******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.10.0 (Release date: Wed May 21 10:35:36 2014 +1000) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net. This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://meme.nbcr.net. ******************************************************************************** ******************************************************************************** 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 ******************************************************************************** DATAFILE= Static_Sex-independent_Output/seqs-sampled ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr1:155967746-155967846 1.0000 100 chr18:65373713-65373813 1.0000 100 chr7:75457972-75458072 1.0000 100 chr15:80629631-80629731 1.0000 100 chr2:167311074-167311174 1.0000 100 chr1:13668470-13668570 1.0000 100 chr11:121111451-12111155 1.0000 100 chrX:35819607-35819707 1.0000 100 chr5:151721045-151721145 1.0000 100 chr16:30961091-30961191 1.0000 100 chr15:102978146-10297824 1.0000 100 chr3:9821421-9821521 1.0000 100 chr11:52207942-52208042 1.0000 100 chr10:17667791-17667891 1.0000 100 chr9:57477593-57477693 1.0000 100 chr11:82594686-82594786 1.0000 100 chr3:62156705-62156805 1.0000 100 chr12:88236904-88237004 1.0000 100 chr6:143473584-143473684 1.0000 100 chr11:64282165-64282265 1.0000 100 chr4:33376971-33377071 1.0000 100 chr12:81250535-81250635 1.0000 100 chr1:39655531-39655631 1.0000 100 chr3:9920278-9920378 1.0000 100 chr9:20671260-20671360 1.0000 100 chr15:85562737-85562837 1.0000 100 chr8:54596997-54597097 1.0000 100 chr3:90300081-90300181 1.0000 100 chr17:15283449-15283549 1.0000 100 chr8:81821621-81821721 1.0000 100 chr5:39702433-39702533 1.0000 100 chr12:114370785-11437088 1.0000 100 chr9:72502774-72502874 1.0000 100 chr1:60714337-60714437 1.0000 100 chr10:126519608-12651970 1.0000 100 chr8:35221204-35221304 1.0000 100 chr11:6446502-6446602 1.0000 100 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chr1:21252679-21252779 1.0000 100 chr2:30997368-30997468 1.0000 100 chr1:174056728-174056828 1.0000 100 chrX:34443220-34443320 1.0000 100 chr6:29049540-29049640 1.0000 100 chr17:88789152-88789252 1.0000 100 chr10:79451758-79451858 1.0000 100 chr1:75432327-75432427 1.0000 100 chr12:76947024-76947124 1.0000 100 chr19:42221700-42221800 1.0000 100 chr7:122542936-122543036 1.0000 100 chr11:76267871-76267971 1.0000 100 chr11:90216731-90216831 1.0000 100 chr15:96506923-96507023 1.0000 100 chr6:42305874-42305974 1.0000 100 chr17:24609344-24609444 1.0000 100 chr16:23416571-23416671 1.0000 100 chr1:192751525-192751625 1.0000 100 chr9:45958204-45958304 1.0000 100 chr11:110346298-11034639 1.0000 100 chr8:124804014-124804114 1.0000 100 chr3:116667260-116667360 1.0000 100 chr15:78301656-78301756 1.0000 100 chr10:126953113-12695321 1.0000 100 chr2:5521625-5521725 1.0000 100 chr9:98085216-98085316 1.0000 100 chr18:47741061-47741161 1.0000 100 chr11:44357065-44357165 1.0000 100 chr2:51003453-51003553 1.0000 100 chr8:27100466-27100566 1.0000 100 chr4:102261201-102261301 1.0000 100 chr10:79627511-79627611 1.0000 100 chr14:33920107-33920207 1.0000 100 chr7:151950706-151950806 1.0000 100 chr6:108779035-108779135 1.0000 100 chr3:115344248-115344348 1.0000 100 chr11:19751078-19751178 1.0000 100 chr3:121824978-121825078 1.0000 100 chr7:99970332-99970432 1.0000 100 chr8:3608854-3608954 1.0000 100 chr8:98236695-98236795 1.0000 100 chr8:47482414-47482514 1.0000 100 chr14:32217090-32217190 1.0000 100 chr3:146254069-146254169 1.0000 100 chr13:40969413-40969513 1.0000 100 chr17:43366730-43366830 1.0000 100 chr1:153937399-153937499 1.0000 100 chr13:35832874-35832974 1.0000 100 chr6:100620395-100620495 1.0000 100 chr5:148241895-148241995 1.0000 100 chr2:172972246-172972346 1.0000 100 chr2:84314756-84314856 1.0000 100 chr16:23986144-23986244 1.0000 100 chr14:32248689-32248789 1.0000 100 chr6:142688909-142689009 1.0000 100 chr18:46564223-46564323 1.0000 100 chr7:30597844-30597944 1.0000 100 chr13:20222518-20222618 1.0000 100 chr6:17428012-17428112 1.0000 100 chr6:27607472-27607572 1.0000 100 chr14:47353797-47353897 1.0000 100 chr9:46015114-46015214 1.0000 100 chr10:80532581-80532681 1.0000 100 chr5:122952094-122952194 1.0000 100 chr19:3834209-3834309 1.0000 100 chr5:100007691-100007791 1.0000 100 chr18:76930828-76930928 1.0000 100 chr12:76573043-76573143 1.0000 100 chr5:102635886-102635986 1.0000 100 chr10:6822882-6822982 1.0000 100 chr19:4113157-4113257 1.0000 100 chr6:37779611-37779711 