******************************************************************************** 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/fly/fasta/RankLinear8.0_60/trh.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrX:18533369-18533489 1.0000 120 chr3R:21589554-21589674 1.0000 120 chrX:7703113-7703233 1.0000 120 chr2L:2731468-2731588 1.0000 120 chr2R:16178571-16178691 1.0000 120 chrX:8677543-8677663 1.0000 120 chr2R:8615308-8615428 1.0000 120 chr3L:11304014-11304134 1.0000 120 chr3R:23820445-23820565 1.0000 120 chr3L:11291569-11291689 1.0000 120 chr2L:7515515-7515635 1.0000 120 chr3R:10681747-10681867 1.0000 120 chr3L:11408814-11408934 1.0000 120 chr3R:26436759-26436879 1.0000 120 chr3R:24318533-24318653 1.0000 120 chr2L:7541384-7541504 1.0000 120 chr2L:8732791-8732911 1.0000 120 chr3R:10648967-10649087 1.0000 120 chr2L:14701641-14701761 1.0000 120 chr3L:3305535-3305655 1.0000 120 chr3L:6220291-6220411 1.0000 120 chr2R:21049426-21049546 1.0000 120 chr2L:16476621-16476741 1.0000 120 chr3L:3770992-3771112 1.0000 120 chr3L:9972705-9972825 1.0000 120 chr2L:11189195-11189315 1.0000 120 chr2R:10052215-10052335 1.0000 120 chrX:12221651-12221771 1.0000 120 chr2L:20890036-20890156 1.0000 120 chr3R:14285656-14285776 1.0000 120 chr3L:10745687-10745807 1.0000 120 chrX:13232832-13232952 1.0000 120 chr3L:15693202-15693322 1.0000 120 chrX:19146435-19146555 1.0000 120 chr3L:3760711-3760831 1.0000 120 chr3L:18144680-18144800 1.0000 120 chr2L:5113723-5113843 1.0000 120 chr2L:1214655-1214775 1.0000 120 chrX:16598537-16598657 1.0000 120 chr4:695165-695285 1.0000 120 chr3L:11285274-11285394 1.0000 120 chr3L:8689816-8689936 1.0000 120 chr3L:9859791-9859911 1.0000 120 chr3R:6373905-6374025 1.0000 120 chr3R:31060374-31060494 1.0000 120 chr3R:25445640-25445760 1.0000 120 chr2L:3748823-3748943 1.0000 120 chr2L:10249731-10249851 1.0000 120 chr3R:9494358-9494478 1.0000 120 chr3R:16748678-16748798 1.0000 120 chr2R:22886283-22886403 1.0000 120 chr2L:15061540-15061660 1.0000 120 chrX:7579955-7580075 1.0000 120 chr3L:16779741-16779861 1.0000 120 chrX:11454512-11454632 1.0000 120 chr2R:18774913-18775033 1.0000 120 chr3L:22074595-22074715 1.0000 120 chr2L:21624109-21624229 1.0000 120 chr2R:23574875-23574995 1.0000 120 chr2R:22200058-22200178 1.0000 120 chrX:3704246-3704366 1.0000 120 chr3R:21263326-21263446 1.0000 120 chrX:10115641-10115761 1.0000 120 chr3L:19179710-19179830 1.0000 120 chrX:7333332-7333452 1.0000 120 chr2R:16800155-16800275 1.0000 120 chr3L:905109-905229 1.0000 120 chr2L:5798114-5798234 1.0000 120 chr3L:13356248-13356368 1.0000 120 chr3R:28327357-28327477 1.0000 120 chr3R:15837234-15837354 1.0000 120 chr2R:14577773-14577893 1.0000 120 chr3R:10649166-10649286 1.0000 120 chr2L:1094760-1094880 1.0000 120 chrX:13137188-13137308 1.0000 120 chr3R:15792617-15792737 1.0000 120 chr3R:10641373-10641493 1.0000 120 chr2R:14971271-14971391 1.0000 120 chr3R:27138112-27138232 1.0000 120 chr2L:1427867-1427987 1.0000 120 chr2R:11639693-11639813 1.0000 120 chr2L:8528495-8528615 1.0000 120 chrX:7553561-7553681 1.0000 120 chr3L:22277379-22277499 1.0000 120 chr3R:24298688-24298808 1.0000 120 chr3R:19627797-19627917 1.0000 120 chr2L:3778344-3778464 1.0000 120 chr3R:31169106-31169226 1.0000 120 chr3L:613695-613815 1.0000 120 chr3L:8835052-8835172 1.0000 120 chr2R:21057339-21057459 1.0000 120 chr2R:23725932-23726052 1.0000 120 chr3R:27130149-27130269 1.0000 120 chr2L:7339758-7339878 1.0000 120 chr2L:3776030-3776150 1.0000 120 chr3L:7782339-7782459 1.0000 120 chrX:8777211-8777331 1.0000 120 chr2R:11178671-11178791 1.0000 120 chr3R:22121321-22121441 1.0000 120 chr3L:6059259-6059379 1.0000 120 chr3L:22163883-22164003 1.0000 120 chrX:16650600-16650720 1.0000 120 chrX:7015044-7015164 1.0000 120 chr3R:27209130-27209250 1.0000 120 chr3R:25888640-25888760 1.0000 120 chr3L:18203956-18204076 1.0000 120 chr3L:18822505-18822625 1.0000 120 chr3L:6706004-6706124 1.0000 120 chr3L:13922404-13922524 1.0000 120 chr2L:8859999-8860119 1.0000 120 chrX:8892684-8892804 1.0000 120 chr2L:11206965-11207085 1.0000 120 chrX:3357791-3357911 1.0000 120 chrX:4906725-4906845 1.0000 120 chr2R:23577368-23577488 1.0000 120 chr3L:11580016-11580136 1.0000 120 chrX:10515479-10515599 1.0000 120 chr3L:16710388-16710508 1.0000 120 chr4:406979-407099 1.0000 120 chr3L:1740222-1740342 1.0000 120 chr2L:19517462-19517582 1.0000 120 chr2L:220707-220827 1.0000 120 chr3R:14898469-14898589 1.0000 120 chr2R:12633331-12633451 1.0000 120 chr2R:24174677-24174797 1.0000 120 chr3L:14708164-14708284 1.0000 120 chr3R:13676293-13676413 1.0000 120 chr3L:18782160-18782280 1.0000 120 chr3R:20285803-20285923 1.0000 120 chr2L:3444877-3444997 1.0000 120 chr3L:7151920-7152040 1.0000 120 chr2L:10987485-10987605 1.0000 120 chr3R:24809726-24809846 1.0000 120 chr2L:21149257-21149377 1.0000 120 chr2L:1462192-1462312 1.0000 120 chr3L:6977546-6977666 1.0000 120 chr3R:10144224-10144344 1.0000 120 chrX:7617090-7617210 1.0000 120 chr2R:20313951-20314071 1.0000 120 chr3R:23225429-23225549 1.0000 120 chr3R:23723715-23723835 1.0000 120 chr2L:3861585-3861705 1.0000 120 chr3L:1376068-1376188 1.0000 120 