+1]_2 chr1:156084529-156084609 0.00027 57_[+1]_15 chr10:74036323-74036403 0.0003 1_[+1]_71 chr5:112043305-112043385 0.0003 61_[+1]_11 chr8:48173286-48173366 0.0003 47_[+1]_25 chr16:48399714-48399794 0.0003 44_[+1]_28 chr17:27188915-27188995 0.0003 19_[+1]_53 chr19:3670434-3670514 0.00033 31_[+1]_41 chrX:53111552-53111632 0.00037 8_[+1]_64 chr5:176074083-176074163 0.00037 35_[+1]_37 chr6:52529204-52529284 0.00037 69_[+1]_3 chr8:74791286-74791366 0.00037 41_[+1]_31 chr8:101734255-101734335 0.00042 51_[+1]_21 chr20:43976965-43977045 0.00042 72_[+1] chr10:104195539-10419561 0.00042 13_[+1]_59 chr16:11891395-11891475 0.00045 2_[+1]_70 chr1:173991655-173991735 0.00045 37_[+1]_35 chr11:64864054-64864134 0.00048 2_[+1]_70 chr7:134896165-134896245 0.00048 37_[+1]_35 chr5:137667377-137667457 0.00054 5_[+1]_67 chr12:56497916-56497996 0.00054 4_[+1]_68 chr11:64937703-64937783 0.00054 44_[+1]_28 chr13:111367622-11136770 0.00056 9_[+1]_63 chr15:81282071-81282151 0.0006 18_[+1]_54 chr10:60094749-60094829 0.0006 50_[+1]_22 chr19:18175906-18175986 0.0006 12_[+1]_60 chr3:137893633-137893713 0.00065 14_[+1]_58 chr9:19049225-19049305 0.00065 9_[+1]_63 chr1:40204574-40204654 0.0007 30_[+1]_42 chrX:41193411-41193491 0.00072 39_[+1]_33 chr6:36515125-36515205 0.00078 40_[+1]_32 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RGAGVARR width=8 seqs=63 chr7:119547361-119547441 ( 57) AGAGAAAA 1 chr16:15670697-15670777 ( 37) AGAGAAAA 1 chr17:41393362-41393442 ( 25) GGAGAAAA 1 chr17:40575183-40575263 ( 43) AGAGGAAA 1 chr5:43313430-43313510 ( 49) AGAGGAAA 1 chr9:130186266-130186346 ( 46) AGAGGAAA 1 chr1:23885906-23885986 ( 45) AAAGAAAA 1 chr1:161391927-161392007 ( 57) TGAGAAAA 1 chr15:62682558-62682638 ( 32) GGAGGAAA 1 chr1:153599900-153599980 ( 9) GAAGAAAA 1 chr12:69004392-69004472 ( 47) AGAGAAGA 1 chr17:5522661-5522741 ( 73) AGAGAAGA 1 chr8:82598465-82598545 ( 1) TGAGGAAA 1 chr6:42951959-42952039 ( 26) GAAGGAAA 1 chr19:5791339-5791419 ( 37) TGAGGAAA 1 chrX:134654601-134654681 ( 66) AGAGGAAG 1 chr10:94589085-94589165 ( 47) AGAGGAAG 1 chr15:76628740-76628820 ( 13) AGAGGAAG 1 chr6:31628384-31628464 ( 34) GAAGCAAA 1 chr2:187454779-187454859 ( 47) GAAGCAAA 1 chr1:100828467-100828547 ( 5) AGAGGAGA 1 chr8:99129299-99129379 ( 56) GGAGAAGA 1 chr11:65222758-65222838 ( 37) AGAGCAAG 1 chr9:74526029-74526109 ( 12) GGAGGAAG 1 chr9:114658851-114658931 ( 49) GGAGGAAG 1 chr12:58335411-58335491 ( 43) GGAGGAAG 1 chr9:130590728-130590808 ( 16) GGAGGAAG 1 chr7:139227328-139227408 ( 27) GAAGAAAG 1 chr6:159239150-159239230 ( 57) AGAGCAGA 1 chr6:26020685-26020765 ( 44) TAAGCAAA 1 chr17:6843644-6843724 ( 15) AAAGCAAG 1 chrX:23801302-23801382 ( 66) TGAGAAGA 1 chr17:76183425-76183505 ( 71) GAAGAAGA 1 chr1:156084529-156084609 ( 58) GGAGCAAG 1 chr10:74036323-74036403 ( 2) GAAGGAAG 1 chr5:112043305-112043385 ( 62) TGAGGAAG 1 chr8:48173286-48173366 ( 48) GAAGGAAG 1 chr16:48399714-48399794 ( 45) GAAGGAAG 1 chr17:27188915-27188995 ( 20) AGAGAAGG 1 chr19:3670434-3670514 ( 32) GGAGCAGA 1 chrX:53111552-53111632 ( 9) TGAGGAGA 1 chr5:176074083-176074163 ( 36) GAAGCAAG 1 chr6:52529204-52529284 ( 70) GAAGCAAG 1 chr8:74791286-74791366 ( 42) TGAGGAGA 1 chr8:101734255-101734335 ( 52) GGAGAAGG 1 chr20:43976965-43977045 ( 73) GGAGAAGG 1 chr10:104195539-10419561 ( 14) AGAGGAGG 1 chr16:11891395-11891475 ( 3) TGAGCAGA 1 chr1:173991655-173991735 ( 38) TGAGCAGA 1 chr11:64864054-64864134 ( 3) AGAGCAGG 1 chr7:134896165-134896245 ( 38) AGAGCAGG 1 chr5:137667377-137667457 ( 6) AAAGGAGG 1 chr12:56497916-56497996 ( 5) GAAGAAGG 