******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.12.0 (Release date: Tue Jun 27 16:22:50 2017 -0700) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme-suite.org . 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-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 ******************************************************************************** DATAFILE= /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--YAP3/seqs-sampled ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrVIII:116044-116351 1.0000 100 chrVII:921773-921982 1.0000 100 chrV:449599-449802 1.0000 100 chrXVI:377065-377332 1.0000 100 chrXII:151018-151212 1.0000 100 chrXIV:619701-620050 1.0000 100 chrV:151884-152252 1.0000 100 chrVIII:466798-467228 1.0000 100 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1.0000 100 chrXVI:56115-56485 1.0000 100 chrIV:915940-916172 1.0000 100 chrXI:26012-26476 1.0000 100 chrXV:571767-572059 1.0000 100 chrX:56057-56157 1.0000 100 chrIV:434030-434522 1.0000 100 chrIV:917053-917529 1.0000 100 chrXIV:379290-379766 1.0000 100 chrXV:113627-114066 1.0000 100 chrXIV:557744-557881 1.0000 100 chrV:288437-288678 1.0000 100 chrVII:482558-483036 1.0000 100 chrXV:444857-445333 1.0000 100 chrX:436172-436272 1.0000 100 chrXIII:465193-465669 1.0000 100 chrXVI:684268-684744 1.0000 100 chrII:256643-256988 1.0000 100 chrV:434505-434796 1.0000 100 chrIV:579507-580105 1.0000 100 chrIV:974429-974554 1.0000 100 chrXI:557159-557635 1.0000 100 chrXV:889413-889889 1.0000 100 chrVIII:237691-238137 1.0000 100 chrVII:481910-482227 1.0000 100 chrII:376376-376529 1.0000 100 chrIX:316983-317459 1.0000 100 chrXVI:819277-819648 1.0000 100 chrIV:520833-521106 1.0000 100 chrVIII:115455-115619 1.0000 100 chrXIII:887720-887957 1.0000 100 chrXVI:435800-436148 1.0000 100 chrXIII:226723-226983 1.0000 100 chrIX:210499-210791 1.0000 100 chrXV:877792-878017 1.0000 100 chrIV:1237930-1238375 1.0000 100 chrXIII:732942-733418 1.0000 100 chrVII:828534-828979 1.0000 100 chrXVI:277847-278323 1.0000 100 chrXIII:183741-184070 1.0000 100 chrXIV:723056-723252 1.0000 100 chrXII:812038-812514 1.0000 100 chrV:322069-322429 1.0000 100 chrVII:545466-545716 1.0000 100 chrIV:339042-339518 1.0000 100 chrXV:621521-621846 1.0000 100 chrXII:962951-963251 1.0000 100 chrIV:491641-491853 1.0000 100 chrVI:148458-148728 1.0000 100 chrIV:118458-118720 1.0000 100 chrV:266328-266517 1.0000 100 chrX:204515-204615 1.0000 100 chrXV:842570-843046 1.0000 100 chrIV:472888-473364 1.0000 100 chrV:487209-487562 1.0000 100 chrXIV:500177-500811 1.0000 100 chrXIII:552003-552479 1.0000 100 chrVII:783887-784137 1.0000 100 chrIV:1204178-1204654 1.0000 100 chrIV:1354558-1354868 1.0000 100 chrII:326714-327026 1.0000 100 chrIV:1359266-1359505 1.0000 100 chrXIII:24532-24829 1.0000 100 chrIV:915146-915539 1.0000 100 chrIV:465215-465519 1.0000 100 chrXI:219725-219971 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 /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--YAP3/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--YAP3/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--YAP3/background -dna -revcomp -nostatus model: mod= zoops nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 6 maxw= 30 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 581 wnsites= 0.8 theta: 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= 58100 N= 581 shuffle= -1 strands: + - sample: seed= 0 ctfrac= -1 maxwords= -1 Letter frequencies in dataset: A 0.339 C 0.161 G 0.161 T 0.339 Background letter frequencies (from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--YAP3/background): A 0.332 C 0.168 G 0.168 T 0.332 ******************************************************************************** ******************************************************************************** MOTIF AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 width = 27 sites = 57 llr = 1035 E-value = 6.8e-177 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 Description -------------------------------------------------------------------------------- Simplified A 6:::1223:3:::1a2:1::375511: pos.-specific C 2:53534::::754::11::1:12164 probability G 1a531213:7a:32:8:6a41133735 matrix T 2::44245a::323::93:5621:112 bits 2.6 * * 2.3 * * * 2.1 * * * 1.8 * * * * Relative 1.5 * **** ** * Entropy 1.3 * **** *** * (26.2 bits) 1.0 ** **** *** * ** 0.8 ** ***** ****** *** 0.5 **** ***** ****** * **** 0.3 ***** ********************* 0.0 --------------------------- Multilevel AGCTCCTTTGGCCCAGTGGTTAAAGCG consensus T GCTTCG A TGT T GATGG GC sequence G A A T C G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- --------------------------- chrXII:214814-215127 - 10 4.68e-13 TACGCGTTTT AGGGCACATGGCGCAGTTGGTAGCGCG CTTCCCTTG chrII:226913-227328 + 4 1.76e-12 ACG AGGCAACTTGGCCGAGTGGTTAAGGCG AAAGATTAGA chrIV:980881-981223 - 28 1.76e-12 TTGTAAATTG AGGCAACTTGGCCGAGTGGTTAAGGCG AAAGATTAGA chrIV:1305473-1305750 + 68 