1.0000 100 chr1:173371551-173371651 1.0000 100 chr10:3077802-3077902 1.0000 100 chr13:78340693-78340793 1.0000 100 chr17:31460242-31460342 1.0000 100 chr16:91789954-91790054 1.0000 100 chr1:173157211-173157311 1.0000 100 chr2:30683603-30683703 1.0000 100 chr11:76400854-76400954 1.0000 100 chr5:74488839-74488939 1.0000 100 chr17:71736680-71736780 1.0000 100 chr7:135201292-135201392 1.0000 100 chr5:151865404-151865504 1.0000 100 chr19:40260628-40260728 1.0000 100 chr12:112664118-11266421 1.0000 100 chr5:142914302-142914402 1.0000 100 chr19:36843275-36843375 1.0000 100 chr2:18313961-18314061 1.0000 100 chr6:72573566-72573666 1.0000 100 chr5:99778903-99779003 1.0000 100 chr11:120538062-12053816 1.0000 100 chr1:192656913-192657013 1.0000 100 chr19:42675854-42675954 1.0000 100 chr16:56074583-56074683 1.0000 100 chr5:38869040-38869140 1.0000 100 chr8:11530561-11530661 1.0000 100 chr5:122163118-122163218 1.0000 100 chr9:50531106-50531206 1.0000 100 chr11:115956763-11595686 1.0000 100 chrX:73159174-73159274 1.0000 100 chr12:16842942-16843042 1.0000 100 chr2:84890027-84890127 1.0000 100 chr8:114025787-114025887 1.0000 100 chr5:118439161-118439261 1.0000 100 chr1:55144480-55144580 1.0000 100 chr18:35015835-35015935 1.0000 100 chr9:77778513-77778613 1.0000 100 chr13:34718882-34718982 1.0000 100 chr13:63018007-63018107 1.0000 100 chr2:9800984-9801084 1.0000 100 chr19:9019337-9019437 1.0000 100 chr5:66395994-66396094 1.0000 100 chr16:32657576-32657676 1.0000 100 chr1:145478437-145478537 1.0000 100 chr2:71291179-71291279 1.0000 100 chr16:10358085-10358185 1.0000 100 chr13:36625850-36625950 1.0000 100 chr13:70729176-70729276 1.0000 100 chr11:46104594-46104694 1.0000 100 chr16:13354443-13354543 1.0000 100 chr1:173206292-173206392 1.0000 100 chr13:73297736-73297836 1.0000 100 chr6:91245250-91245350 1.0000 100 chr3:30665087-30665187 1.0000 100 chr12:58529169-58529269 1.0000 100 chr6:100251544-100251644 1.0000 100 chr11:101329004-10132910 1.0000 100 chr6:5753139-5753239 1.0000 100 chr5:145020091-145020191 1.0000 100 chr2:25487723-25487823 1.0000 100 chr18:39525109-39525209 1.0000 100 chr7:50633532-50633632 1.0000 100 chr16:23218377-23218477 1.0000 100 chr7:53975574-53975674 1.0000 100 chr17:37084168-37084268 1.0000 100 chr1:35946567-35946667 1.0000 100 chr11:77289708-77289808 1.0000 100 chr11:100979430-10097953 1.0000 100 chr4:72712385-72712485 1.0000 100 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme Static_Sex-independent_Output/seqs-sampled -oc Static_Sex-independent_Output/meme_out -dna -mod anr -nmotifs 3 -minw 6 -maxw 30 -bfile Static_Sex-independent_Output/background -revcomp -nostatus model: mod= anr nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 6 maxw= 30 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 50 wnsites= 0.8 theta: prob= 1 spmap= uni spfuzz= 0.5 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 60000 N= 600 strands: + - sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.229 C 0.271 G 0.271 T 0.229 Background letter frequencies (from Static_Sex-independent_Output/background): A 0.241 C 0.259 G 0.259 T 0.241 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 29 sites = 48 llr = 605 E-value = 6.0e-016 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :::121:1:::3:1:1:111::11:::1: pos.-specific C 56847275558188537567386187457 probability G 4425172244132:442331423422442 matrix T 1::::1121113:112:1113::4:121: bits 2.1 1.8 1.6 1.4 Relative 1.2 * * Entropy 1.0 * ** * * * (18.2 bits) 0.8 * * * * ** * * ** * 0.6 ******* * *** * * ** ** * 0.4 ******* *** *** * ** ** ***** 0.2 *********** ***************** 0.0 ----------------------------- Multilevel CCCGCGCCCCCTCCCGCCCCGCCTCCGCC consensus GG C GGGG G GCGGG C GG CGG sequence A T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------------------------- chr19:46379912-46380012 + 44 1.33e-12 GTCATTTCCA GGCCCGCCCCCTCCGGCTCCGCCTCCCCC TGGTATTTTC chr5:122952094-122952194 + 35 2.74e-10 CGGCGCGGGC GGCGCGGCCCCGCCCCCTCCTCCGGCGCC CTCCCGCGCG chr1:58642873-58642973 + 11 2.76e-09 AGGCTTCCTA CCGCCACCGCCACCGCCACCGCCTCCCGC AGCAGCCTGC chr8:88078962-88079062 - 55 4.11e-09 CGCCTGCCTC CCCGCGCCGTCTCCTCGGCCTGCGCCGCC GCCGCTCGTG chr2:18313961-18314061 - 34 4.69e-09 TGACTGACAG GCGCCGTCCGCACCGCCCGCGCCACCCGC CACGTCTCCG chr6:120616807-120616907 - 41 6.07e-09 GCCGCCCCTG CCCGAGGCCGCTCCCGCCCCGCCGCTGTG GCCCCCGGCG chr2:118304999-118305099 + 28 1.01e-08 TCCGCTCCTC GCCCCGCCGCCTCACGGCCCCGGCCCGCC CGCAAAGGGA chr9:54407772-54407872 - 60 1.14e-08 CCGGCCCCCG