1 chr11:64937703-64937783 ( 45) GGAGGAGG 1 chr13:111367622-11136770 ( 10) AAAAAAAA 1 chr15:81282071-81282151 ( 19) AAAGCAGG 1 chr10:60094749-60094829 ( 51) GGAGCAGG 1 chr19:18175906-18175986 ( 13) GGAGCAGG 1 chr3:137893633-137893713 ( 15) TGAGGAGG 1 chr9:19049225-19049305 ( 10) AGAACAAA 1 chr1:40204574-40204654 ( 31) TGAGCAGG 1 chrX:41193411-41193491 ( 40) GGAACAAA 1 chr6:36515125-36515205 ( 41) GGAAAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.48684 E= 1.4e-001 104 -1262 46 11 69 -1262 115 -1262 250 -1262 -1262 -1262 -148 -1262 154 -1262 69 -3 30 -1262 250 -1262 -1262 -1262 169 -1262 41 -1262 152 -1262 61 -1262 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 63 E= 1.4e-001 0.365079 0.000000 0.444444 0.190476 0.285714 0.000000 0.714286 0.000000 1.000000 0.000000 0.000000 0.000000 0.063492 0.000000 0.936508 0.000000 0.285714 0.317460 0.396825 0.000000 1.000000 0.000000 0.000000 0.000000 0.571429 0.000000 0.428571 0.000000 0.507937 0.000000 0.492063 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGAGVARR MEME-1 regular expression -------------------------------------------------------------------------------- [GA][GA]AG[GCA]A[AG][AG] -------------------------------------------------------------------------------- Time 4.80 secs. ******************************************************************************** ******************************************************************************** MOTIF TGCTGYTB MEME-2 width = 8 sites = 29 llr = 248 E-value = 3.4e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C ::7:17:4 probability G :a3:9::2 matrix T a::a:3a3 bits 2.5 * * * 2.2 * * * 2.0 * * * 1.7 ** * * Relative 1.5 ** * * Entropy 1.2 ** * * (12.3 bits) 1.0 ** **** 0.7 ******* 0.5 ******* 0.2 ******** 0.0 -------- Multilevel TGCTGCTC consensus G T T sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr12:92028715-92028795 56 1.65e-05 taaatctttc tgctgctt gctctttggg chr20:30795735-30795815 56 1.65e-05 TCTTTCCTGC TGCTGCTT CTGCCGCTCC chr6:107780634-107780714 18 1.65e-05 GAACTTTAAC TGCTGCTT TCTGCAGCCC chr11:59314433-59314513 73 1.65e-05 CCCAAAACTA TGCTGTTT chr6:26020685-26020765 18 1.65e-05 TGTTCCGCTG TGCTGTTT TTCCGTCATG chr2:64067893-64067973 32 4.68e-05 CCGCCGTAAG TGCTGCTC CCACGCGCGG chr5:90679050-90679130 39 4.68e-05 CAGCAGAGGC TGCTGCTC CGCGCTCCCG chr8:125827686-125827766 40 4.68e-05 TGCTTTCCTC TGCTGCTC CAGACAAAGG chr2:48133522-48133602 63 4.68e-05 CTGCTTCTGC TGCTGCTC CGTGGCAGGA chr5:112043305-112043385 30 4.68e-05 GTTGGCTCGA TGCTGTTC CCAGGTACTG chr11:65194605-65194685 54 4.68e-05 GTCCTTGCAC TGCTGTTC TGTGTTACCT chr6:99968966-99969046 1 4.68e-05 . TGCTGCTC GAGACTGCGC chr9:131580774-131580854 21 4.68e-05 GGTTGGGCTC TGCTGCTC CCTTCTGGGT chr19:18175906-18175986 29 4.68e-05 ggacttctgc tgctgctc tacacggcca chr2:60983422-60983502 26 9.32e-05 GCCGGTTTTG TGGTGTTT TCACTACTCG chr3:15643518-15643598 41 9.32e-05 GTTTGTGCGT TGCTGCTG TGCTACCGCG chrX:23801302-23801382 13 9.32e-05 GCGGGCCGAC TGGTGTTT ATCCGTCACT chr12:133707221-13370730 59 9.32e-05 GTTTTGCTGT TGCTGCTG CCTTTGTGAC chr8:99956673-99956753 39 9.32e-05 TCGGCGTGCT TGCTGCTG GAGGGTGATG chr2:131862918-131862998 29 1.23e-04 CGTGGCGTCT TGGTGTTC TCCACGCTGG chr11:66360665-66360745 14 1.23e-04 CCGCGCTGGT TGGTGCTC CTGCGCCGGA chr3:193853941-193854021 12 1.53e-04 GATCCGGAGC TGGTGCTG ATAACAGCGG chr15:83349296-83349376 55 1.53e-04 AGCAGGGGTT TGGTGTTG CGCAGCAGCA chr14:90863349-90863429 29 1.53e-04 GCTCCGGCAG TGGTGCTG GGAGTGTCGT chr2:27851937-27852017 56 1.53e-04 GTGTGTCTGT TGGTGTTG GGAATGGCGG chr18:3297352-3297432 