1.76e-12 ATACAAATTA AGGCAACTTGGCCGAGTGGTTAAGGCG AAAGAT chrXVI:856712-857078 + 56 2.11e-12 CAACAAGATT CGGGCGTGTGGCGTAGTCGGTAGCGCG CTCCCTTAGC chrVII:738943-739273 + 63 4.22e-12 CGAAAAAAAT AGGTCTCTTGGCCCAGTTGGTTAAGGC ACCGTGCTAA chrVIII:132865-133391 - 4 8.16e-12 ATATAATAAG TGGCAACTTGGCCGAGTGGTTAAGGCG AAA chrXV:113627-114066 + 5 1.12e-11 ATTT AGCTTCTATGGCCAAGTTGGTAAGGCG CCACACTAGT chrX:58957-59057 - 59 1.12e-11 ATAAAATAGA AGCTTCTATGGCCAAGTTGGTAAGGCG CCACACTAGT chrIII:295361-295598 + 54 1.12e-11 CATACAATTA AGCTTCTATGGCCAAGTTGGTAAGGCG CCACACTAGT chrVIII:116044-116351 - 7 1.12e-11 TCACTATTAG AGCTTCTATGGCCAAGTTGGTAAGGCG CCACAC chrIX:210499-210791 + 69 1.78e-11 ATGAAATATC TGGTCTCTTGGCCCAGTTGGTTAAGGC ACCGT chrXII:1051917-1052393 - 14 1.78e-11 GTCCTTTTCA TGGTCTCTTGGCCCAGTTGGTTAAGGC ACCGTGCTAA chrXVI:689373-689743 + 56 1.78e-11 AGATTATTTT GGGCACTATGGCCGAGTGGTTAAGGCG ACAGACTTGA chrXIV:569690-570166 - 37 1.78e-11 CAGATAACAG TGGTCTCTTGGCCCAGTTGGTTAAGGC ACCGTGCTAA chrXVI:581926-582184 + 56 1.28e-10 TCAACAAAAG AGCCTTGTTGGCGCAATCGGTAGCGCG TATGACTCTT chrIV:1352358-1352714 - 27 1.28e-10 CCAACGAAAT AGCCTTGTTGGCGCAATCGGTAGCGCG TATGACTCTT chrVII:876200-876667 + 10 1.28e-10 TAATAGAAT AGCCTTGTTGGCGCAATCGGTAGCGCG TATGACTCTT chrVII:185563-185919 - 70 1.28e-10 AAAT AGCCTTGTTGGCGCAATCGGTAGCGCG TATGACTCTT chrIV:1201556-1201986 + 28 1.28e-10 ACAAATAAAT AGCCTTGTTGGCGCAATCGGTAGCGCG TATGACTCTT chrX:617753-617853 + 44 2.43e-10 CAACAAACAA TGGGAGTTTGGCCGAGTGGTTTAAGGC GTCAGATTTA chrIV:1095277-1095615 - 40 5.64e-10 GTCTTATGTT AGCGGACTTAGCTCAGTTGGGAGAGCG CCAGACTGAA chrVIII:237691-238137 - 50 1.11e-09 ACAAATAGTA AGCGGATTTAGCTCAGTTGGGAGAGCG CCAGACTGAA chrXIII:572747-573164 - 25 1.11e-09 CATAACAGAC AGCTTCAGTAGCTCAGTAGGAAGAGCG TCAGTCTCAT chrVIII:358354-358772 - 31 1.11e-09 ACAAATAGTA AGCGGATTTAGCTCAGTTGGGAGAGCG CCAGACTGAA chrVI:157782-158189 - 47 1.11e-09 CATAAATAGA AGCGGATTTAGCTCAGTTGGGAGAGCG CCAGACTGAA chrXV:976226-976628 + 43 2.11e-09 ATATTTTGTG CGCTTCAGTAGCTCAGTAGGAAGAGCG TCAGTCTCAT chrX:422701-422801 + 52 2.88e-09 ATCCTTTGTA TGCTTCAGTAGCTCAGTAGGAAGAGCG TCAGTCTCAT chrXII:975915-976232 - 8 2.88e-09 CGGAAATAAA AGACTCCATGGCCAAGTTGGTTAAGGC GTGCGAC chrXIII:504749-505104 + 18 3.52e-09 AACAGATAAG TGGTTGTTTGGCCGAGCGGTCTAAGGC GCCTGATTCA chrXII:628181-628652 + 16 3.52e-09 AACAAATAAG TGGTTGTTTGGCCGAGCGGTCTAAGGC GCCTGATTCA chrVII:422916-423310 + 28 3.52e-09 AACAGATAAG TGGTTGTTTGGCCGAGCGGTCTAAGGC GCCTGATTCA chrXVI:860242-860470 + 72 3.52e-09 GTAAATAACA AGCGCAAGTGGTTTAGTGGTAAAATCC AA chrVI:162045-162365 + 72 3.52e-09 CAAGAAAACA AGCGCAAGTGGTTTAGTGGTAAAATCC AA chrXI:46569-46983 - 55 4.29e-09 AAAATTACTC AGCCCTTTTGGCCAAGTGGTAAGGCAT CGCACTCGTA chrIV:488677-489067 - 23 4.73e-09 AATGGGTTTC CGGTCCAATGGTCCAGTGGTTCAAGAC GTCGCCTTTA chrV:438534-438822 + 71 5.74e-09 TCAACAAATT AGGTTTCGTGGTCTAGTCGGTTATGGC ATC chrXVI:572077-572459 + 50 6.31e-09 CACAATACTT CGCGCAAGTGGTTTAGTGGTAAAATCC AACGTTGCCA chrXV:281964-282329 + 67 6.31e-09 AACATGAAAG CGCGCAAGTGGTTTAGTGGTAAAATCC AACGTTG chrIII:127556-127876 + 49 6.93e-09 CAAGATAAAA TGACTCCATGGCCAAGTTGGTTAAGGC GTGCGACTGT chrXV:464233-464683 + 41 6.93e-09 CAAGTTAACA AGGGCGTGTGGTCTAGTGGTATGATTC TCGCTTTGGG chrXVI:435800-436148 - 15 8.35e-09 ATACAACAAA AGCTCGTATGGCGCAGTGGTAGCGCAG CAGATTGCAA chrII:326714-327026 - 20 9.15e-09 ATCGAGTTCC GGGTCCAATGGTCCAGTGGTTCAAGAC GTCGCCTTTA chrVIII:388820-389159 - 31 1.56e-08 AACAGATACA TGGGCGTGTGGTCTAGTGGTATGATTC TCGCTTTGGG chrVIII:466798-467228 + 26 1.86e-08 TTGTATTTTT AGCCTCCTTAGCTTAGTGGTAGAGCGT TGCACTTGTA chrVII:828534-828979 - 63 3.06e-08 AACAAACAGT AGCTCGCGTGGCGTAATGGCAACGCGT CTGACTTCTA chrXIII:747796-748161 - 10 3.06e-08 ACATATGACT AGCTCGCGTGGCGTAATGGCAACGCGT CTGACTTCT chrV:492304-492586 - 4 3.31e-08 TGAACATCCT ATTCCTCGTGGCCCAATGGTCACGGCG TCT chrXIII:808119-808475 - 45 3.59e-08 CAGAAGAAAA AGGTCCTATAGTGTAGTGGTTATCACT TTCGGTTCTG chrVII:661558-661892 + 73 3.89e-08 GGTAAAAATT TGCCTCCTTAGCTTAGTGGTAGAGCGT T chrXII:448536-448909 - 24 5.73e-08 CAAGAAGTTC CGGTCCTATAGTGTAGTGGTTATCACT TTCGGTTTTG chrIV:645097-645371 - 15 5.73e-08 ACAGTTGTTA CGGTCCTATAGTGTAGTGGTTATCACT TTCGGTTTTG chrXI:490782-491124 + 64 8.94e-08 AATAATTCTT GTTCCTCGTGGCCCAATGGTCACGGCG TCTGGCTACG chrIV:520833-521106 + 52 9.60e-08 GTCCATTTTA GGGTCCTATAGTGTAGTGGTTATCACT TTCGGTTTTG chrXV:110845-111226 - 23 1.79e-07 ACAATTAACC CGGGCGGTTAGTGTAGTGGTTATCATC CCACCCTTCC chrXIV:631734-632063 - 44 2.18e-07 CAACTTCTAC CGGGCGTGTGGTCTAGAGGTATGATTC TCGCTTAGGG chrVII:319640-319942 + 39 2.43e-06 TAAAGAAATT AGCCATCTTAGTATAGTGGTTAGTACA CATCGTTGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrXII:214814-215127 4.7e-13 9_[-1]_64 chrII:226913-227328 1.8e-12 3_[+1]_70 chrIV:980881-981223 1.8e-12 27_[-1]_46 chrIV:1305473-1305750 1.8e-12 67_[+1]_6 chrXVI:856712-857078 2.1e-12 55_[+1]_18 chrVII:738943-739273 4.2e-12 62_[+1]_11 chrVIII:132865-133391 8.2e-12 3_[-1]_70 chrXV:113627-114066 1.1e-11 4_[+1]_69 chrX:58957-59057 1.1e-11 58_[-1]_15 chrIII:295361-295598 1.1e-11 