chr2L:7632904-7633024 1.0000 120 chrX:12242554-12242674 1.0000 120 chr2L:11045118-11045238 1.0000 120 chr2L:10522596-10522716 1.0000 120 chr3L:3665449-3665569 1.0000 120 chr2L:18987589-18987709 1.0000 120 chr3R:26130688-26130808 1.0000 120 chr3R:5470778-5470898 1.0000 120 chr2R:19357498-19357618 1.0000 120 chrX:8196966-8197086 1.0000 120 chr3R:16431788-16431908 1.0000 120 chr2L:10442069-10442189 1.0000 120 chr2L:2883109-2883229 1.0000 120 chr3L:19834274-19834394 1.0000 120 chr2R:11742829-11742949 1.0000 120 chrX:21241969-21242089 1.0000 120 chr3R:10388877-10388997 1.0000 120 chr2R:9006895-9007015 1.0000 120 chr3L:12684840-12684960 1.0000 120 chr2L:6280479-6280599 1.0000 120 chr2L:6338757-6338877 1.0000 120 chr3R:6468193-6468313 1.0000 120 chr2R:22063275-22063395 1.0000 120 chr2R:22511581-22511701 1.0000 120 chr3L:9508705-9508825 1.0000 120 chr3L:11398682-11398802 1.0000 120 chr2L:10858228-10858348 1.0000 120 chr2R:23940182-23940302 1.0000 120 chr2L:17963106-17963226 1.0000 120 chr3L:12468165-12468285 1.0000 120 chr3R:14609408-14609528 1.0000 120 chr3R:29458828-29458948 1.0000 120 chr2L:5045209-5045329 1.0000 120 chr3L:17533223-17533343 1.0000 120 chr2R:7052474-7052594 1.0000 120 chr3R:27987505-27987625 1.0000 120 chr2R:24599804-24599924 1.0000 120 chr2L:512190-512310 1.0000 120 chr2R:22317550-22317670 1.0000 120 chr2L:12021319-12021439 1.0000 120 chr3R:10560721-10560841 1.0000 120 chr3L:21347292-21347412 1.0000 120 chr2R:13198322-13198442 1.0000 120 chr3R:20989744-20989864 1.0000 120 chr2R:15821410-15821530 1.0000 120 chr3L:19655992-19656112 1.0000 120 chr2L:15912965-15913085 1.0000 120 chr2L:18567661-18567781 1.0000 120 chr3R:14347468-14347588 1.0000 120 chr2R:24565562-24565682 1.0000 120 chr3R:21856188-21856308 1.0000 120 chr3R:17151783-17151903 1.0000 120 chr2R:14352106-14352226 1.0000 120 chr2R:14434323-14434443 1.0000 120 chr3L:5185250-5185370 1.0000 120 chr3R:6920126-6920246 1.0000 120 chr3L:10735208-10735328 1.0000 120 chr3R:22368841-22368961 1.0000 120 chr3R:18439463-18439583 1.0000 120 chrX:2732228-2732348 1.0000 120 chr2R:24260729-24260849 1.0000 120 chrX:13784678-13784798 1.0000 120 chr3L:15142541-15142661 1.0000 120 chr3R:10643297-10643417 1.0000 120 chr3L:12091347-12091467 1.0000 120 chr3R:22587526-22587646 1.0000 120 chrX:11521648-11521768 1.0000 120 chr3R:14016800-14016920 1.0000 120 chr2L:16709706-16709826 1.0000 120 chr3R:21330651-21330771 1.0000 120 chr3L:3852959-3853079 1.0000 120 chr2L:14545550-14545670 1.0000 120 chr3L:2265862-2265982 1.0000 120 chr2R:19857764-19857884 1.0000 120 chrX:3085998-3086118 1.0000 120 chrX:3431856-3431976 1.0000 120 chr3L:7876218-7876338 1.0000 120 chr3L:5881679-5881799 1.0000 120 chr3R:6504541-6504661 1.0000 120 chrX:8898298-8898418 1.0000 120 chr3L:20634539-20634659 1.0000 120 chrX:3134634-3134754 1.0000 120 chrX:10732002-10732122 1.0000 120 chr2R:12019271-12019391 1.0000 120 chrX:1845570-1845690 1.0000 120 chr3R:26239120-26239240 1.0000 120 chr3L:2466726-2466846 1.0000 120 chrX:13749511-13749631 1.0000 120 chr2R:23366550-23366670 1.0000 120 chr2L:17243443-17243563 1.0000 120 chr3L:9129172-9129292 1.0000 120 chr2L:13215808-13215928 1.0000 120 chr3L:1166413-1166533 1.0000 120 chrX:15870912-15871032 1.0000 120 chr2L:16888263-16888383 1.0000 120 chr3R:30601869-30601989 1.0000 120 chr3L:17242216-17242336 1.0000 120 chr3R:29489310-29489430 1.0000 120 chr3L:11197657-11197777 1.0000 120 chr3R:19226670-19226790 1.0000 120 chr3L:18403361-18403481 1.0000 120 chr2R:6512449-6512569 1.0000 120 chr2L:5949235-5949355 1.0000 120 chr3R:25884430-25884550 1.0000 120 chrX:4680040-4680160 1.0000 120 chr3R:18311742-18311862 1.0000 120 chr2R:13990718-13990838 1.0000 120 ******************************************************************************** ******************************************************************************** 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/fly/inference_raw/MEME/RankLinear8.0_60_trh/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/trh.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= 30000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 30000 norand= no csites= 1000 Letter frequencies in dataset: A 0.323 C 0.176 G 0.177 T 0.324 Background letter frequencies (from file dataset with add-one prior applied): A 0.322 C 0.176 G 0.177 T 0.324 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CAGTGCNG MEME-1 width = 8 sites = 39 llr = 327 E-value = 3.6e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :8:1::31 pos.