CCCCCGCCTAGGCCCGCCCCGCCCCCGGC CCCGCCTTTG chr5:148241895-148241995 - 31 2.09e-08 ACTGTTCATG GCCACGCCGCAGCCGCGTCCCCCGCCGCC ACCATAGACG chr5:152489247-152489347 + 40 2.35e-08 CCCCCCACAA CCCCCACCCCCACCCACCCACCCACCCCC GCCTCAAAAA chrX:148578378-148578478 - 45 4.19e-08 ACCCAGCTCT CCCGACCCGCCCCCGCGCGCCCCACCTGC AGTCGCCACC chr6:108779035-108779135 + 3 5.25e-08 CC CGCGCGCTGCCTTCCGCCCCTCCGGGTCC CTGAGAACAC chr10:79819111-79819211 + 2 5.25e-08 A GCCCCGGTCCCGGCGGCGGCGGAGCCGCC AGCTTGTGGC chr8:88078962-88079062 - 14 5.25e-08 CGCTCGTGGT CCGGGTCGCGCTCCTTCCGCTCCGCCGCC TGCTTGCGAG chr9:64880228-64880328 + 11 5.87e-08 AGGTGCAGTA TCCGCCCGCTCTCCCTCCCCTGCGCCCGC GAGGCCACGG chr5:18732321-18732421 + 4 6.55e-08 TCC CCCAACGCTCCCCCCTCCCCGCCGCCCGC TTGCATCCTG chr5:122952094-122952194 + 68 9.10e-08 GGCGCCCTCC CGCGCGCGCGCACCGCGCGCCCACGCCGC CAGC chr1:94370183-94370283 - 70 1.13e-07 TC CGCCCCTTCCCTCTGGCCCCGCCCCGTCC CAGTTCCGGA chr1:55144480-55144580 - 56 1.55e-07 GAGCGGGGGG CGCGCGCGCGCACACGCGGGGCCGCGGGG CGGGGCGGGG chr5:40035663-40035763 - 56 1.90e-07 TCTCCCCGAG CTCCGGCCTCCACTGTCCCCTCCTCCGGC TCCTGCTCCT chr7:129210528-129210628 + 33 2.11e-07 GCTGCGAGCA GGCGATCTCCCAGACCCGCCCCCTCCGGC TGCGGGAATG chr16:18392498-18392598 - 6 3.49e-07 TGGACCGCAC TCCGCGGGCGCTCCGGCCGCTCCGGCTCT ACTGA chr4:106925937-106926037 - 13 4.24e-07 CCAACCCACT CCCGGCCCCGCCCCGCCACATGCCCCGCC CACTCCAGAT chr19:36628789-36628889 - 46 4.68e-07 CAGGCTCCGC CGCCCACCCCCTGCGTGCGCCCGGCTCGC GCCCTCGGCC chr2:160471572-160471672 + 17 4.68e-07 CAGTCTGTCA GTCGCGTCGCTACCGCCGCTGCCTCCTCC ACTGTCCCGG chr19:36628789-36628889 - 12 6.24e-07 CTCGCGCCCT CGGCCGCGCTCCGCTCCCGCGGGTCCGCC GGCCGGGGCT chr13:35832874-35832974 + 51 6.85e-07 CCACAATGTG CGGCCCCGCCCACCCCACCCGACTCCTCC CCTTCCTGCC chr7:25331837-25331937 - 35 7.53e-07 CTTAGCAACA GGCATTCCCCCTCCGGCCCCGCCTCTCTC AGGTTCCACC chr16:91546889-91546989 - 69 7.53e-07 ACA GCCCCGGTGACTCCGGCCACACCTCGCCG AGCCGACCTC chr13:78340693-78340793 - 53 8.27e-07 TCCTGCAAGG CCCGCGGCGGGACCCGCTCCTCCTGCCTA CCCCTCCTTT chr9:64880228-64880328 + 55 8.27e-07 CACGGAGCTC CGGCCGGCCGCCCTCGGGCCGCTCCCGCC GGGAGAGCGG chr19:46379912-46380012 + 3 8.27e-07 CC GCCCCTCCCGCTGCGGGGGCGTGGCCCCG GCGTCATTTC chr4:123088905-123089005 + 10 9.07e-07 CTCTCTCAC GCCGCGCGGCCCGCTCACACGCCGCTGGC TGGAAGTGCT chr14:56380981-56381081 + 21 2.03e-06 GGTCTGGCTG GCCGCCCTGGTGCTCGCCGTCCCGGCCGC GGTCTACCGC chr10:79819111-79819211 - 58 2.22e-06 CGATCAGCTT CCCGCGCCGGTACACGCGCCCCGAGCCTG GGTCGCGCAG chr10:80532581-80532681 + 56 2.42e-06 CAGCTGCCTT CGCGCGCACGCGCCTTCCTAGCGTGCTCG GAGCTCGCGG chr2:71291179-71291279 + 45 2.87e-06 ACATGGCGGC GCCCATCGGCGTCCCCCTGCTCGTCCGTG GAGGTAAGCG chr10:45297467-45297567 - 3 3.69e-06 CTGGGGTGGG CACCAGCCGCCGCCTCCGCTCGCTCGCGC CT chr6:120616807-120616907 - 8 3.69e-06 GCTGTGGCCC CCGGCGCGTGAGCCCGCATCGCGTCCCGG TCCCCGC chr5:148241895-148241995 + 71 5.13e-06 ATGAACAGTG GCGGCGGCGGTGGCCTCCCGCCGCCCTCG G chrX:34414033-34414133 + 44 5.13e-06 CGTAAGGCGT TCCCCGCACCCCCCCGCGCGTTCTCCCCA GGTTGGTTCG chrX:34414033-34414133 + 2 5.13e-06 C GCCCCGTGGCCGCCTTGGTACGGTCCGCC GGGCGTAAGG chr2:148506655-148506755 + 3 1.12e-05 GG GGCGCGCTCGTGGCGACCAATCCGCGGAC CCTGCGGTCC chr6:129483100-129483200 - 24 1.41e-05 AATCGCTCCA CCCGCGTCAGCTCCCACGCGCCAGTCGCC GCACTACGTG chr5:8996929-8997029 + 52 1.63e-05 ACGGAAAACC GCGAGGGTCCCGCCCTGTGCGCGTCGGGG AACGGGATTG chr2:119853031-119853131 - 53 3.56e-05 GTGCACTCAC CGCGAGCCGCCGCCGGGAACTCTTGCAAC GCCCTCCGAA chr17:31795477-31795577 + 39 5.69e-05 CGTCACCCGA CGCGACGACGCTCTCCCCACCCGTCGTAG CGACTCTGTC chr4:151383571-151383671 + 66 6.08e-05 ACTTCCAGGC GGCTCGCTACGACCGGCACGACCGCGGGC CCTGCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr19:46379912-46380012 8.3e-07 2_[+1]_12_[+1]_28 chr5:122952094-122952194 2.7e-10 34_[+1]_4_[+1]_4 chr1:58642873-58642973 2.8e-09 10_[+1]_61 chr8:88078962-88079062 5.2e-08 13_[-1]_12_[-1]_17 chr2:18313961-18314061 4.7e-09 33_[-1]_38 chr6:120616807-120616907 3.7e-06 7_[-1]_4_[-1]_31 chr2:118304999-118305099 1e-08 27_[+1]_44 chr9:54407772-54407872 1.1e-08 59_[-1]_12 chr5:148241895-148241995 5.1e-06 30_[-1]_11_[+1]_1 chr5:152489247-152489347 2.3e-08 39_[+1]_32 chrX:148578378-148578478 4.2e-08 44_[-1]_27 chr6:108779035-108779135 5.2e-08 2_[+1]_69 chr10:79819111-79819211 2.2e-06 1_[+1]_27_[-1]_14 chr9:64880228-64880328 5.9e-08 10_[+1]_15_[+1]_17 chr5:18732321-18732421 6.6e-08 3_[+1]_68 chr1:94370183-94370283 1.1e-07 69_[-1]_2 chr1:55144480-55144580 1.5e-07 55_[-1]_16 chr5:40035663-40035763 1.9e-07 55_[-1]_16 chr7:129210528-129210628 2.1e-07 32_[+1]_39 chr16:18392498-18392598 3.5e-07 