53_[+1]_20 chrVIII:116044-116351 1.1e-11 6_[-1]_67 chrIX:210499-210791 1.8e-11 68_[+1]_5 chrXII:1051917-1052393 1.8e-11 13_[-1]_60 chrXVI:689373-689743 1.8e-11 55_[+1]_18 chrXIV:569690-570166 1.8e-11 36_[-1]_37 chrXVI:581926-582184 1.3e-10 55_[+1]_18 chrIV:1352358-1352714 1.3e-10 26_[-1]_47 chrVII:876200-876667 1.3e-10 9_[+1]_64 chrVII:185563-185919 1.3e-10 69_[-1]_4 chrIV:1201556-1201986 1.3e-10 27_[+1]_46 chrX:617753-617853 2.4e-10 43_[+1]_30 chrIV:1095277-1095615 5.6e-10 39_[-1]_34 chrVIII:237691-238137 1.1e-09 49_[-1]_24 chrXIII:572747-573164 1.1e-09 24_[-1]_49 chrVIII:358354-358772 1.1e-09 30_[-1]_43 chrVI:157782-158189 1.1e-09 46_[-1]_27 chrXV:976226-976628 2.1e-09 42_[+1]_31 chrX:422701-422801 2.9e-09 51_[+1]_22 chrXII:975915-976232 2.9e-09 7_[-1]_66 chrXIII:504749-505104 3.5e-09 17_[+1]_56 chrXII:628181-628652 3.5e-09 15_[+1]_58 chrVII:422916-423310 3.5e-09 27_[+1]_46 chrXVI:860242-860470 3.5e-09 71_[+1]_2 chrVI:162045-162365 3.5e-09 71_[+1]_2 chrXI:46569-46983 4.3e-09 54_[-1]_19 chrIV:488677-489067 4.7e-09 22_[-1]_51 chrV:438534-438822 5.7e-09 70_[+1]_3 chrXVI:572077-572459 6.3e-09 49_[+1]_24 chrXV:281964-282329 6.3e-09 66_[+1]_7 chrIII:127556-127876 6.9e-09 48_[+1]_25 chrXV:464233-464683 6.9e-09 40_[+1]_33 chrXVI:435800-436148 8.3e-09 14_[-1]_59 chrII:326714-327026 9.2e-09 19_[-1]_54 chrVIII:388820-389159 1.6e-08 30_[-1]_43 chrVIII:466798-467228 1.9e-08 25_[+1]_48 chrVII:828534-828979 3.1e-08 62_[-1]_11 chrXIII:747796-748161 3.1e-08 9_[-1]_64 chrV:492304-492586 3.3e-08 3_[-1]_70 chrXIII:808119-808475 3.6e-08 44_[-1]_29 chrVII:661558-661892 3.9e-08 72_[+1]_1 chrXII:448536-448909 5.7e-08 23_[-1]_50 chrIV:645097-645371 5.7e-08 14_[-1]_59 chrXI:490782-491124 8.9e-08 63_[+1]_10 chrIV:520833-521106 9.6e-08 51_[+1]_22 chrXV:110845-111226 1.8e-07 22_[-1]_51 chrXIV:631734-632063 2.2e-07 43_[-1]_30 chrVII:319640-319942 2.4e-06 38_[+1]_35 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGSBYNYDTGGCSYAGTGGKWARRGCS width=27 seqs=57 chrXII:214814-215127 ( 10) AGGGCACATGGCGCAGTTGGTAGCGCG 1 chrII:226913-227328 ( 4) AGGCAACTTGGCCGAGTGGTTAAGGCG 1 chrIV:980881-981223 ( 28) AGGCAACTTGGCCGAGTGGTTAAGGCG 1 chrIV:1305473-1305750 ( 68) AGGCAACTTGGCCGAGTGGTTAAGGCG 1 chrXVI:856712-857078 ( 56) CGGGCGTGTGGCGTAGTCGGTAGCGCG 1 chrVII:738943-739273 ( 63) AGGTCTCTTGGCCCAGTTGGTTAAGGC 1 chrVIII:132865-133391 ( 4) TGGCAACTTGGCCGAGTGGTTAAGGCG 1 chrXV:113627-114066 ( 5) AGCTTCTATGGCCAAGTTGGTAAGGCG 1 chrX:58957-59057 ( 59) AGCTTCTATGGCCAAGTTGGTAAGGCG 1 chrIII:295361-295598 ( 54) AGCTTCTATGGCCAAGTTGGTAAGGCG 1 chrVIII:116044-116351 ( 7) AGCTTCTATGGCCAAGTTGGTAAGGCG 1 chrIX:210499-210791 ( 69) TGGTCTCTTGGCCCAGTTGGTTAAGGC 1 chrXII:1051917-1052393 ( 14) TGGTCTCTTGGCCCAGTTGGTTAAGGC 1 chrXVI:689373-689743 ( 56) GGGCACTATGGCCGAGTGGTTAAGGCG 1 chrXIV:569690-570166 ( 37) TGGTCTCTTGGCCCAGTTGGTTAAGGC 1 chrXVI:581926-582184 ( 56) AGCCTTGTTGGCGCAATCGGTAGCGCG 1 chrIV:1352358-1352714 ( 27) AGCCTTGTTGGCGCAATCGGTAGCGCG 1 chrVII:876200-876667 ( 10) AGCCTTGTTGGCGCAATCGGTAGCGCG 1 chrVII:185563-185919 ( 70) AGCCTTGTTGGCGCAATCGGTAGCGCG 1 chrIV:1201556-1201986 ( 28) AGCCTTGTTGGCGCAATCGGTAGCGCG 1 chrX:617753-617853 ( 44) TGGGAGTTTGGCCGAGTGGTTTAAGGC 1 chrIV:1095277-1095615 ( 40) AGCGGACTTAGCTCAGTTGGGAGAGCG 1 chrVIII:237691-238137 ( 50) AGCGGATTTAGCTCAGTTGGGAGAGCG 1 chrXIII:572747-573164 ( 25) AGCTTCAGTAGCTCAGTAGGAAGAGCG 1 chrVIII:358354-358772 ( 31) AGCGGATTTAGCTCAGTTGGGAGAGCG 1 chrVI:157782-158189 ( 47) AGCGGATTTAGCTCAGTTGGGAGAGCG 1 chrXV:976226-976628 ( 43) CGCTTCAGTAGCTCAGTAGGAAGAGCG 1 chrX:422701-422801 ( 52) TGCTTCAGTAGCTCAGTAGGAAGAGCG 1 chrXII:975915-976232 ( 8) AGACTCCATGGCCAAGTTGGTTAAGGC 1 chrXIII:504749-505104 ( 18) TGGTTGTTTGGCCGAGCGGTCTAAGGC 1 chrXII:628181-628652 ( 16) TGGTTGTTTGGCCGAGCGGTCTAAGGC 1 chrVII:422916-423310 ( 28) TGGTTGTTTGGCCGAGCGGTCTAAGGC 1 chrXVI:860242-860470 ( 72) AGCGCAAGTGGTTTAGTGGTAAAATCC 1 chrVI:162045-162365 ( 72) AGCGCAAGTGGTTTAGTGGTAAAATCC 1 chrXI:46569-46983 ( 55) AGCCCTTTTGGCCAAGTGGTAAGGCAT 1 chrIV:488677-489067 ( 23) CGGTCCAATGGTCCAGTGGTTCAAGAC 1 chrV:438534-438822 ( 71) AGGTTTCGTGGTCTAGTCGGTTATGGC 1 chrXVI:572077-572459 ( 50) CGCGCAAGTGGTTTAGTGGTAAAATCC 1 chrXV:281964-282329 ( 67) CGCGCAAGTGGTTTAGTGGTAAAATCC 1 chrIII:127556-127876 ( 49) TGACTCCATGGCCAAGTTGGTTAAGGC 1 chrXV:464233-464683 ( 41) AGGGCGTGTGGTCTAGTGGTATGATTC 1 chrXVI:435800-436148 ( 15) AGCTCGTATGGCGCAGTGGTAGCGCAG 1 chrII:326714-327026 ( 20) GGGTCCAATGGTCCAGTGGTTCAAGAC 1 chrVIII:388820-389159 ( 31) TGGGCGTGTGGTCTAGTGGTATGATTC 1 chrVIII:466798-467228 ( 26) AGCCTCCTTAGCTTAGTGGTAGAGCGT 1 chrVII:828534-828979 ( 63) AGCTCGCGTGGCGTAATGGCAACGCGT 1 chrXIII:747796-748161 ( 10) AGCTCGCGTGGCGTAATGGCAACGCGT 1 chrV:492304-492586 ( 4) ATTCCTCGTGGCCCAATGGTCACGGCG 1 chrXIII:808119-808475 ( 45) AGGTCCTATAGTGTAGTGGTTATCACT 1 chrVII:661558-661892 ( 73) TGCCTCCTTAGCTTAGTGGTAGAGCGT 1 chrXII:448536-448909 ( 24) CGGTCCTATAGTGTAGTGGTTATCACT 1 chrIV:645097-645371 ( 15) CGGTCCTATAGTGTAGTGGTTATCACT 