66 1.70e-04 cacctggctt tgctcctt cacttgc chr19:4539973-4540053 61 1.70e-04 ATGGTAGCTC TGCTCTTT TGCTTCTGGG chr6:126307677-126307757 51 2.00e-04 AACAGGTATC TGCTCCTC ATGGCGCAGG chr12:6643687-6643767 2 2.00e-04 C TGCTCCTC CTGTTCGACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:92028715-92028795 1.7e-05 55_[+2]_17 chr20:30795735-30795815 1.7e-05 55_[+2]_17 chr6:107780634-107780714 1.7e-05 17_[+2]_55 chr11:59314433-59314513 1.7e-05 72_[+2] chr6:26020685-26020765 1.7e-05 17_[+2]_55 chr2:64067893-64067973 4.7e-05 31_[+2]_41 chr5:90679050-90679130 4.7e-05 38_[+2]_34 chr8:125827686-125827766 4.7e-05 39_[+2]_33 chr2:48133522-48133602 4.7e-05 62_[+2]_10 chr5:112043305-112043385 4.7e-05 29_[+2]_43 chr11:65194605-65194685 4.7e-05 53_[+2]_19 chr6:99968966-99969046 4.7e-05 [+2]_72 chr9:131580774-131580854 4.7e-05 20_[+2]_52 chr19:18175906-18175986 4.7e-05 28_[+2]_44 chr2:60983422-60983502 9.3e-05 25_[+2]_47 chr3:15643518-15643598 9.3e-05 40_[+2]_32 chrX:23801302-23801382 9.3e-05 12_[+2]_60 chr12:133707221-13370730 9.3e-05 58_[+2]_14 chr8:99956673-99956753 9.3e-05 38_[+2]_34 chr2:131862918-131862998 0.00012 28_[+2]_44 chr11:66360665-66360745 0.00012 13_[+2]_59 chr3:193853941-193854021 0.00015 11_[+2]_61 chr15:83349296-83349376 0.00015 54_[+2]_18 chr14:90863349-90863429 0.00015 28_[+2]_44 chr2:27851937-27852017 0.00015 55_[+2]_17 chr18:3297352-3297432 0.00017 65_[+2]_7 chr19:4539973-4540053 0.00017 60_[+2]_12 chr6:126307677-126307757 0.0002 50_[+2]_22 chr12:6643687-6643767 0.0002 1_[+2]_71 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGCTGYTB width=8 seqs=29 chr12:92028715-92028795 ( 56) TGCTGCTT 1 chr20:30795735-30795815 ( 56) TGCTGCTT 1 chr6:107780634-107780714 ( 18) TGCTGCTT 1 chr11:59314433-59314513 ( 73) TGCTGTTT 1 chr6:26020685-26020765 ( 18) TGCTGTTT 1 chr2:64067893-64067973 ( 32) TGCTGCTC 1 chr5:90679050-90679130 ( 39) TGCTGCTC 1 chr8:125827686-125827766 ( 40) TGCTGCTC 1 chr2:48133522-48133602 ( 63) TGCTGCTC 1 chr5:112043305-112043385 ( 30) TGCTGTTC 1 chr11:65194605-65194685 ( 54) TGCTGTTC 1 chr6:99968966-99969046 ( 1) TGCTGCTC 1 chr9:131580774-131580854 ( 21) TGCTGCTC 1 chr19:18175906-18175986 ( 29) TGCTGCTC 1 chr2:60983422-60983502 ( 26) TGGTGTTT 1 chr3:15643518-15643598 ( 41) TGCTGCTG 1 chrX:23801302-23801382 ( 13) TGGTGTTT 1 chr12:133707221-13370730 ( 59) TGCTGCTG 1 chr8:99956673-99956753 ( 39) TGCTGCTG 1 chr2:131862918-131862998 ( 29) TGGTGTTC 1 chr11:66360665-66360745 ( 14) TGGTGCTC 1 chr3:193853941-193854021 ( 12) TGGTGCTG 1 chr15:83349296-83349376 ( 55) TGGTGTTG 1 chr14:90863349-90863429 ( 29) TGGTGCTG 1 chr2:27851937-27852017 ( 56) TGGTGTTG 1 chr18:3297352-3297432 ( 66) TGCTCCTT 1 chr19:4539973-4540053 ( 61) TGCTCTTT 1 chr6:126307677-126307757 ( 51) TGCTCCTC 1 chr12:6643687-6643767 ( 2) TGCTCCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.2675 E= 3.4e+001 -1150 -1150 -1150 250 -1150 -1150 163 -1150 -1150 116 -22 -1150 -1150 -1150 -1150 250 -1150 -123 142 -1150 -1150 102 -1150 96 -1150 -1150 -1150 250 -1150 47 -42 81 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 29 E= 3.4e+001 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.724138 0.275862 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.137931 0.862069 0.000000 0.000000 0.655172 0.000000 0.344828 0.000000 0.000000 0.000000 1.000000 0.000000 0.448276 0.241379 0.310345 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGYTB MEME-2 regular expression -------------------------------------------------------------------------------- TG[CG]TG[CT]T[CTG] -------------------------------------------------------------------------------- Time 8.36 secs. ******************************************************************************** ******************************************************************************** MOTIF CAGCAGCA MEME-3 width = 8 sites = 17 llr = 158 E-value = 1.