-specific C a::1:931 probability G ::a1a127 matrix T :2:7::22 bits 2.5 * * * 2.3 * * ** 2.0 * * ** 1.8 * * ** Relative 1.5 * * ** Entropy 1.3 * * ** (12.1 bits) 1.0 * * ** * 0.8 *** ** * 0.5 ****** * 0.3 ****** * 0.0 -------- Multilevel CAGTGCAG consensus C sequence G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:16748678-16748798 70 3.15e-06 GCATGCAACT CAGTGCCG CCATCTGACG chrX:3085998-3086118 101 1.21e-05 TTTTTTCTCA CAGTGCAG CTTATCGGCT chr3L:21347292-21347412 12 1.21e-05 TACTTTTGTA CAGTGCAG GTCAAGTTAC chr2L:3861585-3861705 73 1.21e-05 AATTTTTTCG CAGTGCAG TCTCCTTTTC chr3L:19179710-19179830 23 1.21e-05 CCGTTTCTTC CAGTGCAG AGAACAGGAC chr2R:22200058-22200178 79 1.21e-05 CCTAGCGCTG CAGTGCAG GTGGGCCGTG chr3R:17151783-17151903 74 1.79e-05 AGCTGTTGCG CAGTGCTG GAAAGTGCCG chr2R:13198322-13198442 72 1.79e-05 CGAATTCCGA CAGTGCTG TTAAACTACA chr2L:6338757-6338877 14 1.79e-05 GTTCCAACTC CAGTGCTG GAAAGTGCGC chrX:8898298-8898418 71 1.96e-05 ATCGATCTGG CAGCGCCG TGTAAATCTT chr3L:2466726-2466846 97 2.28e-05 ACTGGTCACT CTGTGCCG TATATAAGCA chr2L:5045209-5045329 38 2.28e-05 ACCATTAGCG CTGTGCCG TAGTTATTTT chr2L:19517462-19517582 85 2.94e-05 GACAGTTCCA CTGTGCGG CGAAGCTTTT chr2R:12019271-12019391 6 4.01e-05 GAGTC CAGGGCGG TTTTTTGATG chr3R:27987505-27987625 85 4.01e-05 TTTTTTCTTG CTGTGCAG ATTTGCATAG chr2L:1214655-1214775 95 4.01e-05 TCCAGGCCCA CTGTGCAG TTCCGTCTCT chrX:12242554-12242674 92 4.59e-05 TTATTTTTCT CAGTGCCT CTCCTCTCCC chr3R:10641373-10641493 22 5.22e-05 TGTAAAAGTT CAGGGCAG TCATAAATCA chrX:10115641-10115761 40 5.22e-05 CGGGGATTTT CAGTGCCC CACCCCCCTT chr3R:6504541-6504661 112 5.85e-05 TGAGTAGCCG CAGCGCTG A chr3R:10643297-10643417 33 5.85e-05 TGTCAACGCA CAGAGCCG TGGGGCAAAC chrX:21241969-21242089 43 7.01e-05 CGCTGTGTTT CAGTGCGT GTGATTTGTT chr3R:16431788-16431908 81 7.01e-05 TGGGGTCAAG CAGTGCGT GCGTATGTAC chr3R:20285803-20285923 42 7.01e-05 cacacacGCC CTGTGCTG CAACGCATGA chr3R:22121321-22121441 25 7.01e-05 TGGCAATGTA CAGTGCGT TTCATAAAGC chr3L:2265862-2265982 56 9.01e-05 TCCGCTTCAG CAGAGCGG TGGAGGACGT chr2L:2883109-2883229 18 9.01e-05 TAACATGTGC CAGGGCTG CAGAGTCCGT chr3L:6059259-6059379 46 9.01e-05 GTCAATGAAG CAGTGCAT AGAACGGAAC chr2L:20890036-20890156 83 9.59e-05 CATTTTCTTT CAGTGCAC CGATTCACCC chr3R:26239120-26239240 106 1.07e-04 TAGCCCGGCT CAGAGCAG TTCAGCC chr2R:24260729-24260849 98 1.07e-04 CTTGATAGCA CAGTGCCA ACAAAAAATA chr2L:11045118-11045238 69 1.11e-04 AAAAAGTCAA CTGCGCCG CTGCCATTTG chr3R:10649166-10649286 58 1.11e-04 CCGCCGCCAT CGGTGCCG TAAATAAGTC chr2L:21149257-21149377 29 1.25e-04 ataaaaatag cagtgctt gggacctgcg chr2L:10858228-10858348 99 1.36e-04 CCATAGCTAC CAGTGCTC AAATCatatc chr2L:8528495-8528615 55 1.36e-04 GTCGGACAAG CAGTGCGA CTTGGGATGA chr3L:19834274-19834394 66 1.61e-04 GGCTGCGATC CAGTGGGG CTATCGATAG chr3L:12091347-12091467 69 1.78e-04 ATTTATGCTA CAGTGGAG CATCAATAAA chr2R:14434323-14434443 50 2.76e-04 TATGGAGTCA CAGCGCCA GTCGCTACCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:16748678-16748798 3.2e-06 69_[+1]_43 chrX:3085998-3086118 1.2e-05 100_[+1]_12 chr3L:21347292-21347412 1.2e-05 11_[+1]_101 chr2L:3861585-3861705 1.2e-05 72_[+1]_40 chr3L:19179710-19179830 1.2e-05 22_[+1]_90 chr2R:22200058-22200178 1.2e-05 78_[+1]_34 chr3R:17151783-17151903 1.8e-05 73_[+1]_39 chr2R:13198322-13198442 1.8e-05 71_[+1]_41 chr2L:6338757-6338877 1.8e-05 13_[+1]_99 chrX:8898298-8898418 2e-05 70_[+1]_42 chr3L:2466726-2466846 2.3e-05 96_[+1]_16 chr2L:5045209-5045329 2.3e-05 37_[+1]_75 chr2L:19517462-19517582 2.9e-05 84_[+1]_28 chr2R:12019271-12019391 4e-05 5_[+1]_107 chr3R:27987505-27987625 4e-05 84_[+1]_28 chr2L:1214655-1214775 4e-05 94_[+1]_18 chrX:12242554-12242674 4.6e-05 91_[+1]_21 chr3R:10641373-10641493 5.2e-05 21_[+1]_91 chrX:10115641-10115761 5.2e-05 39_[+1]_73 chr3R:6504541-6504661 5.8e-05 111_[+1]_1 chr3R:10643297-10643417 5.8e-05 32_[+1]_80 chrX:21241969-21242089 7e-05 42_[+1]_70 chr3R:16431788-16431908 7e-05 80_[+1]_32 chr3R:20285803-20285923 7e-05 41_[+1]_71 chr3R:22121321-22121441 7e-05 24_[+1]_88 chr3L:2265862-2265982 9e-05 55_[+1]_57 chr2L:2883109-2883229 9e-05 17_[+1]_95 chr3L:6059259-6059379 9e-05 45_[+1]_67 chr2L:20890036-20890156 9.6e-05 82_[+1]_30 chr3R:26239120-26239240 0.00011 105_[+1]_7 chr2R:24260729-24260849 0.00011 97_[+1]_15 chr2L:11045118-11045238 0.00011 68_[+1]_44 chr3R:10649166-10649286 0.00011 57_[+1]_55 chr2L:21149257-21149377 0.00012 28_[+1]_84 chr2L:10858228-10858348 0.00014 98_[+1]_14 chr2L:8528495-8528615 0.00014 54_[+1]_58 chr3L:19834274-19834394 0.00016 65_[+1]_47 chr3L:12091347-12091467 0.00018 68_[+1]_44 chr2R:14434323-14434443 0.00028 49_[+1]_63 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGTGCNG width=8 seqs=39 chr3R:16748678-16748798 ( 70) CAGTGCCG 1 chrX:3085998-3086118 ( 101) CAGTGCAG 1 chr3L:21347292-21347412 ( 12) CAGTGCAG 1 chr2L:3861585-3861705 ( 73) CAGTGCAG 1 chr3L:19179710-19179830 ( 23) CAGTGCAG 1 chr2R:22200058-22200178 ( 79) CAGTGCAG 1 chr3R:17151783-17151903 ( 74) CAGTGCTG 1 chr2R:13198322-13198442 ( 72) CAGTGCTG 1 chr2L:6338757-6338877 ( 14) CAGTGCTG 1 chrX:8898298-8898418 ( 71) CAGCGCCG 1 chr3L:2466726-2466846 ( 97) CTGTGCCG 1 chr2L:5045209-5045329 ( 38) CTGTGCCG 1 chr2L:19517462-19517582 ( 85) CTGTGCGG 1 chr2R:12019271-12019391 ( 6) CAGGGCGG 1 chr3R:27987505-27987625 ( 85) CTGTGCAG 1 chr2L:1214655-1214775 ( 95) CTGTGCAG 1 chrX:12242554-12242674 ( 92) CAGTGCCT 1 chr3R:10641373-10641493 ( 22) CAGGGCAG 1 chrX:10115641-10115761 ( 40) CAGTGCCC 1 chr3R:6504541-6504661 ( 112) CAGCGCTG 1 chr3R:10643297-10643417 ( 33) CAGAGCCG 1 chrX:21241969-21242089 ( 43) CAGTGCGT 1 chr3R:16431788-16431908 ( 81) CAGTGCGT 1 chr3R:20285803-20285923 ( 42) CTGTGCTG 1 chr3R:22121321-22121441 ( 25) CAGTGCGT 1 chr3L:2265862-2265982 ( 56) CAGAGCGG 1 chr2L:2883109-2883229 ( 18) CAGGGCTG 