1 chrXI:490782-491124 ( 64) GTTCCTCGTGGCCCAATGGTCACGGCG 1 chrIV:520833-521106 ( 52) GGGTCCTATAGTGTAGTGGTTATCACT 1 chrXV:110845-111226 ( 23) CGGGCGGTTAGTGTAGTGGTTATCATC 1 chrXIV:631734-632063 ( 44) CGGGCGTGTGGTCTAGAGGTATGATTC 1 chrVII:319640-319942 ( 39) AGCCATCTTAGTATAGTGGTTAGTACA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 27 n= 42994 bayes= 8.55767 E= 6.8e-177 76 -9 -126 -66 -1248 -1248 252 -324 -324 149 144 -324 -1248 91 65 34 -143 144 -126 8 -54 91 32 -43 -107 106 -68 22 -33 -1248 74 46 -1248 -1248 -1248 159 -33 -1248 213 -1248 -1248 -1248 257 -1248 -1248 210 -1248 -24 -424 155 65 -54 -143 120 -9 1 159 -1248 -1248 -1248 -107 -1248 232 -1248 -424 -167 -1248 149 -266 -45 174 -33 -1248 -1248 257 -1248 -1248 -226 138 67 -24 -94 -126 76 101 -226 -167 -43 57 -94 99 -192 46 32 83 -324 -166 -68 199 -143 -224 183 65 -224 -424 113 144 -107 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 27 nsites= 57 E= 6.8e-177 0.561404 0.157895 0.070175 0.210526 0.000000 0.000000 0.964912 0.035088 0.035088 0.473684 0.456140 0.035088 0.000000 0.315789 0.263158 0.421053 0.122807 0.456140 0.070175 0.350877 0.228070 0.315789 0.210526 0.245614 0.157895 0.350877 0.105263 0.385965 0.263158 0.000000 0.280702 0.456140 0.000000 0.000000 0.000000 1.000000 0.263158 0.000000 0.736842 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.719298 0.000000 0.280702 0.017544 0.491228 0.263158 0.228070 0.122807 0.385965 0.157895 0.333333 1.000000 0.000000 0.000000 0.000000 0.157895 0.000000 0.842105 0.000000 0.017544 0.052632 0.000000 0.929825 0.052632 0.122807 0.561404 0.263158 0.000000 0.000000 1.000000 0.000000 0.000000 0.035088 0.438596 0.526316 0.280702 0.087719 0.070175 0.561404 0.666667 0.035088 0.052632 0.245614 0.491228 0.087719 0.333333 0.087719 0.456140 0.210526 0.298246 0.035088 0.105263 0.105263 0.666667 0.122807 0.070175 0.596491 0.263158 0.070175 0.017544 0.368421 0.456140 0.157895 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGSBYNYDTGGCSYAGTGGKWARRGCS MEME-1 regular expression -------------------------------------------------------------------------------- [AT]G[CG][TCG][CT][CTAG][TC][TGA]T[GA]G[CT][CGT][CT]AGT[GT]G[TG][TA][AT][AG][AGC]G[CG][GC] -------------------------------------------------------------------------------- Time 330.58 secs. ******************************************************************************** ******************************************************************************** MOTIF SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 width = 29 sites = 24 llr = 517 E-value = 7.0e-069 ******************************************************************************** -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :3:63:::aa::13:271::134:61182 pos.-specific C 4:::2:7:::a6631:167345241:1:5 probability G 67a41::a::::3348::1:::2631211 matrix T ::::3a3::::3:15:2327522::8711 bits 2.6 * * * 2.3 * * * 2.1 * * * 1.8 * * * Relative 1.5 * * ****** * * Entropy 1.3 * * ****** * * * (31.1 bits) 1.0 **** ******** * ** * 0.8 **** ******** ** ** * ** 0.5 **** ******** ******** ****** 0.3 **** ***************** ****** 0.0 ----------------------------- Multilevel GGGAATCGAACCCATGACCTTCAGATTAC consensus CA GT T TGCGA TTCCACCG A sequence C G TT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------------------------- chrXV:113627-114066 - 40 7.99e-13 TGCTTCCAAT CGGATTTGAACCGATGATCTCCACATTAC TAGTGTGGCG chrIV:434030-434522 + 48 7.99e-13 TGCTTCCAAT CGGATTTGAACCGATGATCTCCACATTAC TAGTGTGGCG chrX:58957-59057 + 22 7.99e-13 TGCTTCCAAT CGGATTTGAACCGATGATCTCCACATTAC TAGTGTGGCG chrII:266292-266625 - 4 7.99e-13 TGCTTCCAAT CGGATTTGAACCGATGATCTCCACATTAC TAG chrXI:46569-46983 + 19 7.99e-13 TGCCCTCTGT GGGAATTGAACCCACGATCCCCGCATTAC GAGTGCGATG chrVII:876200-876667 - 45 1.55e-12 AGCCCTGTAG GGGGCTCGAACCCCTAACCTTATGATTAA GAGTCATACG chrVII:185563-185919 + 33 1.55e-12 AGCCCTGTAG GGGGCTCGAACCCCTAACCTTATGATTAA GAGTCATACG chrIV:1201556-1201986 - 63 1.55e-12 GCCCTGTAG GGGGCTCGAACCCCTAACCTTATGATTAA GAGTCATACG chrXIV:631734-632063 + 8 1.76e-12 GCGAGCC GGGACTCGAACCCGGGACCTCCCGCACCC TAAGCGAGAA chrVII:828534-828979 + 27 5.35e-12 CACTCACGAT GGGGGTCGAACCCATAATCTTCTGATTAG AAGTCAGACG chrIV:1175689-1176111 - 13 1.34e-11 TGCTCCAGGG GAGGTTCGAACTCTCGACCTTCAGATTAT GAGACTGACG chrV:487209-487562 + 6 1.49e-11 ATACG GGGAGTCGAACCCCGGTCTCCACGGTGAA AGCGTGATGT chrVII:328347-328933 - 26 1.49e-11 CTCCGATACG GGGAGTCGAACCCCGGTCTCCACGGTGAA AGCGTGATGT chrXVI:560008-560411 + 49 5.22e-11 TGCGAATTCT GTGGATCGAACACAGGACCTCCAGATAAC TTGACCGAAG chrXIII:183741-184070 + 53 7.00e-11 TGCGCAAGCC CGGAATCGAACCGGGGGCCCAACGATGGC AACGTTGGAT chrXV:438463-438931 - 53 1.12e-10 CTCCTCATAG GGGGCTCGAACCCCTGACATTTCGGTATC CTTGCTTAAG chrIV:1075410-1075653 + 1 3.25e-10 . GAGGATCGAACTCGGGACCTTTGCCGTGT GAAGGCAACG chrXIII:808119-808475 + 9 4.17e-10 GTCCCACC CGGATTCGAACTGGGGTTGTTCGGATCAG AACCGAAAGT chrVIII:466798-467228 - 60 4.90e-10 TGCCACCTGC CAGAATTGAACTAGCGACCTTTGCATTAC