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 Description -------------------------------------------------------------------------------- Simplified A :a1:9:19 pos.-specific C 9::a::9: probability G ::9::9:: matrix T 1:::11:1 bits 2.5 * 2.2 * * 2.0 * * * 1.7 * ** * Relative 1.5 * ** * Entropy 1.2 ******** (13.4 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAGCAGCA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr15:83349296-83349376 65 1.96e-05 TGGTGTTGCG CAGCAGCA GCCGGTGG chr16:74640904-74640984 26 1.96e-05 CCGCGAATAG CAGCAGCA GATGCAGCGC chr2:103353238-103353318 57 1.96e-05 GGGTCGGACG CAGCAGCA GCCGCGGACC chr6:159239150-159239230 22 1.96e-05 CACGACTATC CAGCAGCA GCGAAGACGC chr6:42713722-42713802 59 1.96e-05 CCGGTCCTGA CAGCAGCA GCGGAGCAAC chr15:30114539-30114619 5 1.96e-05 CCGT CAGCAGCA CCCGTGGCCT chr12:8088699-8088779 23 1.96e-05 ATGTCCTTCT CAGCAGCA AGTTTTCTCC chr20:43976965-43977045 27 1.96e-05 CTACGAAGAA CAGCAGCA GCGCGAACAG chr1:11856527-11856607 52 4.10e-05 TTGCACCTTC CAACAGCA CAGCACAGCC chr7:119547361-119547441 49 4.10e-05 tcttccatgg tagcagca agagaaaatg chr1:202777472-202777552 56 4.10e-05 GCGGCTCGAG CAACAGCA AGTCCGAGTT chr6:89790470-89790550 53 4.10e-05 CAGGCTCTCC TAGCAGCA TCCATCGCCG chr1:6067452-6067532 57 6.05e-05 GAAGCCGAGG CAGCAGCT TGGAGCCAGA chr17:7590738-7590818 28 6.05e-05 CCCCGGAGCC CAGCAGCT ACCTGCTCCC chr15:62682558-62682638 15 8.20e-05 CGGACCCTTT CAGCATCA CCACGCGTGG chrX:134654601-134654681 57 8.20e-05 GTAGTGGTGG CAGCAGAA GAGAGGAAGG chr6:126307677-126307757 12 1.07e-04 GCACGGTGGG CAGCTGCA ATGGCGCTGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr15:83349296-83349376 2e-05 64_[+3]_8 chr16:74640904-74640984 2e-05 25_[+3]_47 chr2:103353238-103353318 2e-05 56_[+3]_16 chr6:159239150-159239230 2e-05 21_[+3]_51 chr6:42713722-42713802 2e-05 58_[+3]_14 chr15:30114539-30114619 2e-05 4_[+3]_68 chr12:8088699-8088779 2e-05 22_[+3]_50 chr20:43976965-43977045 2e-05 26_[+3]_46 chr1:11856527-11856607 4.1e-05 51_[+3]_21 chr7:119547361-119547441 4.1e-05 48_[+3]_24 chr1:202777472-202777552 4.1e-05 55_[+3]_17 chr6:89790470-89790550 4.1e-05 52_[+3]_20 chr1:6067452-6067532 6.1e-05 56_[+3]_16 chr17:7590738-7590818 6.1e-05 27_[+3]_45 chr15:62682558-62682638 8.2e-05 14_[+3]_58 chrX:134654601-134654681 8.2e-05 56_[+3]_16 chr6:126307677-126307757 0.00011 11_[+3]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGCAGCA width=8 seqs=17 chr15:83349296-83349376 ( 65) CAGCAGCA 1 chr16:74640904-74640984 ( 26) CAGCAGCA 1 chr2:103353238-103353318 ( 57) CAGCAGCA 1 chr6:159239150-159239230 ( 22) CAGCAGCA 1 chr6:42713722-42713802 ( 59) CAGCAGCA 1 chr15:30114539-30114619 ( 5) CAGCAGCA 1 chr12:8088699-8088779 ( 23) CAGCAGCA 1 chr20:43976965-43977045 ( 27) CAGCAGCA 1 chr1:11856527-11856607 ( 52) CAACAGCA 1 chr7:119547361-119547441 ( 49) TAGCAGCA 1 chr1:202777472-202777552 ( 56) CAACAGCA 1 chr6:89790470-89790550 ( 53) TAGCAGCA 1 chr1:6067452-6067532 ( 57) CAGCAGCT 1 chr17:7590738-7590818 ( 28) CAGCAGCT 1 chr15:62682558-62682638 ( 15) CAGCATCA 1 chrX:134654601-134654681 ( 57) CAGCAGAA 1 chr6:126307677-126307757 ( 12) CAGCTGCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8621 E= 1.4e+003 -1073 145 -1073 -59 250 -1073 -1073 -1073 -59 -1073 145 -1073 -1073 163 -1073 -1073 241 -1073 -1073 -159 -1073 -1073 155 -159 -159 154 -1073 -1073 231 -1073 -1073 -59 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 17 E= 1.4e+003 0.000000 0.882353 0.000000 0.117647 1.000000 0.000000 0.000000 0.000000 0.117647 0.000000 0.882353 0.000000 0.000000 1.000000 0.000000 0.000000 0.941176 0.000000 0.000000 0.058824 0.000000 0.000000 0.941176 0.058824 0.058824 0.941176 0.000000 0.000000 0.882353 0.000000 0.000000 0.117647 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCA MEME-3 regular expression -------------------------------------------------------------------------------- CAGCAGCA -------------------------------------------------------------------------------- Time 11.86 secs. ******************************************************************************** ******************************************************************************** MOTIF AAAGTCTT MEME-4 width = 8 sites = 2 llr = 25 E-value = 1.4e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 Description -------------------------------------------------------------------------------- Simplified A aaa::::: pos.-specific C :::::a:: probability G :::a:::: matrix T ::::a:aa bits 2.5 *** * ** 2.2 *** * ** 2.0 *** * ** 1.7 ******** Relative 1.5 ******** Entropy 1.2 ******** (18.2 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AAAGTCTT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr12:9913413-9913493 55 3.21e-06 AGCTACAGTG AAAGTCTT TGCTGGAGCT chr12:8088699-8088779 60 3.21e-06 GGAAGGATCC AAAGTCTT ACCATTACAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:9913413-9913493 3.2e-06 54_[+4]_18 chr12:8088699-8088779 3.2e-06 59_[+4]_13 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAGTCTT width=8 seqs=2 chr12:9913413-9913493 ( 55) AAAGTCTT 1 chr12:8088699-8088779 ( 60) AAAGTCTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.3073 E= 1.4e+005 249 -765 -765 -765 249 -765 -765 -765 249 -765 -765 -765 -765 -765 163 -765 -765 -765 -765 249 -765 162 -765 -765 -765 -765 -765 249 -765 -765 -765 249 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.4e+005 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAGTCTT MEME-4 regular expression -------------------------------------------------------------------------------- AAAGTCTT -------------------------------------------------------------------------------- Time 15.35 secs. ******************************************************************************** ******************************************************************************** MOTIF CAAAAGAA MEME-5 width = 8 sites = 2 llr = 25 E-value = 1.4e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :aaaa:aa pos.-specific C a::::::: probability G :::::a:: matrix T :::::::: bits 2.5 **** ** 2.2 **** ** 2.0 **** ** 1.7 ******** Relative 1.5 ******** Entropy 1.2 ******** (18.2 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAAAAGAA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:23885906-23885986 54 3.21e-06 GAAAGAAAAC CAAAAGAA GTCCCGCTAC chr16:15670697-15670777 29 3.21e-06 gtttaatagg caaaagaa agagaaaagg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:23885906-23885986 3.2e-06 53_[+5]_19 chr16:15670697-15670777 3.2e-06 28_[+5]_44 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAAAAGAA width=8 seqs=2 chr1:23885906-23885986 ( 54) CAAAAGAA 1 chr16:15670697-15670777 ( 29) CAAAAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.3073 E= 1.4e+005 -765 162 -765 -765 249 -765 -765 -765 249 -765 -765 -765 249 -765 -765 -765 249 -765 -765 -765 -765 -765 163 -765 249 -765 -765 -765 249 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.4e+005 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAAAAGAA MEME-5 regular expression -------------------------------------------------------------------------------- CAAAAGAA -------------------------------------------------------------------------------- Time 18.82 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr14:34420168-34420248 9.28e-01 80 chr1:153599900-153599980 2.42e-02 8_[+1(4.25e-05)]_64 chr7:139227129-139227209 8.60e-01 80 chr17:27188915-27188995 3.52e-02 80 chr15:41221548-41221628 7.57e-01 80 chr10:126107430-12610751 8.09e-01 80 chr12:49259556-49259636 7.54e-01 80 chrX:151143052-151143132 5.70e-01 80 chr10:104195539-10419561 4.13e-01 80 chr16:4421840-4421920 8.20e-01 80 chr6:36515125-36515205 1.81e-02 80 chr1:36772727-36772807 3.08e-01 80 chr19:3670434-3670514 4.35e-02 80 chr18:57567230-57567310 8.77e-01 80 chr2:30454398-30454478 8.52e-01 80 chr17:11900941-11901021 8.46e-01 80 chr20:43976965-43977045 1.15e-02 26_[+3(1.96e-05)]_46 chr16:48399714-48399794 1.03e-01 80 chr12:27091442-27091522 9.28e-01 80 chr7:1498991-1499071 9.72e-01 80 chr11:2950553-2950633 8.90e-01 80 chr22:21996244-21996324 9.52e-01 80 chr7:139227328-139227408 1.08e-01 80 chr9:131038564-131038644 8.19e-01 80 chr6:134495917-134495997 6.59e-02 80 chr13:111367622-11136770 1.53e-03 6_[+5(1.67e-05)]_66 chr22:37595315-37595395 9.81e-01 80 chr17:79008964-79009044 7.08e-01 80 chr19:45971237-45971317 1.91e-01 80 chr19:18175906-18175986 4.15e-04 28_[+2(4.68e-05)]_44 chr12:6579765-6579845 6.03e-01 80 chr20:57464216-57464296 9.88e-01 80 chr11:64879359-64879439 1.93e-01 80 chr11:66360665-66360745 7.29e-02 80 chr7:134896165-134896245 1.72e-01 80 chr11:34938211-34938291 5.59e-01 80 chr15:76628740-76628820 2.92e-02 80 chr10:3214870-3214950 8.96e-01 80 chr9:131580774-131580854 3.49e-02 20_[+2(4.68e-05)]_52 chr7:155437018-155437098 6.98e-01 80 chr6:99968966-99969046 3.22e-01 [+2(4.68e-05)]_72 chr4:174292120-174292200 6.00e-01 80 chr12:112820310-11282039 1.00e+00 80 chr3:194406611-194406691 4.20e-01 80 chr1:156084529-156084609 1.23e-01 80 chr11:65222758-65222838 1.30e-02 80 chrX:153599506-153599586 6.00e-01 80 chr12:8088699-8088779 5.88e-05 22_[+3(1.96e-05)]_29_[+4(3.21e-06)]_\ 13 chrX:41193411-41193491 1.51e-01 80 chr22:43411384-43411464 2.40e-01 80 chr9:130590728-130590808 2.71e-01 80 chr11:64937703-64937783 1.91e-01 80 chr1:26362043-26362123 1.16e-01 80 chr19:11805690-11805770 3.29e-01 80 chr19:40931826-40931906 6.74e-01 80 chr2:97303603-97303683 9.46e-01 80 chr14:31889671-31889751 6.81e-01 80 chr1:70876945-70877025 6.36e-01 80 chr15:41624680-41624760 1.78e-01 80 chr11:842444-842524 2.98e-01 80 chr6:89790470-89790550 6.65e-02 52_[+3(4.10e-05)]_20 chr6:26020685-26020765 6.45e-04 17_[+2(1.65e-05)]_55 chr15:102264513-10226459 5.70e-01 80 chr8:37756911-37756991 4.84e-01 80 chr12:56497916-56497996 8.29e-02 80 chr11:65194605-65194685 1.85e-01 53_[+2(4.68e-05)]_19 chr14:81687118-81687198 8.75e-01 80 chr12:6643687-6643767 7.32e-03 80 chr8:99956673-99956753 1.59e-01 38_[+2(9.32e-05)]_34 chr14:20937569-20937649 6.08e-01 80 chr12:58335411-58335491 2.57e-01 80 chr8:11725494-11725574 8.47e-01 80 chr13:22615102-22615182 5.07e-02 80 chr6:26250773-26250853 1.77e-01 80 chr11:2906894-2906974 9.75e-01 80 chr20:5986723-5986803 1.31e-01 80 chr19:40502772-40502852 8.80e-01 80 chr16:14726517-14726597 1.64e-01 80 chr14:102553301-10255338 3.79e-01 80 chr15:30114539-30114619 