1 chr3L:6059259-6059379 ( 46) CAGTGCAT 1 chr2L:20890036-20890156 ( 83) CAGTGCAC 1 chr3R:26239120-26239240 ( 106) CAGAGCAG 1 chr2R:24260729-24260849 ( 98) CAGTGCCA 1 chr2L:11045118-11045238 ( 69) CTGCGCCG 1 chr3R:10649166-10649286 ( 58) CGGTGCCG 1 chr2L:21149257-21149377 ( 29) CAGTGCTT 1 chr2L:10858228-10858348 ( 99) CAGTGCTC 1 chr2L:8528495-8528615 ( 55) CAGTGCGA 1 chr3L:19834274-19834394 ( 66) CAGTGGGG 1 chr3L:12091347-12091467 ( 69) CAGTGGAG 1 chr2R:14434323-14434443 ( 50) CAGCGCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.4203 E= 3.6e+000 -1193 250 -1193 -1193 130 -1193 -279 -85 -1193 -1193 250 -1193 -207 -78 -120 120 -1193 -1193 250 -1193 -1193 243 -179 -1193 -7 68 21 -66 -207 -120 196 -107 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 39 E= 3.6e+000 0.000000 1.000000 0.000000 0.000000 0.794872 0.000000 0.025641 0.179487 0.000000 0.000000 1.000000 0.000000 0.076923 0.102564 0.076923 0.743590 0.000000 0.000000 1.000000 0.000000 0.000000 0.948718 0.051282 0.000000 0.307692 0.282051 0.205128 0.205128 0.076923 0.076923 0.692308 0.153846 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGCNG MEME-1 regular expression -------------------------------------------------------------------------------- CAGTGC[ACGT]G -------------------------------------------------------------------------------- Time 9.92 secs. ******************************************************************************** ******************************************************************************** MOTIF WGCSCSGC MEME-2 width = 8 sites = 11 llr = 114 E-value = 4.5e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 Description -------------------------------------------------------------------------------- Simplified A 5::::2:: pos.-specific C ::a4a32a probability G :a:6:58: matrix T 5::::::: bits 2.5 ** * * 2.3 ** * * 2.0 ** * * 1.8 ** * ** Relative 1.5 **** ** Entropy 1.3 **** ** (14.9 bits) 1.0 ******* 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TGCGCGGC consensus A C C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:23225429-23225549 68 1.73e-06 AAACAAGCCT TGCGCGGC TGATCTCAAG chr2L:1094760-1094880 31 3.46e-06 AAATATTTAT AGCGCGGC AGGGTGTCAC chr2L:11206965-11207085 17 6.90e-06 TCTTAATTCG TGCGCCGC AAGGTGAGTT chr3R:26239120-26239240 97 8.62e-06 AGCAAATATT AGCCCGGC TCAGAGCAGT chrX:3134634-3134754 110 8.62e-06 AGCGGCTCGG AGCCCGGC TAA chr3R:10643297-10643417 10 1.20e-05 GAGATTTAT TGCCCCGC AAATCTGTCA chr2L:12021319-12021439 57 1.20e-05 TGTTTGTATT TGCCCCGC TGAACAAACA chr3R:19226670-19226790 61 1.86e-05 TATCTAGGTG TGCGCAGC TTGTTAGGGT chrX:13232832-13232952 85 1.86e-05 CAAATGCGCA TGCGCAGC TTCAGGCCTG chr3R:18311742-18311862 101 2.03e-05 CTACGCTTCG AGCGCGCC CATTTAGCGC chr2R:16178571-16178691 28 2.03e-05 CATTTTAAAT AGCGCGCC AATTTTTTAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:23225429-23225549 1.7e-06 67_[+2]_45 chr2L:1094760-1094880 3.5e-06 30_[+2]_82 chr2L:11206965-11207085 6.9e-06 16_[+2]_96 chr3R:26239120-26239240 8.6e-06 96_[+2]_16 chrX:3134634-3134754 8.6e-06 109_[+2]_3 chr3R:10643297-10643417 1.2e-05 9_[+2]_103 chr2L:12021319-12021439 1.2e-05 56_[+2]_56 chr3R:19226670-19226790 1.9e-05 60_[+2]_52 chrX:13232832-13232952 1.9e-05 84_[+2]_28 chr3R:18311742-18311862 2e-05 100_[+2]_12 chr2R:16178571-16178691 2e-05 27_[+2]_85 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF WGCSCSGC width=8 seqs=11 chr3R:23225429-23225549 ( 68) TGCGCGGC 1 chr2L:1094760-1094880 ( 31) AGCGCGGC 1 chr2L:11206965-11207085 ( 17) TGCGCCGC 1 chr3R:26239120-26239240 ( 97) AGCCCGGC 1 chrX:3134634-3134754 ( 110) AGCCCGGC 1 chr3R:10643297-10643417 ( 10) TGCCCCGC 1 chr2L:12021319-12021439 ( 57) TGCCCCGC 1 chr3R:19226670-19226790 ( 61) TGCGCAGC 1 chrX:13232832-13232952 ( 85) TGCGCAGC 1 chr3R:18311742-18311862 ( 101) AGCGCGCC 1 chr2R:16178571-16178691 ( 28) AGCGCGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.3527 E= 4.5e+004 49 -1010 -1010 75 -1010 -1010 249 -1010 -1010 250 -1010 -1010 -1010 104 184 -1010 -1010 250 -1010 -1010 -83 63 162 -1010 -1010 4 220 -1010 -1010 250 -1010 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 4.5e+004 0.454545 0.000000 0.000000 0.545455 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.363636 0.636364 0.000000 0.000000 1.000000 0.000000 0.000000 0.181818 0.272727 0.545455 0.000000 0.000000 0.181818 0.818182 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCSCSGC MEME-2 regular expression -------------------------------------------------------------------------------- [TA]GC[GC]C[GC]GC -------------------------------------------------------------------------------- Time 16.24 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGCGTGG MEME-3 width = 8 sites = 10 llr = 104 E-value = 4.9e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::1:1::: pos.