AAGTGCAACG chrXV:663629-664011 + 52 1.42e-09 CGATTTCGCC CAGGATCGAACTGGGGACGTTCTGCGTGT TAAGCAGATG chrIX:324120-324482 + 62 4.71e-09 CTCCGCGACG GGGAATTGAACCCCGATCTGGCACGCGAC AAGCGCCCAT chrVII:706942-707311 + 42 5.99e-09 AGCTCGCACT CAGGATCGAACTAAGGACCAACAGATTTG CAATCTGCTG chrI:180982-181435 - 58 8.47e-09 TGGTTGCTAA GAGATTCGAACTCTTGCATCTTACGATAC CTGAGTATTC chrXI:458396-458873 - 48 8.47e-09 TGGTTGCTAA GAGATTCGAACTCTTGCATCTTACGATAC CTGAGTATTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrXV:113627-114066 8e-13 39_[-2]_32 chrIV:434030-434522 8e-13 47_[+2]_24 chrX:58957-59057 8e-13 21_[+2]_50 chrII:266292-266625 8e-13 3_[-2]_68 chrXI:46569-46983 8e-13 18_[+2]_53 chrVII:876200-876667 1.6e-12 44_[-2]_27 chrVII:185563-185919 1.6e-12 32_[+2]_39 chrIV:1201556-1201986 1.6e-12 62_[-2]_9 chrXIV:631734-632063 1.8e-12 7_[+2]_64 chrVII:828534-828979 5.3e-12 26_[+2]_45 chrIV:1175689-1176111 1.3e-11 12_[-2]_59 chrV:487209-487562 1.5e-11 5_[+2]_66 chrVII:328347-328933 1.5e-11 25_[-2]_46 chrXVI:560008-560411 5.2e-11 48_[+2]_23 chrXIII:183741-184070 7e-11 52_[+2]_19 chrXV:438463-438931 1.1e-10 52_[-2]_19 chrIV:1075410-1075653 3.2e-10 [+2]_71 chrXIII:808119-808475 4.2e-10 8_[+2]_63 chrVIII:466798-467228 4.9e-10 59_[-2]_12 chrXV:663629-664011 1.4e-09 51_[+2]_20 chrIX:324120-324482 4.7e-09 61_[+2]_10 chrVII:706942-707311 6e-09 41_[+2]_30 chrI:180982-181435 8.5e-09 57_[-2]_14 chrXI:458396-458873 8.5e-09 47_[-2]_24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF SGGRHTCGAACYCVKGACCTYCHSATTAC width=29 seqs=24 chrXV:113627-114066 ( 40) CGGATTTGAACCGATGATCTCCACATTAC 1 chrIV:434030-434522 ( 48) CGGATTTGAACCGATGATCTCCACATTAC 1 chrX:58957-59057 ( 22) CGGATTTGAACCGATGATCTCCACATTAC 1 chrII:266292-266625 ( 4) CGGATTTGAACCGATGATCTCCACATTAC 1 chrXI:46569-46983 ( 19) GGGAATTGAACCCACGATCCCCGCATTAC 1 chrVII:876200-876667 ( 45) GGGGCTCGAACCCCTAACCTTATGATTAA 1 chrVII:185563-185919 ( 33) GGGGCTCGAACCCCTAACCTTATGATTAA 1 chrIV:1201556-1201986 ( 63) GGGGCTCGAACCCCTAACCTTATGATTAA 1 chrXIV:631734-632063 ( 8) GGGACTCGAACCCGGGACCTCCCGCACCC 1 chrVII:828534-828979 ( 27) GGGGGTCGAACCCATAATCTTCTGATTAG 1 chrIV:1175689-1176111 ( 13) GAGGTTCGAACTCTCGACCTTCAGATTAT 1 chrV:487209-487562 ( 6) GGGAGTCGAACCCCGGTCTCCACGGTGAA 1 chrVII:328347-328933 ( 26) GGGAGTCGAACCCCGGTCTCCACGGTGAA 1 chrXVI:560008-560411 ( 49) GTGGATCGAACACAGGACCTCCAGATAAC 1 chrXIII:183741-184070 ( 53) CGGAATCGAACCGGGGGCCCAACGATGGC 1 chrXV:438463-438931 ( 53) GGGGCTCGAACCCCTGACATTTCGGTATC 1 chrIV:1075410-1075653 ( 1) GAGGATCGAACTCGGGACCTTTGCCGTGT 1 chrXIII:808119-808475 ( 9) CGGATTCGAACTGGGGTTGTTCGGATCAG 1 chrVIII:466798-467228 ( 60) CAGAATTGAACTAGCGACCTTTGCATTAC 1 chrXV:663629-664011 ( 52) CAGGATCGAACTGGGGACGTTCTGCGTGT 1 chrIX:324120-324482 ( 62) GGGAATTGAACCCCGATCTGGCACGCGAC 1 chrVII:706942-707311 ( 42) CAGGATCGAACTAAGGACCAACAGATTTG 1 chrI:180982-181435 ( 58) GAGATTCGAACTCTTGCATCTTACGATAC 1 chrXI:458396-458873 ( 48) GAGATTCGAACTCTTGCATCTTACGATAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 29 n= 41832 bayes= 11.2142 E= 7.0e-069 -1123 116 189 -1123 -19 -1123 199 -299 -1123 -1123 257 -1123 81 -1123 131 -1123 1 31 -43 1 -1123 -1123 -1123 159 -1123 207 -1123 -19 -1123 -1123 257 -1123 159 -1123 -1123 -1123 159 -1123 -1123 -1123 -1123 257 -1123 -1123 -299 189 -1123 1 -199 189 79 -1123 1 79 57 -141 -1123 -43 131 47 -67 -1123 224 -1123 109 -101 -201 -99 -199 189 -1123 -19 -299 199 -101 -67 -299 57 -201 101 -199 116 -201 59 -41 169 -1123 -67 33 31 -1 -67 -1123 131 179 -1123 91 -43 57 -1123 -141 -201 -101 118 -199 -101 -1 101 118 -201 -43 -199 -67 169 -43 -141 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 29 nsites= 24 E= 7.0e-069 0.000000 0.375000 0.625000 0.000000 0.291667 0.000000 0.666667 0.041667 0.000000 0.000000 1.000000 0.000000 0.583333 0.000000 0.416667 0.000000 0.333333 0.208333 0.125000 0.333333 0.000000 0.000000 0.000000 1.000000 0.000000 0.708333 0.000000 0.291667 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.041667 0.625000 0.000000 0.333333 0.083333 0.625000 0.291667 0.000000 0.333333 0.291667 0.250000 0.125000 0.000000 0.125000 0.416667 0.458333 0.208333 0.000000 0.791667 0.000000 0.708333 0.083333 0.041667 0.166667 0.083333 0.625000 0.000000 0.291667 0.041667 0.666667 0.083333 0.208333 0.041667 0.250000 0.041667 0.666667 0.083333 0.375000 0.041667 0.500000 0.250000 0.541667 0.000000 0.208333 0.416667 0.208333 0.166667 0.208333 0.000000 0.416667 0.583333 0.000000 0.625000 0.125000 0.250000 0.000000 0.125000 0.041667 0.083333 0.750000 0.083333 0.083333 0.166667 0.666667 0.750000 0.041667 0.125000 0.083333 0.208333 0.541667 0.125000 0.125000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGGRHTCGAACYCVKGACCTYCHSATTAC MEME-2 regular expression -------------------------------------------------------------------------------- [GC][GA]G[AG][ATC]T[CT]GAAC[CT][CG][ACG][TG][GA]A[CT][CT][TC][TC][CAT][ACT][GC][AG]TTA[CA] -------------------------------------------------------------------------------- Time 635.60 secs. ******************************************************************************** ******************************************************************************** MOTIF KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 width = 30 sites = 18 llr = 437 E-value = 9.0e-057 ******************************************************************************** -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 Description -------------------------------------------------------------------------------- Simplified A 1141::1:14::4:5::::11455511111 pos.