5_[-1]_66 chr4:106925937-106926037 4.2e-07 12_[-1]_59 chr19:36628789-36628889 4.7e-07 11_[-1]_5_[-1]_26 chr2:160471572-160471672 4.7e-07 16_[+1]_55 chr13:35832874-35832974 6.9e-07 50_[+1]_21 chr7:25331837-25331937 7.5e-07 34_[-1]_37 chr16:91546889-91546989 7.5e-07 68_[-1]_3 chr13:78340693-78340793 8.3e-07 52_[-1]_19 chr4:123088905-123089005 9.1e-07 9_[+1]_62 chr14:56380981-56381081 2e-06 20_[+1]_51 chr10:80532581-80532681 2.4e-06 55_[+1]_16 chr2:71291179-71291279 2.9e-06 44_[+1]_27 chr10:45297467-45297567 3.7e-06 2_[-1]_69 chrX:34414033-34414133 5.1e-06 1_[+1]_13_[+1]_28 chr2:148506655-148506755 1.1e-05 2_[+1]_69 chr6:129483100-129483200 1.4e-05 23_[-1]_48 chr5:8996929-8997029 1.6e-05 51_[+1]_20 chr2:119853031-119853131 3.6e-05 52_[-1]_19 chr17:31795477-31795577 5.7e-05 38_[+1]_33 chr4:151383571-151383671 6.1e-05 65_[+1]_6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=29 seqs=48 chr19:46379912-46380012 ( 44) GGCCCGCCCCCTCCGGCTCCGCCTCCCCC 1 chr5:122952094-122952194 ( 35) GGCGCGGCCCCGCCCCCTCCTCCGGCGCC 1 chr1:58642873-58642973 ( 11) CCGCCACCGCCACCGCCACCGCCTCCCGC 1 chr8:88078962-88079062 ( 55) CCCGCGCCGTCTCCTCGGCCTGCGCCGCC 1 chr2:18313961-18314061 ( 34) GCGCCGTCCGCACCGCCCGCGCCACCCGC 1 chr6:120616807-120616907 ( 41) CCCGAGGCCGCTCCCGCCCCGCCGCTGTG 1 chr2:118304999-118305099 ( 28) GCCCCGCCGCCTCACGGCCCCGGCCCGCC 1 chr9:54407772-54407872 ( 60) CCCCCGCCTAGGCCCGCCCCGCCCCCGGC 1 chr5:148241895-148241995 ( 31) GCCACGCCGCAGCCGCGTCCCCCGCCGCC 1 chr5:152489247-152489347 ( 40) CCCCCACCCCCACCCACCCACCCACCCCC 1 chrX:148578378-148578478 ( 45) CCCGACCCGCCCCCGCGCGCCCCACCTGC 1 chr6:108779035-108779135 ( 3) CGCGCGCTGCCTTCCGCCCCTCCGGGTCC 1 chr10:79819111-79819211 ( 2) GCCCCGGTCCCGGCGGCGGCGGAGCCGCC 1 chr8:88078962-88079062 ( 14) CCGGGTCGCGCTCCTTCCGCTCCGCCGCC 1 chr9:64880228-64880328 ( 11) TCCGCCCGCTCTCCCTCCCCTGCGCCCGC 1 chr5:18732321-18732421 ( 4) CCCAACGCTCCCCCCTCCCCGCCGCCCGC 1 chr5:122952094-122952194 ( 68) CGCGCGCGCGCACCGCGCGCCCACGCCGC 1 chr1:94370183-94370283 ( 70) CGCCCCTTCCCTCTGGCCCCGCCCCGTCC 1 chr1:55144480-55144580 ( 56) CGCGCGCGCGCACACGCGGGGCCGCGGGG 1 chr5:40035663-40035763 ( 56) CTCCGGCCTCCACTGTCCCCTCCTCCGGC 1 chr7:129210528-129210628 ( 33) GGCGATCTCCCAGACCCGCCCCCTCCGGC 1 chr16:18392498-18392598 ( 6) TCCGCGGGCGCTCCGGCCGCTCCGGCTCT 1 chr4:106925937-106926037 ( 13) CCCGGCCCCGCCCCGCCACATGCCCCGCC 1 chr19:36628789-36628889 ( 46) CGCCCACCCCCTGCGTGCGCCCGGCTCGC 1 chr2:160471572-160471672 ( 17) GTCGCGTCGCTACCGCCGCTGCCTCCTCC 1 chr19:36628789-36628889 ( 12) CGGCCGCGCTCCGCTCCCGCGGGTCCGCC 1 chr13:35832874-35832974 ( 51) CGGCCCCGCCCACCCCACCCGACTCCTCC 1 chr7:25331837-25331937 ( 35) GGCATTCCCCCTCCGGCCCCGCCTCTCTC 1 chr16:91546889-91546989 ( 69) GCCCCGGTGACTCCGGCCACACCTCGCCG 1 chr13:78340693-78340793 ( 53) CCCGCGGCGGGACCCGCTCCTCCTGCCTA 1 chr9:64880228-64880328 ( 55) CGGCCGGCCGCCCTCGGGCCGCTCCCGCC 1 chr19:46379912-46380012 ( 3) GCCCCTCCCGCTGCGGGGGCGTGGCCCCG 1 chr4:123088905-123089005 ( 10) GCCGCGCGGCCCGCTCACACGCCGCTGGC 1 chr14:56380981-56381081 ( 21) GCCGCCCTGGTGCTCGCCGTCCCGGCCGC 1 chr10:79819111-79819211 ( 58) CCCGCGCCGGTACACGCGCCCCGAGCCTG 1 chr10:80532581-80532681 ( 56) CGCGCGCACGCGCCTTCCTAGCGTGCTCG 1 chr2:71291179-71291279 ( 45) GCCCATCGGCGTCCCCCTGCTCGTCCGTG 1 chr10:45297467-45297567 ( 3) CACCAGCCGCCGCCTCCGCTCGCTCGCGC 1 chr6:120616807-120616907 ( 8) CCGGCGCGTGAGCCCGCATCGCGTCCCGG 1 chr5:148241895-148241995 ( 71) GCGGCGGCGGTGGCCTCCCGCCGCCCTCG 1 chrX:34414033-34414133 ( 44) TCCCCGCACCCCCCCGCGCGTTCTCCCCA 1 chrX:34414033-34414133 ( 2) GCCCCGTGGCCGCCTTGGTACGGTCCGCC 1 chr2:148506655-148506755 ( 3) GGCGCGCTCGTGGCGACCAATCCGCGGAC 1 chr6:129483100-129483200 ( 24) CCCGCGTCAGCTCCCACGCGCCAGTCGCC 1 chr5:8996929-8997029 ( 52) GCGAGGGTCCCGCCCTGTGCGCGTCGGGG 1 chr2:119853031-119853131 ( 53) CGCGAGCCGCCGCCGGGAACTCTTGCAAC 1 chr17:31795477-31795577 ( 39) CGCGACGACGCTCTCCCCACCCGTCGTAG 1 chr4:151383571-151383671 ( 66) GGCTCGCTACGACCGGCACGACCGCGGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 29 n= 43200 bayes= 10.9126 E= 6.0e-016 -1223 107 61 -195 -353 117 45 -253 -1223 165 -46 -1223 -153 61 95 -353 -53 149 -163 -353 -195 -63 137 -121 -1223 137 -17 -121 -195 101 -17 -36 -253 101 45 -153 -253 101 54 -195 -253 157 -163 -121 5 -83 7 47 -1223 165 -63 -353 -153 165 -1223 -121 -1223 82 61 -73 -195 37 69 -36 -253 149 -17 -1223 -121 101 -5 -95 -121 112 7 -195 -121 149 -131 -195 -253 17 61 17 -353 157 -63 -253 -195 132 -5 -253 -153 -83 54 71 -1223 161 -46 -353 -1223 149 -46 -153 -353 45 76 -36 -195 89 45 -121 -253 145 -17 -353 