1.16e-01 4_[+3(1.96e-05)]_68 chr6:27798572-27798652 7.03e-01 80 chr4:173077190-173077270 2.35e-01 80 chr15:75182414-75182494 9.53e-01 80 chr16:15670697-15670777 2.28e-05 28_[+5(3.21e-06)]_[+1(3.19e-06)]_36 chr9:19049225-19049305 8.61e-04 80 chrX:12993258-12993338 9.86e-01 80 chr3:129035062-129035142 8.63e-01 80 chr8:74791286-74791366 2.83e-01 80 chr9:101836678-101836758 5.45e-01 80 chr7:77166091-77166171 3.92e-02 80 chr20:43104504-43104584 9.97e-01 80 chr9:114658851-114658931 2.93e-01 80 chr16:69563692-69563772 2.28e-01 80 chr20:48599533-48599613 6.46e-01 80 chr1:176176503-176176583 7.63e-01 80 chr17:76183425-76183505 1.33e-01 80 chr1:43232952-43233032 4.52e-01 80 chr1:47069816-47069896 7.38e-01 80 chr6:42713722-42713802 1.90e-02 58_[+3(1.96e-05)]_14 chr12:133707221-13370730 2.36e-01 52_[+2(9.32e-05)]_20 chr3:28282867-28282947 8.42e-02 80 chr1:173991655-173991735 6.74e-03 80 chrX:23801302-23801382 1.83e-02 12_[+2(9.32e-05)]_60 chr1:23885906-23885986 4.08e-05 44_[+1(1.65e-05)]_1_[+5(3.21e-06)]_\ 19 chr16:11349866-11349946 1.00e+00 80 chr4:120133851-120133931 6.79e-01 80 chr1:156391470-156391550 7.10e-01 80 chr6:52529204-52529284 2.25e-02 80 chr5:137805897-137805977 8.52e-01 80 chr10:94589085-94589165 1.69e-02 80 chr11:59314433-59314513 4.80e-03 72_[+2(1.65e-05)] chr2:223725736-223725816 2.52e-01 80 chr16:89989762-89989842 9.49e-01 80 chr17:7590738-7590818 4.83e-03 27_[+3(6.05e-05)]_45 chr2:27851937-27852017 1.82e-01 80 chr11:64864054-64864134 1.41e-02 80 chrX:134654601-134654681 2.04e-03 56_[+3(8.20e-05)]_16 chr1:206680878-206680958 9.66e-01 80 chr19:5791339-5791419 3.38e-03 36_[+1(8.13e-05)]_36 chr15:72523443-72523523 6.16e-01 80 chr8:17941937-17942017 3.00e-01 80 chr1:189118896-189118976 4.94e-02 80 chr19:2476123-2476203 5.08e-01 80 chr8:48173286-48173366 3.03e-01 80 chr12:9913413-9913493 3.92e-03 54_[+4(3.21e-06)]_18 chr17:6843644-6843724 1.13e-02 80 chr3:195163616-195163696 9.90e-01 80 chr3:137893633-137893713 4.53e-01 80 chr5:114962071-114962151 5.45e-01 80 chr6:107780634-107780714 4.51e-04 17_[+2(1.65e-05)]_55 chr3:49058856-49058936 2.21e-01 80 chr6:159239150-159239230 1.69e-03 21_[+3(1.96e-05)]_51 chr9:139557404-139557484 8.79e-01 80 chr7:6617118-6617198 9.24e-01 80 chr7:142960596-142960676 2.53e-01 80 chr10:60094749-60094829 6.33e-01 80 chr8:101734255-101734335 4.17e-01 80 chr2:103353238-103353318 1.48e-01 56_[+3(1.96e-05)]_16 chr5:112043305-112043385 2.41e-02 29_[+2(4.68e-05)]_43 chr2:48133522-48133602 2.97e-03 62_[+2(4.68e-05)]_10 chr9:130186266-130186346 3.00e-02 45_[+1(1.65e-05)]_27 chr15:65134129-65134209 9.94e-01 80 chr19:11925114-11925194 7.54e-01 80 chr4:186064441-186064521 7.92e-01 80 chr13:52027083-52027163 3.82e-01 80 chr2:86426595-86426675 6.24e-02 80 chr8:99129299-99129379 1.08e-03 80 chr3:121468531-121468611 8.69e-01 80 chr2:187454779-187454859 9.10e-03 80 chr15:81282071-81282151 1.23e-01 80 chr15:62682558-62682638 1.15e-02 14_[+3(8.20e-05)]_9_[+1(4.25e-05)]_\ 41 chr6:42951959-42952039 1.59e-02 25_[+1(8.13e-05)]_47 chr5:56205891-56205971 6.78e-01 80 chr8:82598465-82598545 7.52e-03 [+1(8.13e-05)]_72 chr8:61193856-61193936 6.28e-01 80 chr5:137667377-137667457 2.82e-03 80 chr19:4539973-4540053 2.61e-02 80 chr15:50647710-50647790 2.52e-01 80 chr17:49021880-49021960 7.22e-01 80 chr5:176074083-176074163 6.63e-02 80 chr7:155089594-155089674 9.02e-01 80 chr1:68150877-68150957 8.79e-01 80 chr1:12079225-12079305 9.73e-01 80 chr2:32264949-32265029 8.17e-01 80 chr8:125827686-125827766 6.66e-04 39_[+2(4.68e-05)]_33 chr1:37940174-37940254 