-specific C ::::::::::::1::1::1:21:::::::: probability G 5737389:5:945:4:9a:9:41439:844 matrix T 433372:a4616:a191:917:41219155 bits 2.6 * 2.3 * * ** 2.1 * * ** 1.8 ** * ** * * Relative 1.5 *** * * ** * * Entropy 1.3 *** * * ***** * * (35.0 bits) 1.0 * ***** ** * ***** *** 0.8 ** ****** **** ***** * **** 0.5 ** *************************** 0.3 ****************************** 0.0 ------------------------------ Multilevel GGAGTGGTGTGTGTATGGTGTAAAAGTGTT consensus TTGTG TA GA G CGTGG GG sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ------------------------------ chrXII:5541-5790 - 50 5.58e-18 TGTGGGTGTG GGTGTGGTGTGGGTGTGGTGTGTGGGTGTG GTGTATATAT chrXI:666576-666734 + 15 1.67e-15 TGGGTGTGTG GGTGTGGTGTGGGTGTGGTGTGGGTGTGGG TGTGGTGTGG chrXIII:5392-5699 - 47 4.46e-15 TGGGTGTGGT GTGTGGGTGTGGGTGTGGTGTGTGGGTGTG GGTGTATATA chrXIV:783996-784127 + 66 4.46e-15 GGGTGTGGGT GTGTGGGTGTGGGTGTGGTGTGTGGGTGTG GTGTG chrXIII:923576-923798 + 2 4.28e-14 T TGAGTGGTTAGTATATGGTGTAAAAGTGGT ATAACGCATG chrXII:1064982-1065243 + 15 7.11e-14 GGGTGTGGTG TGGTGTGTGTGTGTGTGGTGTGTGGGTGTG GTGGGTGTGG chrVIII:562350-562575 + 69 1.30e-13 GTGGGTGTGG GTGTGTGTGTGGGTGTGGTGTGTGGGTGTG GG chrI:413-889 - 71 1.30e-13 . GGAGTGGTAAGTATATGGTGCAAAAGTGGT ATAACGTATG chrIX:439099-439318 + 10 2.60e-13 TATAAAAAT TGAGTGGTTAGTATATGGCGTAAAAGTGGT ATAATGTATG chrVIII:556112-556274 + 62 4.05e-13 GTATATAAAT TGAGTGGTTAGTATATGGTGAAAAAGTGGT ATAACGTAT chrVI:5307-5472 - 62 1.38e-11 TATATAAAT TGAGTGGTTAGTATACGGTGAAAAAGAGGT ATAACGTATG chrXII:1064337-1064501 + 12 2.09e-11 GTATTTAAAT TGAGTGGTTAGTATATGGTGCAAAAGTAAT ATAACGTATG chrVII:561-741 - 51 2.46e-11 GTATATAAAT TAAGTGGTAAGTATATGGCGTAAAAGTGGT ATAACGTATG chrVIII:556788-557118 + 59 1.29e-10 GTGGGTGTGG GTGTGGGTGTGGGTGTGGTGTGTGTATATA TATGTCACTG chrXV:593-819 - 62 2.76e-10 TATATAAAT TGAGTGGTTAGTATACGGTGTAAAATAGTA TAACGTATGT chrXV:608190-608666 + 67 1.66e-09 CATCCCAATT ATTGTTGTTTGGGTTTGGTGCCATGGTTTG ACTA chrV:566755-567231 - 36 1.97e-09 GCGCGTATGT GGTGTGGTGTGTGTTTTGTACCTTAGTTTT GTTTTTTTTA chrXI:551415-551891 - 21 6.40e-09 TTTCCATTTT GGTATGATGTTTCTATGGTTTGTATGTGGT TAATTTACGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrXII:5541-5790 5.6e-18 49_[-3]_21 chrXI:666576-666734 1.7e-15 14_[+3]_56 chrXIII:5392-5699 4.5e-15 46_[-3]_24 chrXIV:783996-784127 4.5e-15 65_[+3]_5 chrXIII:923576-923798 4.3e-14 1_[+3]_69 chrXII:1064982-1065243 7.1e-14 14_[+3]_56 chrVIII:562350-562575 1.3e-13 68_[+3]_2 chrI:413-889 1.3e-13 70_[-3] chrIX:439099-439318 2.6e-13 9_[+3]_61 chrVIII:556112-556274 4e-13 61_[+3]_9 chrVI:5307-5472 1.4e-11 61_[-3]_9 chrXII:1064337-1064501 2.1e-11 11_[+3]_59 chrVII:561-741 2.5e-11 50_[-3]_20 chrVIII:556788-557118 1.3e-10 58_[+3]_12 chrXV:593-819 2.8e-10 61_[-3]_9 chrXV:608190-608666 1.7e-09 66_[+3]_4 chrV:566755-567231 2e-09 35_[-3]_35 chrXI:551415-551891 6.4e-09 20_[-3]_50 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK width=30 seqs=18 chrXII:5541-5790 ( 50) GGTGTGGTGTGGGTGTGGTGTGTGGGTGTG 1 chrXI:666576-666734 ( 15) GGTGTGGTGTGGGTGTGGTGTGGGTGTGGG 1 chrXIII:5392-5699 ( 47) GTGTGGGTGTGGGTGTGGTGTGTGGGTGTG 1 chrXIV:783996-784127 ( 66) GTGTGGGTGTGGGTGTGGTGTGTGGGTGTG 1 chrXIII:923576-923798 ( 2) TGAGTGGTTAGTATATGGTGTAAAAGTGGT 1 chrXII:1064982-1065243 ( 15) TGGTGTGTGTGTGTGTGGTGTGTGGGTGTG 1 chrVIII:562350-562575 ( 69) GTGTGTGTGTGGGTGTGGTGTGTGGGTGTG 1 chrI:413-889 ( 71) GGAGTGGTAAGTATATGGTGCAAAAGTGGT 1 chrIX:439099-439318 ( 10) TGAGTGGTTAGTATATGGCGTAAAAGTGGT 1 chrVIII:556112-556274 ( 62) TGAGTGGTTAGTATATGGTGAAAAAGTGGT 1 chrVI:5307-5472 ( 62) TGAGTGGTTAGTATACGGTGAAAAAGAGGT 1 chrXII:1064337-1064501 ( 12) TGAGTGGTTAGTATATGGTGCAAAAGTAAT 1 chrVII:561-741 ( 51) TAAGTGGTAAGTATATGGCGTAAAAGTGGT 1 chrVIII:556788-557118 ( 59) GTGTGGGTGTGGGTGTGGTGTGTGTATATA 1 chrXV:593-819 ( 62) TGAGTGGTTAGTATACGGTGTAAAATAGTA 1 chrXV:608190-608666 ( 67) ATTGTTGTTTGGGTTTGGTGCCATGGTTTG 1 chrV:566755-567231 ( 36) GGTGTGGTGTGTGTTTTGTACCTTAGTTTT 1 chrXI:551415-551891 ( 21) GGTATGATGTTTCTATGGTTTGTATGTGGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 30 n= 41251 bayes= 11.2959 E= 9.0e-057 -257 -1081 157 42 -257 -1081 199 -26 42 -1081 72 -26 -257 -1081 199 -26 -1081 -1081 72 112 -1081 -1081 231 -99 -257 -1081 249 -1081 -1081 -1081 -1081 159 -158 -1081 157 23 42 -1081 -1081 74 -1081 -1081 249 -257 -1081 -1081 121 88 42 -160 157 -1081 -1081 -1081 -1081 159 59 -1081 121 -158 -1081 -60 -1081 142 -1081 -1081 249 -257 -1081 -1081 257 -1081 -1081 -60 -1081 142 -257 -1081 240 -257 -158 40 -1081 101 42 -60 140 -1081 59 -1081 -160 42 59 -1081 121 -158 59 -1081 99 -99 -257 -1081 240 -257 -158 -1081 -1081 142 -158 -1081 221 -158 -257 -1081 140 59 -158 -1081 121 59 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 30 nsites= 18 E= 9.0e-057 0.055556 0.000000 0.500000 0.444444 0.055556 0.000000 0.666667 0.277778 0.444444 0.000000 0.277778 0.277778 0.055556 0.000000 0.666667 0.277778 0.000000 0.000000 0.277778 0.722222 0.000000 0.000000 0.833333 0.166667 0.055556 0.000000 0.944444 0.000000 0.000000 0.000000 0.000000 1.000000 0.111111 0.000000 0.500000 0.388889 0.444444 0.000000 0.000000 0.555556 0.000000 0.000000 0.944444 0.055556 0.000000 0.000000 0.388889 0.611111 0.444444 0.055556 0.500000 0.000000 0.000000 0.000000 0.000000 1.000000 0.500000 0.000000 0.388889 0.111111 0.000000 0.111111 0.000000 0.888889 0.000000 0.000000 0.944444 0.055556 0.000000 0.000000 1.000000 0.000000 0.000000 0.111111 0.000000 0.888889 0.055556 0.000000 0.888889 0.055556 0.111111 0.222222 0.000000 0.666667 0.444444 0.111111 0.444444 0.000000 0.500000 0.000000 0.055556 0.444444 0.500000 0.000000 0.388889 0.111111 0.500000 0.000000 0.333333 0.166667 0.055556 0.000000 0.888889 0.055556 0.111111 0.000000 0.000000 0.888889 0.111111 0.000000 0.777778 0.111111 0.055556 0.000000 0.444444 0.500000 0.111111 0.000000 0.388889 0.500000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGDGTGGTKWGKRTRTGGTGTRWRRGTGKK MEME-3 regular expression -------------------------------------------------------------------------------- [GT][GT][AGT][GT][TG]GGT[GT][TA]G[TG][GA]T[AG]TGGTG[TC][AG][AT][AG][AG]GTG[TG][TG] -------------------------------------------------------------------------------- Time 934.92 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrVIII:116044-116351 5.28e-08 6_[-1(1.12e-11)]_67 chrVII:921773-921982 7.48e-01 100 chrV:449599-449802 7.23e-01 100 chrXVI:377065-377332 7.67e-01 100 chrXII:151018-151212 6.16e-01 100 chrXIV:619701-620050 6.48e-01 100 chrV:151884-152252 1.00e+00 100 chrVIII:466798-467228 7.60e-11 25_[+1(1.86e-08)]_7_[-2(4.90e-10)]_\ 12 chrVII:805039-805221 2.86e-01 100 chrV:140151-140505 1.89e-01 100 chrXIV:569690-570166 6.55e-08 36_[-1(1.78e-11)]_37 chrXIV:502864-502986 9.86e-01 100 chrXVI:689373-689743 1.73e-07 55_[+1(1.78e-11)]_18 chrIV:568691-569013 7.71e-01 100 chrIV:428519-428709 9.00e-01 100 chrVI:162045-162365 2.11e-05 71_[+1(3.52e-09)]_2 chrXI:436858-437056 3.03e-01 100 chrVII:706942-707311 8.54e-06 41_[+2(5.99e-09)]_30 chrXV:882529-883005 5.63e-01 100 chrVII:738943-739273 4.32e-08 62_[+1(4.22e-12)]_11 chrXV:436552-437028 8.65e-01 100 chrXV:445754-446132 5.94e-01 100 chrIV:1201556-1201986 3.03e-15 27_[+1(1.28e-10)]_8_[-2(1.55e-12)]_\ 9 chrX:608821-608921 2.58e-01 100 chrVII:846626-847102 3.76e-01 100 chrIV:1302067-1302362 1.77e-01 100 chrVII:737127-737603 5.61e-01 100 chrXIV:415601-415939 7.58e-01 100 chrXI:284363-284765 8.27e-01 100 chrXV:800390-800866 2.46e-01 100 chrXII:231161-231637 3.72e-01 100 chrIX:183424-183682 8.19e-01 100 chrIV:917253-917729 9.50e-01 100 chrVII:401451-401768 1.07e-01 13_[-1(5.80e-05)]_60 chrV:138503-139012 7.51e-01 100 chrXV:979767-980243 8.87e-01 100 chrIX:197410-197720 8.81e-01 100 chrXV:185535-186011 3.80e-01 100 chrVII:496768-497186 9.79e-01 100 chrIV:1492537-1493013 3.49e-01 100 chrIX:255801-256057 2.79e-01 100 chrIX:317898-318090 8.93e-01 100 chrIV:1360780-1361134 6.89e-01 100 chrXV:624120-624561 5.41e-01 100 chrXII:815549-816025 3.27e-01 100 chrXVI:731095-731257 9.25e-01 100 chrVII:732945-733084 9.18e-01 100 chrI:142166-142672 2.69e-01 100 chrXII:401987-402463 4.13e-01 100 chrXIII:57691-57852 5.22e-01 100 chrXII:214814-215127 6.18e-10 9_[-1(4.68e-13)]_64 chrIV:657818-658294 8.29e-01 100 chrXV:608190-608666 1.37e-06 66_[+3(1.66e-09)]_4 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chrIV:556096-556572 7.36e-02 12_[-1(3.62e-05)]_61 chrXI:552253-552468 3.18e-01 100 chrXVI:412483-412674 1.45e-01 100 chrVII:1057296-1057772 7.67e-01 100 chrXIII:808119-808475 4.23e-11 8_[+2(4.17e-10)]_7_[-1(3.59e-08)]_\ 29 chrII:530433-530909 7.31e-01 100 chrVI:5307-5472 2.58e-07 61_[-3(1.38e-11)]_9 chrVIII:132865-133391 9.44e-08 3_[-1(8.16e-12)]_70 chrXIII:499813-500126 6.78e-01 100 chrXI:666112-666588 2.40e-02 100 chrXV:326449-326778 8.19e-01 100 chrIV:492257-492537 3.11e-01 100 chrIII:138934-139148 7.40e-01 100 chrXV:82900-83063 5.17e-01 100 chrV:51988-52770 7.82e-01 100 chrXII:1064982-1065243 3.25e-11 14_[+3(7.11e-14)]_21_[+3(8.68e-06)]_\ 5 chrXIII:753596-754072 1.45e-01 100 chrVII:541607-541942 8.77e-01 100 chrVIII:358354-358772 7.91e-06 30_[-1(1.11e-09)]_43 chrXVI:530756-531232 8.97e-01 100 chrIV:1401789-1402265 3.59e-02 50_[-2(2.16e-05)]_21 chrXV:1004192-1004385 3.35e-01 100 chrXV:678014-678259 9.63e-01 100 chrII:266292-266625 1.24e-08 3_[-2(7.99e-13)]_68 