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 29 nsites= 48 E= 6.0e-016 0.000000 0.541667 0.395833 0.062500 0.020833 0.583333 0.354167 0.041667 0.000000 0.812500 0.187500 0.000000 0.083333 0.395833 0.500000 0.020833 0.166667 0.729167 0.083333 0.020833 0.062500 0.166667 0.666667 0.104167 0.000000 0.666667 0.229167 0.104167 0.062500 0.520833 0.229167 0.187500 0.041667 0.520833 0.354167 0.083333 0.041667 0.520833 0.375000 0.062500 0.041667 0.770833 0.083333 0.104167 0.250000 0.145833 0.270833 0.333333 0.000000 0.812500 0.166667 0.020833 0.083333 0.812500 0.000000 0.104167 0.000000 0.458333 0.395833 0.145833 0.062500 0.333333 0.416667 0.187500 0.041667 0.729167 0.229167 0.000000 0.104167 0.520833 0.250000 0.125000 0.104167 0.562500 0.270833 0.062500 0.104167 0.729167 0.104167 0.062500 0.041667 0.291667 0.395833 0.270833 0.020833 0.770833 0.166667 0.041667 0.062500 0.645833 0.250000 0.041667 0.083333 0.145833 0.375000 0.395833 0.000000 0.791667 0.187500 0.020833 0.000000 0.729167 0.187500 0.083333 0.020833 0.354167 0.437500 0.187500 0.062500 0.479167 0.354167 0.104167 0.041667 0.708333 0.229167 0.020833 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [CG][CG]C[GC]CG[CG][CG][CG][CG]C[TGA]CC[CG][GC][CG][CG][CG]C[GCT]C[CG][TG]CC[GC][CG][CG] -------------------------------------------------------------------------------- Time 32.17 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 11 sites = 46 llr = 481 E-value = 4.7e-010 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A ::2:2::::1: pos.-specific C :3232:::::: probability G 9:6:6:a:a:a matrix T :7:7:a:9:9: bits 2.1 * * 1.8 ** * * 1.6 * ** *** 1.4 * ****** Relative 1.2 * ****** Entropy 1.0 * * ****** (15.1 bits) 0.8 ** * ****** 0.6 ** ******** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel GTGTGTGTGTG consensus C C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------- chr11:110339698-11033979 + 83 2.45e-07 GGTGTGTGTC GTGTGTGTGTG TGTGTGT chr18:65680011-65680111 - 6 2.45e-07 CTATGTGTGT GTGTGTGTGTG TAGAA chr4:101042124-101042224 + 57 2.45e-07 ATTTAGGAGT GTGTGTGTGTG TGTGAGAGAG chr11:83960378-83960478 + 61 2.45e-07 TTATCTGGGA GTGTGTGTGTG CATGTATGTG chr9:121325523-121325623 + 7 2.45e-07 TAAGCA GTGTGTGTGTG GTTCTGCATC chr7:133818697-133818797 + 28 2.45e-07 GCTTACCAAA GTGTGTGTGTG GTGGGGACCA chr1:153937399-153937499 + 62 5.09e-07 GCGTGCGTGC GTGCGTGTGTG TGCTGTAGGG chr11:83960378-83960478 + 81 5.09e-07 GCATGTATGT GTGCGTGTGTG TACACATAT chr16:30415440-30415540 + 67 1.25e-06 TAGCGTGTCT GTCTGTGTGTG GAGGTCAGAG chr11:110339698-11033979 + 43 1.72e-06 AACACTGTGT GTGTATGTGTG GTGTGTGTGA chr6:35328644-35328744 - 74 1.72e-06 AAAAGCTTGG GTGTCTGTGTG CTAAATACAC chr11:120538062-12053816 + 19 1.97e-06 GTTATGTTTG GTACGTGTGTG CCCAGCATGC chr5:18732321-18732421 - 89 2.51e-06 A GCGCGTGTGTG TGCGCGTGTG chr5:18732321-18732421 - 69 2.51e-06 GTGCGCGTGT GCGCGTGTGTG CCTGTGTACT chr5:38869040-38869140 - 43 3.02e-06 TCCTGGAACT GTGCATGTGTG TACATGCACA chr1:153937399-153937499 + 42 3.97e-06 CTGTCTGTCG GCCTGTGTGTG CGTGCGTGCG chr9:83844881-83844981 + 75 3.97e-06 GTCACATGAA GCCTGTGTGTG CTCTGAATGC chr14:52503012-52503112 - 45 3.97e-06 CCATATATGG GTATCTGTGTG AGCTGGATTC chr9:108182332-108182432 - 19 4.95e-06 TCCCACCCTG GTCTCTGTGTG CCTAATCAAG chr8:47776676-47776776 + 44 5.18e-06 ACTCCCAGCA GTTTGTGTGTG GGGTGACGTG chr11:110339698-11033979 + 54 5.43e-06 TGTATGTGTG GTGTGTGTGAG TGGTGTGTGG chr14:70223048-70223148 + 63 5.43e-06 GGCACTGGCG GTGTGTGTGAG CTGGCCGCTG chr5:143697384-143697484 - 82 6.45e-06 TCAAAAGT GCCCGTGTGTG GAGTAATGTT chr17:56251340-56251440 + 26 7.73e-06 GGGCTGGCCA GTCCATGTGTG CCCAGCGAGG chr10:98546193-98546293 + 63 7.73e-06 TGTGTAAGTT GTCCCTGTGTG GAATGCTCTT chr8:47776676-47776776 + 87 7.73e-06 TCACGTGAGC GTCCATGTGTG CAG chr2:32342664-32342764 - 12 8.24e-06 TTAAGTTCCT GTGTGTGGGTG TTTGGGCCAG chr5:38869040-38869140 - 9 8.72e-06 ACATGAGTGT GCATCTGTGTG GCTATCAG chr6:35328644-35328744 + 56 8.72e-06 AGAGAATCCG GCATATGTGTG TATTTAGCAC chr5:39702433-39702533 + 65 8.72e-06 GCACATGTGA GCATATGTGTG CACATGTGAA chr5:123628969-123629069 + 60 9.49e-06 ACTCCCAGAA GCCTCTGTGTG CACTGGCTAA chr12:77364407-77364507 + 76 1.02e-05 CCACAAGCCT GGGTGTGTGTG GCCTGGGAAT chr2:176990876-176990976 - 36 1.12e-05 GGTCATGGGA GTTTCTGTGTG ATGTGTTCTG chrX:53707894-53707994 - 83 1.42e-05 CTTGAAA GTGTGAGTGTG TCGGTCTCCG chr4:104848537-104848637 + 90 1.42e-05 CGTGGCGTGC GTGTGCGTGTG chr17:27781468-27781568 - 29 1.42e-05 ATCATCACAG GTGTCTGTGAG CTACCCTGTG chr4:136953014-136953114 - 33 1.49e-05 ATCTTCAGGG GCACATGTGTG TGAACTCCCT