-specific C ::29:::: probability G a77193aa matrix T :3:::7:: bits 2.5 * ** 2.3 * ** 2.0 * ** ** 1.8 * ** ** Relative 1.5 * ** ** Entropy 1.3 ***** ** (15.1 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GGGCGTGG consensus TC G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:8732791-8732911 91 1.75e-06 CGATGAATTT GGGCGTGG TTTCTCGCCT chrX:7553561-7553681 104 2.71e-06 CAATGGATGG GGGCGGGG TCGTAAAGG chrX:10115641-10115761 27 2.71e-06 GGAGGGCAGG GGGCGGGG ATTTTCAGTG chr2L:1214655-1214775 113 4.45e-06 TTCCGTCTCT GGCCGTGG chr3R:10681747-10681867 74 7.66e-06 ATTGCCGTCT GTGCGTGG GCCGTTATTC chr3R:6504541-6504661 78 1.04e-05 ACGATGCTGT GTGCGGGG AAAAGCCAAT chr2L:5113723-5113843 24 1.21e-05 GCAAATGGTT GGGGGTGG CGTTGTAAAC chr3L:2265862-2265982 68 1.63e-05 GAGCGGTGGA GGACGTGG CTAAGCGCTT chr2L:2883109-2883229 30 1.95e-05 GGGCTGCAGA GTCCGTGG CTCATCGATA chrX:7015044-7015164 17 2.44e-05 tttacggcgt gggcatgg ctagatagaa -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:8732791-8732911 1.8e-06 90_[+3]_22 chrX:7553561-7553681 2.7e-06 103_[+3]_9 chrX:10115641-10115761 2.7e-06 26_[+3]_86 chr2L:1214655-1214775 4.5e-06 112_[+3] chr3R:10681747-10681867 7.7e-06 73_[+3]_39 chr3R:6504541-6504661 1e-05 77_[+3]_35 chr2L:5113723-5113843 1.2e-05 23_[+3]_89 chr3L:2265862-2265982 1.6e-05 67_[+3]_45 chr2L:2883109-2883229 1.9e-05 29_[+3]_83 chrX:7015044-7015164 2.4e-05 16_[+3]_96 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGCGTGG width=8 seqs=10 chr2L:8732791-8732911 ( 91) GGGCGTGG 1 chrX:7553561-7553681 ( 104) GGGCGGGG 1 chrX:10115641-10115761 ( 27) GGGCGGGG 1 chr2L:1214655-1214775 ( 113) GGCCGTGG 1 chr3R:10681747-10681867 ( 74) GTGCGTGG 1 chr3R:6504541-6504661 ( 78) GTGCGGGG 1 chr2L:5113723-5113843 ( 24) GGGGGTGG 1 chr3L:2265862-2265982 ( 68) GGACGTGG 1 chr2L:2883109-2883229 ( 30) GTCCGTGG 1 chrX:7015044-7015164 ( 17) GGGCATGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.9378 E= 4.9e+004 -997 -997 249 -997 -997 -997 198 -11 -169 18 198 -997 -997 235 -83 -997 -169 -997 234 -997 -997 -997 76 111 -997 -997 249 -997 -997 -997 249 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 4.9e+004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.700000 0.300000 0.100000 0.200000 0.700000 0.000000 0.000000 0.900000 0.100000 0.000000 0.100000 0.000000 0.900000 0.000000 0.000000 0.000000 0.300000 0.700000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-3 regular expression -------------------------------------------------------------------------------- G[GT][GC]CG[TG]GG -------------------------------------------------------------------------------- Time 22.45 secs. ******************************************************************************** ******************************************************************************** MOTIF CAGCAGCG MEME-4 width = 8 sites = 19 llr = 181 E-value = 7.1e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :6::7::: pos.-specific C a21a:29: probability G :29:1817 matrix T ::::3::3 bits 2.5 * * 2.3 * * * 2.0 * ** * 1.8 * ** ** Relative 1.5 * ** *** Entropy 1.3 * ** *** (13.7 bits) 1.0 * ** *** 0.8 **** *** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CAGCAGCG consensus G T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:13749511-13749631 13 3.13e-06 CATTTCAGCA CAGCAGCG GTTAAAATAA chr2L:11045118-11045238 5 3.13e-06 acaa cagcagcg gcaggaacaa chrX:7579955-7580075 102 3.13e-06 GCCAGCGAAG CAGCAGCG TCAGCATCTC chr2R:22511581-22511701 14 4.86e-06 AATTTCTCCA CGGCAGCG CTAAAACAAC chr3L:1376068-1376188 22 6.57e-06 TGTCCATCTA CCGCAGCG ATGGTCGCGT chr3L:8689816-8689936 16 1.15e-05 GTATAATTCC CGGCTGCG aaaaaaaaaa chr2L:18567661-18567781 80 2.03e-05 GCAAATCAAA CAGCAGCT GACGATGGGT chr4:695165-695285 78 2.03e-05 TAAAATCCTG CAGCACCG GATATAATGA chr3R:23820445-23820565 72 2.03e-05 GTATTTCTTT CAGCACCG CATGGTATCT chrX:3085998-3086118 28 2.20e-05 GCAACTTGTG CCGCTGCG AAGTCTTCAT chr2L:16476621-16476741 3 2.38e-05 GA CAGCGGCG ATGGGCAAAT chr2R:14434323-14434443 27 2.69e-05 TTAAGTGTCA CACCAGCG ACATCTATGG chr3R:21263326-21263446 35 3.17e-05 GCCTACTTGC CGGCAGCT CAAATAAAAA chr2L:3748823-3748943 19 3.17e-05 GCCAGCTTGA CGGCACCG GAAGTCGCTT chr2L:8732791-8732911 69 3.75e-05 GGTTCATACC CCGCAGCT AACTCGATGA chr3R:26436759-26436879 108 4.64e-05 GTTATTAGCT CAGCTGCT CATCG chr3L:11408814-11408934 43 4.64e-05 GTCTCTCGGC CAGCTGCT GTCCTCTCAT chr3L:2265862-2265982 37 5.22e-05 ACTGGTCGCG CAGCAGGG TTCCGCTTCA chr2L:10442069-10442189 7 5.71e-05 CAGGCA CACCTGCG GTCAGCTAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:13749511-13749631 3.1e-06 12_[+4]_100 chr2L:11045118-11045238 3.1e-06 4_[+4]_108 chrX:7579955-7580075 3.1e-06 101_[+4]_11 chr2R:22511581-22511701 4.9e-06 13_[+4]_99 chr3L:1376068-1376188 6.6e-06 21_[+4]_91 chr3L:8689816-8689936 1.1e-05 15_[+4]_97 chr2L:18567661-18567781 2e-05 79_[+4]_33 chr4:695165-695285 2e-05 77_[+4]_35 chr3R:23820445-23820565 2e-05 71_[+4]_41 chrX:3085998-3086118 2.2e-05 27_[+4]_85 chr2L:16476621-16476741 2.4e-05 2_[+4]_110 chr2R:14434323-14434443 2.7e-05 26_[+4]_86 chr3R:21263326-21263446 3.2e-05 34_[+4]_78 chr2L:3748823-3748943 3.2e-05 18_[+4]_94 chr2L:8732791-8732911 3.8e-05 68_[+4]_44 chr3R:26436759-26436879 4.6e-05 107_[+4]_5 chr3L:11408814-11408934 4.6e-05 42_[+4]_70 chr3L:2265862-2265982 5.2e-05 36_[+4]_76 chr2L:10442069-10442189 5.7e-05 6_[+4]_106 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGCAGCG width=8 seqs=19 chrX:13749511-13749631 ( 13) CAGCAGCG 1 chr2L:11045118-11045238 ( 