1.00e+00 80 chr5:43313430-43313510 4.27e-03 48_[+1(1.65e-05)]_24 chr17:72744780-72744860 3.71e-01 80 chr1:100828467-100828547 1.73e-02 80 chr19:49468878-49468958 7.86e-01 80 chr1:161391927-161392007 4.67e-04 56_[+1(4.25e-05)]_16 chr18:3297352-3297432 3.85e-01 80 chr3:15643518-15643598 2.57e-01 40_[+2(9.32e-05)]_32 chr2:173420492-173420572 1.00e+00 80 chr11:72525032-72525112 8.52e-01 80 chr9:74526029-74526109 3.25e-01 80 chr5:90679050-90679130 4.55e-03 38_[+2(4.68e-05)]_34 chr6:126307677-126307757 2.42e-02 80 chr5:162864240-162864320 5.23e-01 80 chr1:192778157-192778237 8.66e-03 80 chr16:2955324-2955404 3.31e-02 80 chr14:90863349-90863429 3.04e-01 80 chr10:71930501-71930581 5.23e-01 80 chr17:5522661-5522741 1.15e-01 72_[+1(8.13e-05)] chr16:74640904-74640984 1.86e-02 25_[+3(1.96e-05)]_47 chr15:89456527-89456607 7.89e-01 80 chr2:64067893-64067973 9.56e-02 31_[+2(4.68e-05)]_41 chr3:186284969-186285049 9.22e-01 80 chr17:40575183-40575263 2.39e-02 42_[+1(1.65e-05)]_30 chr12:27175491-27175571 5.92e-02 80 chr7:66093536-66093616 6.01e-01 80 chr1:59249642-59249722 4.06e-01 80 chr2:131862918-131862998 3.04e-01 80 chr3:182511057-182511137 7.33e-01 80 chr20:30795735-30795815 7.30e-02 55_[+2(1.65e-05)]_17 chr15:83349296-83349376 5.02e-03 64_[+3(1.96e-05)]_8 chr3:141944287-141944367 9.46e-01 80 chr17:75954435-75954515 9.87e-01 80 chr7:39988930-39989010 3.86e-01 80 chr19:39897502-39897582 9.98e-01 80 chrX:131157305-131157385 5.71e-01 80 chr20:8000292-8000372 5.34e-01 80 chr19:6531028-6531108 9.76e-01 80 chr2:8822189-8822269 8.50e-01 80 chr1:145470287-145470367 1.67e-01 80 chr6:160114192-160114272 3.70e-01 80 chr1:9294887-9294967 9.79e-01 80 chr14:36295821-36295901 8.56e-01 80 chr14:70233868-70233948 6.82e-01 80 chr15:74890845-74890925 1.05e-01 80 chr1:166808434-166808514 2.78e-01 80 chr18:29523378-29523458 8.23e-01 80 chr9:74980038-74980118 7.67e-01 80 chr3:193853941-193854021 1.20e-01 80 chr12:6976678-6976758 5.03e-01 80 chr4:127877217-127877297 5.09e-02 80 chr9:131940444-131940524 5.82e-01 80 chr10:74036323-74036403 3.99e-02 80 chr15:93443564-93443644 7.08e-01 80 chr1:40204574-40204654 5.10e-01 80 chr22:21213310-21213390 6.04e-01 80 chr1:32801740-32801820 5.35e-01 80 chr10:28966440-28966520 6.08e-01 80 chr9:36258620-36258700 4.94e-01 80 chr19:33793343-33793423 9.99e-01 80 chr3:49449664-49449744 2.10e-01 80 chr19:14247290-14247370 9.49e-01 80 chr16:11891395-11891475 1.27e-01 80 chr3:49066741-49066821 9.58e-01 80 chr1:202777472-202777552 1.74e-02 55_[+3(4.10e-05)]_17 chr2:101869009-101869089 6.18e-01 80 chr1:118148681-118148761 6.60e-01 80 chr2:60983422-60983502 6.17e-02 25_[+2(9.32e-05)]_47 chrX:53111552-53111632 1.24e-01 80 chr6:43445312-43445392 1.16e-01 80 chr17:41393362-41393442 1.41e-03 24_[+1(1.65e-05)]_48 chr7:43966180-43966260 7.40e-01 80 chrX:71496994-71497074 9.57e-02 80 chr12:69004392-69004472 2.53e-02 46_[+1(8.13e-05)]_26 chr1:35497206-35497286 6.75e-01 80 chr7:119547361-119547441 3.08e-06 48_[+3(4.10e-05)]_[+1(3.19e-06)]_16 chr5:132202337-132202417 7.32e-01 80 chr6:2903434-2903514 9.97e-01 80 chr6:29595700-29595780 3.29e-01 80 chr13:99852874-99852954 9.75e-01 80 chr1:6067452-6067532 6.57e-02 56_[+3(6.05e-05)]_16 chr12:92028715-92028795 4.56e-03 55_[+2(1.65e-05)]_17 chr11:67351283-67351363 4.40e-01 80 chr6:31628384-31628464 2.35e-01 80 chr1:11856527-11856607 2.90e-03 51_[+3(4.10e-05)]_21 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n10.farnam.hpc.yale.internal ********************************************************************************