chr12:80553856-80553956 - 78 1.66e-05 GCTCTGTTCC ATGTCTGTGTG GTCTGACTAG chr19:57440478-57440578 + 68 1.80e-05 CTTCGCCAGT GAGCGTGTGTG GCCTGTGCAG chr17:7602653-7602753 - 85 1.92e-05 TGGGA GTGTATGGGTG TCTGAAGTCC chr5:32435944-32436044 + 18 2.26e-05 CCCAAGGCTG GTGCGTGCGTG TACGCCTGCA chr5:118439161-118439261 - 31 2.58e-05 CTATCTGATC CTATGTGTGTG CACACTTGCA chr18:38114922-38115022 - 64 2.58e-05 CGTGAGCCTT ACGCGTGTGTG AACGCAAGTG chr15:82987453-82987553 + 45 2.92e-05 AGCATTCGCC GTATGTGTGGG CCTTGTGTCT chr9:21642849-21642949 - 60 4.82e-05 GATGCTAAGG GTACGTGAGTG CATGTCTAAG chr14:56380981-56381081 + 74 5.36e-05 TCTGGGGCGG GCGCGTGTGTC AGCTGTGCCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr11:110339698-11033979 5.4e-06 42_[+2]_[+2]_18_[+2]_7 chr18:65680011-65680111 2.5e-07 5_[-2]_84 chr4:101042124-101042224 2.5e-07 56_[+2]_33 chr11:83960378-83960478 2.5e-07 60_[+2]_9_[+2]_9 chr9:121325523-121325623 2.5e-07 6_[+2]_83 chr7:133818697-133818797 2.5e-07 27_[+2]_62 chr1:153937399-153937499 4e-06 41_[+2]_9_[+2]_28 chr16:30415440-30415540 1.2e-06 66_[+2]_23 chr6:35328644-35328744 8.7e-06 55_[+2]_7_[-2]_16 chr11:120538062-12053816 2e-06 18_[+2]_71 chr5:18732321-18732421 2.5e-06 68_[-2]_9_[-2]_1 chr5:38869040-38869140 8.7e-06 8_[-2]_23_[-2]_47 chr9:83844881-83844981 4e-06 74_[+2]_15 chr14:52503012-52503112 4e-06 44_[-2]_45 chr9:108182332-108182432 5e-06 18_[-2]_71 chr8:47776676-47776776 5.2e-06 43_[+2]_32_[+2]_3 chr14:70223048-70223148 5.4e-06 62_[+2]_27 chr5:143697384-143697484 6.4e-06 81_[-2]_8 chr17:56251340-56251440 7.7e-06 25_[+2]_64 chr10:98546193-98546293 7.7e-06 62_[+2]_27 chr2:32342664-32342764 8.2e-06 11_[-2]_78 chr5:39702433-39702533 8.7e-06 64_[+2]_25 chr5:123628969-123629069 9.5e-06 59_[+2]_30 chr12:77364407-77364507 1e-05 75_[+2]_14 chr2:176990876-176990976 1.1e-05 35_[-2]_54 chrX:53707894-53707994 1.4e-05 82_[-2]_7 chr4:104848537-104848637 1.4e-05 89_[+2] chr17:27781468-27781568 1.4e-05 28_[-2]_61 chr4:136953014-136953114 1.5e-05 32_[-2]_57 chr12:80553856-80553956 1.7e-05 77_[-2]_12 chr19:57440478-57440578 1.8e-05 67_[+2]_22 chr17:7602653-7602753 1.9e-05 84_[-2]_5 chr5:32435944-32436044 2.3e-05 17_[+2]_72 chr5:118439161-118439261 2.6e-05 30_[-2]_59 chr18:38114922-38115022 2.6e-05 63_[-2]_26 chr15:82987453-82987553 2.9e-05 44_[+2]_45 chr9:21642849-21642949 4.8e-05 59_[-2]_30 chr14:56380981-56381081 5.4e-05 73_[+2]_16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=11 seqs=46 chr11:110339698-11033979 ( 83) GTGTGTGTGTG 1 chr18:65680011-65680111 ( 6) GTGTGTGTGTG 1 chr4:101042124-101042224 ( 57) GTGTGTGTGTG 1 chr11:83960378-83960478 ( 61) GTGTGTGTGTG 1 chr9:121325523-121325623 ( 7) GTGTGTGTGTG 1 chr7:133818697-133818797 ( 28) GTGTGTGTGTG 1 chr1:153937399-153937499 ( 62) GTGCGTGTGTG 1 chr11:83960378-83960478 ( 81) GTGCGTGTGTG 1 chr16:30415440-30415540 ( 67) GTCTGTGTGTG 1 chr11:110339698-11033979 ( 43) GTGTATGTGTG 1 chr6:35328644-35328744 ( 74) GTGTCTGTGTG 1 chr11:120538062-12053816 ( 19) GTACGTGTGTG 1 chr5:18732321-18732421 ( 89) GCGCGTGTGTG 1 chr5:18732321-18732421 ( 69) GCGCGTGTGTG 1 chr5:38869040-38869140 ( 43) GTGCATGTGTG 1 chr1:153937399-153937499 ( 42) GCCTGTGTGTG 1 chr9:83844881-83844981 ( 75) GCCTGTGTGTG 1 chr14:52503012-52503112 ( 45) GTATCTGTGTG 1 chr9:108182332-108182432 ( 19) GTCTCTGTGTG 1 chr8:47776676-47776776 ( 44) GTTTGTGTGTG 1 chr11:110339698-11033979 ( 54) GTGTGTGTGAG 1 chr14:70223048-70223148 ( 63) GTGTGTGTGAG 1 chr5:143697384-143697484 ( 82) GCCCGTGTGTG 1 chr17:56251340-56251440 ( 26) GTCCATGTGTG 1 chr10:98546193-98546293 ( 63) GTCCCTGTGTG 1 chr8:47776676-47776776 ( 87) GTCCATGTGTG 1 chr2:32342664-32342764 ( 12) GTGTGTGGGTG 1 chr5:38869040-38869140 ( 9) GCATCTGTGTG 1 chr6:35328644-35328744 ( 56) GCATATGTGTG 1 chr5:39702433-39702533 ( 65) GCATATGTGTG 1 chr5:123628969-123629069 ( 60) GCCTCTGTGTG 1 chr12:77364407-77364507 ( 76) GGGTGTGTGTG 1 chr2:176990876-176990976 ( 36) GTTTCTGTGTG 1 chrX:53707894-53707994 ( 83) GTGTGAGTGTG 1 chr4:104848537-104848637 ( 90) GTGTGCGTGTG 1 chr17:27781468-27781568 ( 29) GTGTCTGTGAG 1 chr4:136953014-136953114 ( 33) GCACATGTGTG 1 chr12:80553856-80553956 ( 78) ATGTCTGTGTG 1 chr19:57440478-57440578 ( 68) GAGCGTGTGTG 1 chr17:7602653-7602753 ( 85) GTGTATGGGTG 1 chr5:32435944-32436044 ( 18) GTGCGTGCGTG 1 chr5:118439161-118439261 ( 31) CTATGTGTGTG 1 chr18:38114922-38115022 ( 64) ACGCGTGTGTG 1 chr15:82987453-82987553 ( 45) GTATGTGTGGG 1 chr9:21642849-21642949 ( 60) GTACGTGAGTG 1 chr14:56380981-56381081 ( 74) GCGCGTGTGTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 