5) CAGCAGCG 1 chrX:7579955-7580075 ( 102) CAGCAGCG 1 chr2R:22511581-22511701 ( 14) CGGCAGCG 1 chr3L:1376068-1376188 ( 22) CCGCAGCG 1 chr3L:8689816-8689936 ( 16) CGGCTGCG 1 chr2L:18567661-18567781 ( 80) CAGCAGCT 1 chr4:695165-695285 ( 78) CAGCACCG 1 chr3R:23820445-23820565 ( 72) CAGCACCG 1 chrX:3085998-3086118 ( 28) CCGCTGCG 1 chr2L:16476621-16476741 ( 3) CAGCGGCG 1 chr2R:14434323-14434443 ( 27) CACCAGCG 1 chr3R:21263326-21263446 ( 35) CGGCAGCT 1 chr2L:3748823-3748943 ( 19) CGGCACCG 1 chr2L:8732791-8732911 ( 69) CCGCAGCT 1 chr3R:26436759-26436879 ( 108) CAGCTGCT 1 chr3L:11408814-11408934 ( 43) CAGCTGCT 1 chr3L:2265862-2265982 ( 37) CAGCAGGG 1 chr2L:10442069-10442189 ( 7) CACCTGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.9783 E= 7.1e+002 -1089 250 -1089 -1089 97 -16 25 -1089 -1089 -74 233 -1089 -1089 250 -1089 -1089 108 -1089 -175 -30 -1089 -16 225 -1089 -1089 242 -175 -1089 -1089 -1089 205 -30 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 7.1e+002 0.000000 1.000000 0.000000 0.000000 0.631579 0.157895 0.210526 0.000000 0.000000 0.105263 0.894737 0.000000 0.000000 1.000000 0.000000 0.000000 0.684211 0.000000 0.052632 0.263158 0.000000 0.157895 0.842105 0.000000 0.000000 0.947368 0.052632 0.000000 0.000000 0.000000 0.736842 0.263158 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCAGCG MEME-4 regular expression -------------------------------------------------------------------------------- C[AG]GC[AT]GC[GT] -------------------------------------------------------------------------------- Time 28.67 secs. ******************************************************************************** ******************************************************************************** MOTIF TGGCTGCV MEME-5 width = 8 sites = 10 llr = 107 E-value = 7.1e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::3::4 pos.-specific C :::a::a3 probability G :aa::a:3 matrix T a:::7::: bits 2.5 *** ** 2.3 *** ** 2.0 *** ** 1.8 **** ** Relative 1.5 **** ** Entropy 1.3 **** ** (15.4 bits) 1.0 **** ** 0.8 ******* 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TGGCTGCA consensus A C sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:21241969-21242089 92 6.37e-06 TGTCGTTTGT TGGCTGCC ATCCCCAACC chr3L:19834274-19834394 55 6.37e-06 AAAGCAAAGT TGGCTGCG ATCCAGTGGG chr3L:13922404-13922524 25 6.37e-06 CCGTATTGTA TGGCTGCG TTCAAATATG chr3L:10735208-10735328 34 1.22e-05 TTATTGCATT TGGCTGCA ATTCGAAAAT chr2L:7632904-7633024 65 1.22e-05 ACAAATGATT TGGCTGCA AGCATTGCGT chr2L:7339758-7339878 67 1.22e-05 GAGTCGGGGA TGGCTGCA ACCTGACTCA chr3R:10649166-10649286 79 1.22e-05 ATAAGTCTGA TGGCTGCA CTTTTTGGCA chr3L:11197657-11197777 103 1.85e-05 TTTTAAATTA TGGCAGCG TGTAAATCTT chr2R:22511581-22511701 79 1.85e-05 ACAGCTGCCT TGGCAGCC AAAACAAATA chr2L:3778344-3778464 99 1.85e-05 GTTGGGAAGA TGGCAGCC AGAAGCGTTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:21241969-21242089 6.4e-06 91_[+5]_21 chr3L:19834274-19834394 6.4e-06 54_[+5]_58 chr3L:13922404-13922524 6.4e-06 24_[+5]_88 chr3L:10735208-10735328 1.2e-05 33_[+5]_79 chr2L:7632904-7633024 1.2e-05 64_[+5]_48 chr2L:7339758-7339878 1.2e-05 66_[+5]_46 chr3R:10649166-10649286 1.2e-05 78_[+5]_34 chr3L:11197657-11197777 1.8e-05 102_[+5]_10 chr2R:22511581-22511701 1.8e-05 78_[+5]_34 chr2L:3778344-3778464 1.8e-05 98_[+5]_14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGCTGCV width=8 seqs=10 chrX:21241969-21242089 ( 92) TGGCTGCC 1 chr3L:19834274-19834394 ( 55) TGGCTGCG 1 chr3L:13922404-13922524 ( 25) TGGCTGCG 1 chr3L:10735208-10735328 ( 34) TGGCTGCA 1 chr2L:7632904-7633024 ( 65) TGGCTGCA 1 chr2L:7339758-7339878 ( 67) TGGCTGCA 1 chr3R:10649166-10649286 ( 79) TGGCTGCA 1 chr3L:11197657-11197777 ( 103) TGGCAGCG 1 chr2R:22511581-22511701 ( 79) TGGCAGCC 1 chr2L:3778344-3778464 ( 99) TGGCAGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.8977 E= 7.1e+003 -997 -997 -997 163 -997 -997 249 -997 -997 -997 249 -997 -997 250 -997 -997 -10 -997 -997 111 -997 -997 249 -997 -997 250 -997 -997 31 77 76 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 7.1e+003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.300000 0.000000 0.000000 0.700000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.400000 0.300000 0.300000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCTGCV MEME-5 regular expression -------------------------------------------------------------------------------- TGGC[TA]GC[ACG] -------------------------------------------------------------------------------- Time 34.86 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:18533369-18533489 9.97e-01 120 chr3R:21589554-21589674 1.40e-01 120 chrX:7703113-7703233 1.00e+00 120 chr2L:2731468-2731588 5.60e-02 42_[+3(9.73e-05)]_70 chr2R:16178571-16178691 3.22e-03 27_[+2(2.03e-05)]_85 chrX:8677543-8677663 9.84e-01 120 chr2R:8615308-8615428 4.74e-01 120 chr3L:11304014-11304134 6.58e-01 120 chr3R:23820445-23820565 2.51e-03 71_[+4(2.03e-05)]_41 chr3L:11291569-11291689 9.01e-01 120 chr2L:7515515-7515635 3.18e-01 120 chr3R:10681747-10681867 6.46e-05 73_[+3(7.66e-06)]_39 chr3L:11408814-11408934 6.98e-02 42_[+4(4.64e-05)]_70 