chrVII:574612-575088 7.67e-01 100 chrIV:1402513-1403323 1.10e-01 57_[+3(8.04e-05)]_13 chrX:701752-701852 2.53e-01 100 chrXVI:572077-572459 1.17e-05 49_[+1(6.31e-09)]_24 chrIV:1075410-1075653 6.35e-09 [+2(3.25e-10)]_8_[-1(2.78e-06)]_36 chrXIV:507139-507554 2.22e-01 100 chrIII:142642-142951 2.61e-01 100 chrV:423524-423675 7.03e-01 100 chrIII:114308-114679 6.92e-01 100 chrXII:718063-718539 1.44e-01 39_[-3(6.29e-05)]_1_[-3(8.85e-05)] chrXV:332858-333334 3.69e-01 100 chrVIII:554075-554551 9.67e-01 100 chrVII:662778-663254 8.63e-01 100 chrXVI:433952-434428 5.84e-01 100 chrXIV:576940-577250 8.37e-01 100 chrVII:930896-931211 2.38e-01 100 chrXIII:761845-762263 8.65e-01 100 chrXI:334088-334442 9.51e-01 100 chrV:102272-102510 1.60e-01 100 chrVII:544558-544797 9.15e-01 100 chrXIV:216761-217237 9.84e-01 100 chrV:423786-423946 2.65e-01 100 chrVIII:543352-543828 7.50e-01 100 chrXV:1027944-1028271 8.20e-01 100 chrII:169346-169570 8.61e-01 100 chrIV:400678-401154 9.95e-01 100 chrVII:534937-535191 3.00e-01 100 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chrV:59166-59339 4.47e-01 100 chrIII:127556-127876 6.19e-05 48_[+1(6.93e-09)]_25 chrIV:668053-668185 3.47e-01 100 chrX:608107-608207 1.37e-01 100 chrX:156796-156896 3.70e-01 100 chrXII:499285-499620 9.92e-01 100 chrXIII:504749-505104 2.72e-05 17_[+1(3.52e-09)]_56 chrX:58957-59057 1.57e-16 21_[+2(7.99e-13)]_8_[-1(1.12e-11)]_\ 15 chrIX:210725-210946 1.67e-01 100 chrXVI:581926-582184 2.48e-06 55_[+1(1.28e-10)]_18 chrVIII:387470-387648 9.92e-01 100 chrXV:593-819 4.48e-06 61_[-3(2.76e-10)]_9 chrXII:819379-819855 6.67e-01 100 chrVII:311848-312198 7.38e-01 100 chrI:151401-151702 7.75e-01 100 chrII:167026-167502 9.50e-01 100 chrIII:177946-178131 5.45e-01 100 chrII:332344-332625 1.00e+00 100 chrXV:854016-854266 9.78e-01 100 chrV:492304-492586 1.11e-04 3_[-1(3.31e-08)]_70 chrXV:841668-842144 9.96e-01 100 chrIV:1180888-1181364 6.82e-01 100 chrVIII:381420-382103 2.09e-01 100 chrII:238081-238451 6.64e-01 100 chrXIV:27045-27521 1.67e-01 100 chrXIII:550053-550252 3.92e-01 100 chrIV:488677-489067 6.80e-06 22_[-1(4.73e-09)]_51 chrXIII:671500-671715 8.61e-01 100 chrXIII:507792-508268 2.35e-01 100 chrXII:198625-198816 9.51e-01 100 chrXV:842426-842773 2.71e-01 100 chrVII:437809-438285 2.12e-01 100 chrXIII:5392-5699 2.44e-11 46_[-3(4.46e-15)]_24 chrII:88970-89446 9.99e-01 100 chrXVI:56115-56485 4.78e-02 100 chrIV:915940-916172 9.95e-01 100 chrXI:26012-26476 2.94e-01 100 chrXV:571767-572059 6.85e-02 100 chrX:56057-56157 2.77e-01 100 chrIV:434030-434522 4.84e-09 47_[+2(7.99e-13)]_24 chrIV:917053-917529 9.70e-01 100 chrXIV:379290-379766 6.70e-01 100 chrXV:113627-114066 1.57e-16 4_[+1(1.12e-11)]_8_[-2(7.99e-13)]_\ 32 chrXIV:557744-557881 8.03e-01 100 chrV:288437-288678 6.92e-01 100 chrVII:482558-483036 8.40e-01 100 chrXV:444857-445333 6.54e-03 55_[+3(6.78e-05)]_15 chrX:436172-436272 7.37e-01 100 chrXIII:465193-465669 8.30e-01 100 chrXVI:684268-684744 1.37e-01 100 chrII:256643-256988 5.25e-01 100 chrV:434505-434796 3.39e-01 100 chrIV:579507-580105 3.76e-01 100 chrIV:974429-974554 6.05e-02 100 chrXI:557159-557635 5.32e-01 100 chrXV:889413-889889 6.95e-01 100 chrVIII:237691-238137 4.38e-06 49_[-1(1.11e-09)]_24 chrVII:481910-482227 7.05e-02 100 chrII:376376-376529 2.90e-01 100 chrIX:316983-317459 2.75e-01 100 chrXVI:819277-819648 4.40e-01 100 chrIV:520833-521106 2.30e-04 51_[+1(9.60e-08)]_22 chrVIII:115455-115619 7.93e-01 100 chrXIII:887720-887957 2.90e-01 100 chrXVI:435800-436148 1.51e-05 14_[-1(8.35e-09)]_59 chrXIII:226723-226983 5.82e-01 100 chrIX:210499-210791 2.88e-07 68_[+1(1.78e-11)]_5 chrXV:877792-878017 3.36e-01 100 chrIV:1237930-1238375 5.30e-01 100 chrXIII:732942-733418 8.70e-01 100 chrVII:828534-828979 2.00e-12 26_[+2(5.35e-12)]_7_[-1(3.06e-08)]_\ 11 chrXVI:277847-278323 7.36e-01 100 chrXIII:183741-184070 5.06e-07 52_[+2(7.00e-11)]_19 chrXIV:723056-723252 5.68e-01 100 chrXII:812038-812514 1.86e-01 100 chrV:322069-322429 3.57e-01 100 chrVII:545466-545716 6.74e-01 100 chrIV:339042-339518 9.57e-01 100 chrXV:621521-621846 7.54e-01 100 chrXII:962951-963251 4.49e-01 100 chrIV:491641-491853 5.33e-01 100 chrVI:148458-148728 2.98e-01 100 chrIV:118458-118720 7.30e-01 100 chrV:266328-266517 7.42e-01 100 chrX:204515-204615 1.26e-01 100 chrXV:842570-843046 3.21e-01 100 chrIV:472888-473364 9.46e-01 100 chrV:487209-487562 4.06e-09 5_[+2(1.49e-11)]_7_[-1(4.29e-05)]_\ 32 chrXIV:500177-500811 6.51e-01 100 chrXIII:552003-552479 8.01e-01 100 chrVII:783887-784137 5.47e-01 100 chrIV:1204178-1204654 5.04e-01 100 chrIV:1354558-1354868 7.70e-01 100 chrII:326714-327026 1.26e-06 19_[-1(9.15e-09)]_54 chrIV:1359266-1359505 2.20e-01 100 chrXIII:24532-24829 7.13e-01 100 chrIV:915146-915539 9.21e-01 100 chrIV:465215-465519 7.10e-01 100 chrXI:219725-219971 4.15e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: kali.stanford.edu ********************************************************************************