54000 bayes= 11.7568 E= 4.7e-010 -247 -357 185 -1217 -347 1 -357 153 -30 -40 113 -247 -1217 43 -1217 143 -47 -40 128 -1217 -347 -357 -1217 199 -1217 -1217 195 -1217 -347 -357 -257 192 -1217 -1217 195 -1217 -189 -1217 -357 192 -1217 -357 192 -1217 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 46 E= 4.7e-010 0.043478 0.021739 0.934783 0.000000 0.021739 0.260870 0.021739 0.695652 0.195652 0.195652 0.565217 0.043478 0.000000 0.347826 0.000000 0.652174 0.173913 0.195652 0.630435 0.000000 0.021739 0.021739 0.000000 0.956522 0.000000 0.000000 1.000000 0.000000 0.021739 0.021739 0.043478 0.913043 0.000000 0.000000 1.000000 0.000000 0.065217 0.000000 0.021739 0.913043 0.000000 0.021739 0.978261 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- G[TC]G[TC]GTGTGTG -------------------------------------------------------------------------------- Time 63.37 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 28 sites = 10 llr = 223 E-value = 6.8e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::2::::123:1:1:2::11:::1456: pos.-specific C 12::2:::::::1:1:1:::::1:1:32 probability G :::62::213121:34::1632:::416 matrix T 98846aa7749789649a83789951:2 bits 2.1 ** * 1.8 ** * 1.6 * ** * * ** ** 1.4 * ** * * ** ** Relative 1.2 *** ** * * ** **** Entropy 1.0 **** ** * ** *** **** (32.2 bits) 0.8 **** **** **** *** **** 0.6 ********* ***** ************ 0.4 **************************** 0.2 **************************** 0.0 ---------------------------- Multilevel TTTGTTTTTTTTTTTGTTTGTTTTTAAG consensus CATC GAA G GT TGG AGCC sequence G G A T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ---------------------------- chr13:34718882-34718982 + 22 3.51e-13 TTTGGTTGGT TTTGCTTTTGTTTTCATTTGTTTTTGAG ACAGAGTCTC chr2:121149441-121149541 - 50 3.84e-12 TGTTTTAATT TTTTGTTTTGTTTTGTTTTGTTTTTTCC TTCACTGTTT chr1:173157211-173157311 - 53 5.21e-12 GCAAACACCA TTTGTTTGTTTGTTTGTTTGTTCTAAAC AAGGTTTCTT chr9:98085216-98085316 + 34 7.01e-12 AATGGTGGAC TTTGGTTTGGTTTTGTTTGGTTTTAAAG GACTGAGTAA chrX:146894023-146894123 + 3 1.13e-11 TT TTTGTTTGTATGTTTGCTTGTGTTTGAG CCACAGTGTC chr13:40952717-40952817 + 61 2.78e-11 TGGCATTTCT TTATCTTTTATTTTTGTTTAGTTTAACT ATCATATCTG chr19:32461027-32461127 - 21 3.30e-11 GCCGATGTGG TCAGTTTTTTTTTTTTTTTTTTTAAGGG AAGCCCAGGG chr11:49992389-49992489 - 58 4.24e-11 AGAGGAAATG CTTTTTTTTTTTCTTGTTTTGTTTCGAG ACAGGGTTTT chr16:52333943-52334043 + 35 4.36e-10 TAATTCCCTC TCTGTTTTATTTGAGTTTTGTGTTTACT AGTTGGAGCT chr2:32342664-32342764 - 28 1.21e-09 TCCACACATT TTTTTTTAAAGATTTATTATGTTTTAAG TTCCTGTGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr13:34718882-34718982 3.5e-13 21_[+3]_51 chr2:121149441-121149541 3.8e-12 49_[-3]_23 chr1:173157211-173157311 5.2e-12 52_[-3]_20 chr9:98085216-98085316 7e-12 33_[+3]_39 chrX:146894023-146894123 1.1e-11 2_[+3]_70 chr13:40952717-40952817 2.8e-11 60_[+3]_12 chr19:32461027-32461127 3.3e-11 20_[-3]_52 chr11:49992389-49992489 4.2e-11 57_[-3]_15 chr16:52333943-52334043 4.4e-10 34_[+3]_38 chr2:32342664-32342764 1.2e-09 27_[-3]_45 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=28 seqs=10 chr13:34718882-34718982 ( 22) TTTGCTTTTGTTTTCATTTGTTTTTGAG 1 chr2:121149441-121149541 ( 50) TTTTGTTTTGTTTTGTTTTGTTTTTTCC 1 chr1:173157211-173157311 ( 53) TTTGTTTGTTTGTTTGTTTGTTCTAAAC 1 chr9:98085216-98085316 ( 34) TTTGGTTTGGTTTTGTTTGGTTTTAAAG 1 chrX:146894023-146894123 ( 3) TTTGTTTGTATGTTTGCTTGTGTTTGAG 1 chr13:40952717-40952817 ( 61) TTATCTTTTATTTTTGTTTAGTTTAACT 1 chr19:32461027-32461127 ( 21) TCAGTTTTTTTTTTTTTTTTTTTAAGGG 1 chr11:49992389-49992489 ( 58) CTTTTTTTTTTTCTTGTTTTGTTTCGAG 1 chr16:52333943-52334043 ( 35) TCTGTTTTATTTGAGTTTTGTGTTTACT 1 chr2:32342664-32342764 ( 28) TTTTTTTAAAGATTTATTATGTTTTAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 28 n= 43800 bayes= 12.348 E= 6.8e-009 -997 -137 -997 190 -997 -37 -997 173 -27 -997 -997 173 -997 -997 121 73 -997 -37 -37 131 -997 -997 -997 205 -997 -997 -997 205 -127 -997 -37 154 -27 -997 -137 154 31 -997 21 73 -997 -997 -137 190 -127 -997 -37 154 -997 -137 -137 173 -127 -997 -997 190 -997 -137 21 131 -27 -997 63 73 -997 -137 -997 190 -997 -997 -997 205 -127 -997 -137 173 -127 -997 121 31 -997 -997 21 154 -997 -997 -37 173 -997 -137 -997 190 -127 -997 -997 190 73 -137 -997 105 105 -997 63 -127 131 21 -137 -997 -997 -37 121 -27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 28 nsites= 10 E= 6.8e-009 0.000000 0.100000 0.000000 0.900000 0.000000 0.200000 0.000000 0.800000 0.200000 0.000000 0.000000 0.800000 0.000000 0.000000 