chr3R:26436759-26436879 1.58e-03 107_[+4(4.64e-05)]_5 chr3R:24318533-24318653 1.34e-01 46_[+3(4.46e-05)]_66 chr2L:7541384-7541504 2.68e-01 120 chr2L:8732791-8732911 1.94e-05 68_[+4(3.75e-05)]_14_[+3(1.75e-06)]_\ 22 chr3R:10648967-10649087 9.92e-01 120 chr2L:14701641-14701761 8.31e-01 120 chr3L:3305535-3305655 1.59e-02 120 chr3L:6220291-6220411 5.08e-01 120 chr2R:21049426-21049546 1.25e-01 120 chr2L:16476621-16476741 3.96e-04 2_[+4(2.38e-05)]_110 chr3L:3770992-3771112 6.58e-02 120 chr3L:9972705-9972825 6.32e-02 120 chr2L:11189195-11189315 7.60e-01 120 chr2R:10052215-10052335 9.98e-01 120 chrX:12221651-12221771 1.61e-01 120 chr2L:20890036-20890156 5.31e-02 82_[+1(9.59e-05)]_30 chr3R:14285656-14285776 4.48e-01 120 chr3L:10745687-10745807 1.00e+00 120 chrX:13232832-13232952 1.94e-02 84_[+2(1.86e-05)]_28 chr3L:15693202-15693322 9.80e-01 120 chrX:19146435-19146555 9.52e-01 120 chr3L:3760711-3760831 3.83e-01 120 chr3L:18144680-18144800 7.83e-03 120 chr2L:5113723-5113843 3.00e-03 23_[+3(1.21e-05)]_89 chr2L:1214655-1214775 8.15e-05 94_[+1(4.01e-05)]_10_[+3(4.45e-06)] chrX:16598537-16598657 9.46e-01 120 chr4:695165-695285 1.75e-02 77_[+4(2.03e-05)]_35 chr3L:11285274-11285394 1.00e+00 120 chr3L:8689816-8689936 4.28e-04 15_[+4(1.15e-05)]_97 chr3L:9859791-9859911 3.27e-01 120 chr3R:6373905-6374025 2.47e-01 120 chr3R:31060374-31060494 1.32e-01 120 chr3R:25445640-25445760 1.00e+00 120 chr2L:3748823-3748943 5.13e-02 18_[+4(3.17e-05)]_94 chr2L:10249731-10249851 2.40e-02 120 chr3R:9494358-9494478 1.00e+00 120 chr3R:16748678-16748798 1.57e-03 69_[+1(3.15e-06)]_43 chr2R:22886283-22886403 4.47e-01 120 chr2L:15061540-15061660 9.76e-01 120 chrX:7579955-7580075 3.35e-04 101_[+4(3.13e-06)]_11 chr3L:16779741-16779861 9.02e-01 120 chrX:11454512-11454632 2.46e-02 6_[+5(7.45e-05)]_106 chr2R:18774913-18775033 1.29e-01 120 chr3L:22074595-22074715 6.78e-01 120 chr2L:21624109-21624229 9.82e-01 120 chr2R:23574875-23574995 6.96e-01 120 chr2R:22200058-22200178 9.01e-05 78_[+1(1.21e-05)]_34 chrX:3704246-3704366 1.76e-01 120 chr3R:21263326-21263446 2.24e-02 34_[+4(3.17e-05)]_78 chrX:10115641-10115761 3.72e-06 26_[+3(2.71e-06)]_5_[+1(5.22e-05)]_\ 73 chr3L:19179710-19179830 1.36e-02 22_[+1(1.21e-05)]_90 chrX:7333332-7333452 7.78e-01 120 chr2R:16800155-16800275 3.61e-02 120 chr3L:905109-905229 9.82e-01 120 chr2L:5798114-5798234 9.04e-01 120 chr3L:13356248-13356368 5.26e-02 120 chr3R:28327357-28327477 3.56e-01 120 chr3R:15837234-15837354 9.92e-01 120 chr2R:14577773-14577893 4.19e-02 120 chr3R:10649166-10649286 2.06e-04 78_[+5(1.22e-05)]_34 chr2L:1094760-1094880 5.73e-05 30_[+2(3.46e-06)]_82 chrX:13137188-13137308 1.93e-01 120 chr3R:15792617-15792737 2.26e-02 120 chr3R:10641373-10641493 6.09e-02 21_[+1(5.22e-05)]_91 chr2R:14971271-14971391 1.00e+00 120 chr3R:27138112-27138232 2.31e-01 120 chr2L:1427867-1427987 1.54e-01 120 chr2R:11639693-11639813 3.10e-01 120 chr2L:8528495-8528615 2.36e-02 120 chrX:7553561-7553681 6.19e-04 70_[+3(2.71e-06)]_25_[+3(2.71e-06)]_\ 9 chr3L:22277379-22277499 3.99e-01 120 chr3R:24298688-24298808 3.70e-01 120 chr3R:19627797-19627917 3.05e-01 2_[+3(5.36e-05)]_110 chr2L:3778344-3778464 2.96e-04 98_[+5(1.85e-05)]_14 chr3R:31169106-31169226 2.26e-01 120 chr3L:613695-613815 8.85e-01 120 chr3L:8835052-8835172 3.43e-01 120 chr2R:21057339-21057459 1.68e-01 120 chr2R:23725932-23726052 1.40e-02 23_[+2(3.83e-05)]_89 chr3R:27130149-27130269 5.95e-01 120 chr2L:7339758-7339878 3.55e-05 66_[+5(1.22e-05)]_46 chr2L:3776030-3776150 5.28e-01 120 chr3L:7782339-7782459 8.41e-01 120 chrX:8777211-8777331 8.89e-01 120 chr2R:11178671-11178791 2.69e-01 120 chr3R:22121321-22121441 7.04e-02 24_[+1(7.01e-05)]_88 chr3L:6059259-6059379 1.24e-02 45_[+1(9.01e-05)]_67 chr3L:22163883-22164003 5.89e-02 120 chrX:16650600-16650720 9.36e-01 120 chrX:7015044-7015164 7.02e-02 16_[+3(2.44e-05)]_96 chr3R:27209130-27209250 1.09e-01 120 chr3R:25888640-25888760 1.70e-01 120 chr3L:18203956-18204076 6.65e-01 120 chr3L:18822505-18822625 3.50e-02 102_[+3(4.14e-05)]_10 chr3L:6706004-6706124 9.72e-01 120 chr3L:13922404-13922524 1.35e-02 24_[+5(6.37e-06)]_88 chr2L:8859999-8860119 1.85e-01 120 chrX:8892684-8892804 1.68e-02 120 chr2L:11206965-11207085 1.37e-02 16_[+2(6.90e-06)]_96 chrX:3357791-3357911 3.37e-01 120 chrX:4906725-4906845 9.25e-01 120 chr2R:23577368-23577488 3.10e-01 120 chr3L:11580016-11580136 9.14e-01 120 chrX:10515479-10515599 5.33e-01 120 chr3L:16710388-16710508 1.00e+00 120 chr4:406979-407099 6.47e-02 120 chr3L:1740222-1740342 6.54e-01 120 chr2L:19517462-19517582 1.66e-03 84_[+1(2.94e-05)]_28 chr2L:220707-220827 1.09e-03 120 chr3R:14898469-14898589 1.00e+00 120 chr2R:12633331-12633451 6.13e-01 120 chr2R:24174677-24174797 1.00e+00 120 chr3L:14708164-14708284 9.52e-01 120 chr3R:13676293-13676413 2.85e-02 120 chr3L:18782160-18782280 9.53e-01 120 chr3R:20285803-20285923 4.74e-02 41_[+1(7.01e-05)]_71 chr2L:3444877-3444997 1.67e-01 120 chr3L:7151920-7152040 9.29e-01 120 chr2L:10987485-10987605 9.75e-01 120 chr3R:24809726-24809846 7.11e-01 120 chr2L:21149257-21149377 1.29e-02 120 chr2L:1462192-1462312 5.98e-01 120 chr3L:6977546-6977666 5.77e-01 120 chr3R:10144224-10144344 