0.600000 0.400000 0.000000 0.200000 0.200000 0.600000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.100000 0.000000 0.200000 0.700000 0.200000 0.000000 0.100000 0.700000 0.300000 0.000000 0.300000 0.400000 0.000000 0.000000 0.100000 0.900000 0.100000 0.000000 0.200000 0.700000 0.000000 0.100000 0.100000 0.800000 0.100000 0.000000 0.000000 0.900000 0.000000 0.100000 0.300000 0.600000 0.200000 0.000000 0.400000 0.400000 0.000000 0.100000 0.000000 0.900000 0.000000 0.000000 0.000000 1.000000 0.100000 0.000000 0.100000 0.800000 0.100000 0.000000 0.600000 0.300000 0.000000 0.000000 0.300000 0.700000 0.000000 0.000000 0.200000 0.800000 0.000000 0.100000 0.000000 0.900000 0.100000 0.000000 0.000000 0.900000 0.400000 0.100000 0.000000 0.500000 0.500000 0.000000 0.400000 0.100000 0.600000 0.300000 0.100000 0.000000 0.000000 0.200000 0.600000 0.200000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- T[TC][TA][GT][TCG]TT[TG][TA][TAG]T[TG]TT[TG][GTA]TTT[GT][TG][TG]TT[TA][AG][AC][GCT] -------------------------------------------------------------------------------- Time 94.46 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:155967746-155967846 9.61e-01 100 chr18:65373713-65373813 4.52e-01 100 chr7:75457972-75458072 8.97e-01 100 chr15:80629631-80629731 3.40e-02 100 chr2:167311074-167311174 1.03e-01 100 chr1:13668470-13668570 7.84e-01 100 chr11:121111451-12111155 6.85e-01 100 chrX:35819607-35819707 9.11e-01 100 chr5:151721045-151721145 5.29e-01 100 chr16:30961091-30961191 8.38e-01 100 chr15:102978146-10297824 8.83e-01 100 chr3:9821421-9821521 8.26e-01 100 chr11:52207942-52208042 1.36e-01 100 chr10:17667791-17667891 9.51e-03 54_[-1(2.70e-05)]_17 chr9:57477593-57477693 1.42e-01 100 chr11:82594686-82594786 1.28e-02 36_[-1(8.93e-06)]_35 chr3:62156705-62156805 7.03e-01 100 chr12:88236904-88237004 3.11e-01 100 chr6:143473584-143473684 5.31e-02 54_[-2(5.36e-05)]_35 chr11:64282165-64282265 5.88e-01 100 chr4:33376971-33377071 4.98e-01 100 chr12:81250535-81250635 9.95e-01 100 chr1:39655531-39655631 6.62e-01 100 chr3:9920278-9920378 3.19e-01 100 chr9:20671260-20671360 4.84e-01 100 chr15:85562737-85562837 8.94e-02 100 chr8:54596997-54597097 3.14e-02 23_[+1(1.76e-05)]_48 chr3:90300081-90300181 4.29e-01 100 chr17:15283449-15283549 6.10e-01 100 chr8:81821621-81821721 5.06e-01 100 chr5:39702433-39702533 2.82e-02 24_[+2(2.26e-05)]_29_[+2(8.72e-06)]_\ 25 chr12:114370785-11437088 2.21e-01 100 chr9:72502774-72502874 2.60e-01 100 chr1:60714337-60714437 3.02e-01 100 chr10:126519608-12651970 3.08e-01 100 chr8:35221204-35221304 4.43e-01 100 chr11:6446502-6446602 1.29e-01 100 chr5:152453449-152453549 6.28e-02 63_[-2(8.94e-05)]_26 chr14:70223048-70223148 5.47e-04 27_[-1(4.67e-05)]_6_[+2(5.43e-06)]_\ 27 chr4:105917446-105917546 8.10e-01 100 chr17:84590128-84590228 9.29e-01 100 chr2:5863434-5863534 1.08e-01 13_[-1(4.37e-05)]_58 chr15:32850441-32850541 2.35e-01 100 chr18:21092297-21092397 9.74e-01 100 chr4:129296067-129296167 1.74e-01 100 chr5:73539477-73539577 4.46e-01 100 chr6:83067065-83067165 9.88e-01 100 chr7:17002271-17002371 9.76e-01 100 chr15:54697908-54698008 5.56e-01 100 chr9:119218269-119218369 9.49e-01 100 chr4:151383571-151383671 1.26e-01 20_[+1(8.37e-05)]_16_[+1(6.08e-05)]_\ 6 chr11:79087827-79087927 5.27e-01 100 chr8:11830574-11830674 5.65e-01 100 chr5:50423153-50423253 4.64e-01 100 chr16:58703812-58703912 3.59e-01 100 chr2:167087112-167087212 3.23e-01 100 chr19:23141161-23141261 9.97e-01 100 chr14:18492579-18492679 2.13e-01 100 chr9:40139681-40139781 5.07e-01 100 chr13:81491262-81491362 5.60e-01 100 chr2:118304999-118305099 2.84e-05 27_[+1(1.01e-08)]_44 chr4:106925937-106926037 1.09e-03 12_[-1(4.24e-07)]_59 chr2:176990876-176990976 1.36e-02 35_[-2(1.12e-05)]_54 chr2:27616731-27616831 5.40e-02 100 chr12:70576282-70576382 8.31e-01 100 chr10:79798395-79798495 9.34e-02 100 chr14:32458322-32458422 5.89e-02 100 chr5:77561329-77561429 9.87e-01 100 chr6:35222265-35222365 7.37e-01 100 chr4:139225724-139225824 5.49e-01 100 chr3:122211937-122212037 5.34e-01 100 chr16:52333943-52334043 9.77e-06 34_[+3(4.36e-10)]_38 chr2:30613790-30613890 9.12e-01 100 chr2:147851204-147851304 6.83e-01 100 chr4:128388512-128388612 5.43e-01 100 chr9:32785259-32785359 4.23e-01 100 chr12:29467413-29467513 4.60e-01 100 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chr4:72712385-72712485 7.84e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: scc-ph5 ********************************************************************************