3.31e-01 120 chrX:7617090-7617210 1.32e-01 120 chr2R:20313951-20314071 9.90e-01 120 chr3R:23225429-23225549 4.63e-03 67_[+2(1.73e-06)]_45 chr3R:23723715-23723835 1.81e-01 120 chr2L:3861585-3861705 7.67e-02 72_[+1(1.21e-05)]_40 chr3L:1376068-1376188 9.68e-04 21_[+4(6.57e-06)]_91 chr2L:7632904-7633024 4.75e-02 64_[+5(1.22e-05)]_48 chrX:12242554-12242674 3.90e-02 91_[+1(4.59e-05)]_21 chr2L:11045118-11045238 3.23e-07 4_[+4(3.13e-06)]_57_[+2(6.90e-06)]_\ 43 chr2L:10522596-10522716 1.00e+00 120 chr3L:3665449-3665569 6.27e-01 120 chr2L:18987589-18987709 8.43e-01 120 chr3R:26130688-26130808 2.61e-02 120 chr3R:5470778-5470898 9.53e-01 120 chr2R:19357498-19357618 7.87e-01 120 chrX:8196966-8197086 9.79e-01 120 chr3R:16431788-16431908 5.19e-03 80_[+1(7.01e-05)]_32 chr2L:10442069-10442189 8.84e-02 6_[+4(5.71e-05)]_106 chr2L:2883109-2883229 5.89e-05 19_[+5(7.45e-05)]_2_[+3(1.95e-05)]_\ 83 chr3L:19834274-19834394 6.33e-04 54_[+5(6.37e-06)]_58 chr2R:11742829-11742949 9.37e-01 120 chrX:21241969-21242089 4.50e-05 42_[+1(7.01e-05)]_41_[+5(6.37e-06)]_\ 21 chr3R:10388877-10388997 3.21e-01 120 chr2R:9006895-9007015 7.20e-02 120 chr3L:12684840-12684960 5.98e-02 120 chr2L:6280479-6280599 9.98e-01 120 chr2L:6338757-6338877 2.09e-04 13_[+1(1.79e-05)]_99 chr3R:6468193-6468313 8.66e-01 120 chr2R:22063275-22063395 4.36e-03 [+5(7.45e-05)]_112 chr2R:22511581-22511701 3.13e-05 13_[+4(4.86e-06)]_57_[+5(1.85e-05)]_\ 34 chr3L:9508705-9508825 9.99e-01 120 chr3L:11398682-11398802 9.63e-01 120 chr2L:10858228-10858348 7.67e-02 120 chr2R:23940182-23940302 5.22e-01 120 chr2L:17963106-17963226 7.81e-01 120 chr3L:12468165-12468285 1.13e-01 120 chr3R:14609408-14609528 5.58e-01 120 chr3R:29458828-29458948 1.00e+00 120 chr2L:5045209-5045329 2.90e-03 37_[+1(2.28e-05)]_75 chr3L:17533223-17533343 9.25e-01 120 chr2R:7052474-7052594 9.59e-01 120 chr3R:27987505-27987625 3.84e-02 84_[+1(4.01e-05)]_28 chr2R:24599804-24599924 2.01e-01 120 chr2L:512190-512310 9.73e-01 120 chr2R:22317550-22317670 9.87e-01 120 chr2L:12021319-12021439 6.50e-02 56_[+2(1.20e-05)]_56 chr3R:10560721-10560841 4.68e-01 120 chr3L:21347292-21347412 3.22e-02 11_[+1(1.21e-05)]_101 chr2R:13198322-13198442 1.62e-02 71_[+1(1.79e-05)]_41 chr3R:20989744-20989864 9.55e-01 120 chr2R:15821410-15821530 5.11e-01 120 chr3L:19655992-19656112 9.83e-02 120 chr2L:15912965-15913085 7.96e-01 120 chr2L:18567661-18567781 4.71e-04 79_[+4(2.03e-05)]_33 chr3R:14347468-14347588 7.64e-01 120 chr2R:24565562-24565682 1.51e-01 120 chr3R:21856188-21856308 1.32e-01 120 chr3R:17151783-17151903 1.43e-04 73_[+1(1.79e-05)]_39 chr2R:14352106-14352226 7.54e-01 120 chr2R:14434323-14434443 2.47e-04 26_[+4(2.69e-05)]_54_[+3(9.73e-05)]_\ 24 chr3L:5185250-5185370 6.57e-01 120 chr3R:6920126-6920246 2.94e-01 120 chr3L:10735208-10735328 1.37e-02 33_[+5(1.22e-05)]_79 chr3R:22368841-22368961 8.93e-01 120 chr3R:18439463-18439583 9.05e-02 120 chrX:2732228-2732348 1.24e-02 120 chr2R:24260729-24260849 1.63e-01 120 chrX:13784678-13784798 6.01e-02 120 chr3L:15142541-15142661 7.66e-02 120 chr3R:10643297-10643417 1.58e-04 9_[+2(1.20e-05)]_15_[+1(5.85e-05)]_\ 80 chr3L:12091347-12091467 4.59e-01 120 chr3R:22587526-22587646 8.82e-01 120 chrX:11521648-11521768 1.00e+00 120 chr3R:14016800-14016920 1.40e-01 120 chr2L:16709706-16709826 3.83e-01 120 chr3R:21330651-21330771 6.32e-01 120 chr3L:3852959-3853079 8.53e-01 120 chr2L:14545550-14545670 2.22e-01 120 chr3L:2265862-2265982 3.00e-06 36_[+4(5.22e-05)]_11_[+1(9.01e-05)]_\ 4_[+3(1.63e-05)]_45 chr2R:19857764-19857884 8.08e-01 120 chrX:3085998-3086118 3.32e-05 27_[+4(2.20e-05)]_65_[+1(1.21e-05)]_\ 12 chrX:3431856-3431976 9.91e-01 120 chr3L:7876218-7876338 9.87e-02 120 chr3L:5881679-5881799 7.20e-01 120 chr3R:6504541-6504661 1.15e-06 77_[+3(1.04e-05)]_23_[+4(6.57e-06)]_\ 4 chrX:8898298-8898418 3.94e-07 67_[+5(1.85e-05)]_45 chr3L:20634539-20634659 4.63e-01 120 chrX:3134634-3134754 9.50e-04 109_[+2(8.62e-06)]_3 chrX:10732002-10732122 1.84e-01 120 chr2R:12019271-12019391 5.43e-03 5_[+1(4.01e-05)]_107 chrX:1845570-1845690 3.37e-01 120 chr3R:26239120-26239240 6.33e-04 96_[+2(8.62e-06)]_16 chr3L:2466726-2466846 6.47e-02 96_[+1(2.28e-05)]_16 chrX:13749511-13749631 1.40e-03 12_[+4(3.13e-06)]_100 chr2R:23366550-23366670 7.91e-01 120 chr2L:17243443-17243563 8.10e-01 120 chr3L:9129172-9129292 9.96e-01 120 chr2L:13215808-13215928 5.94e-01 120 chr3L:1166413-1166533 7.42e-01 120 chrX:15870912-15871032 7.21e-01 120 chr2L:16888263-16888383 2.50e-01 120 chr3R:30601869-30601989 1.08e-02 38_[+5(2.43e-05)]_74 chr3L:17242216-17242336 8.85e-01 120 chr3R:29489310-29489430 7.33e-01 120 chr3L:11197657-11197777 1.56e-02 102_[+5(1.85e-05)]_10 chr3R:19226670-19226790 1.64e-03 60_[+2(1.86e-05)]_52 chr3L:18403361-18403481 4.71e-01 120 chr2R:6512449-6512569 2.53e-01 120 chr2L:5949235-5949355 8.30e-01 120 chr3R:25884430-25884550 1.00e+00 120 chrX:4680040-4680160 8.55e-01 120 chr3R:18311742-18311862 1.61e-02 100_[+2(2.03e-05)]_12 chr2R:13990718-13990838 1.37e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n06.farnam.hpc.yale.internal ********************************************************************************