******************************************************************************** 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/gcm2.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:9554258-9554378 1.0000 120 chr2L:8198783-8198903 1.0000 120 chr2R:14219494-14219614 1.0000 120 chr2L:9618142-9618262 1.0000 120 chrX:18512439-18512559 1.0000 120 chr2L:9613367-9613487 1.0000 120 chr2R:20618114-20618234 1.0000 120 chr3L:13021796-13021916 1.0000 120 chr2R:23964753-23964873 1.0000 120 chr3L:3787967-3788087 1.0000 120 chr2R:10568435-10568555 1.0000 120 chrX:21281072-21281192 1.0000 120 chr3R:23384924-23385044 1.0000 120 chr2R:13897640-13897760 1.0000 120 chr3R:24298584-24298704 1.0000 120 chr2R:23942316-23942436 1.0000 120 chr3L:3814427-3814547 1.0000 120 chr3R:11949762-11949882 1.0000 120 chr3R:4804891-4805011 1.0000 120 chrX:2158990-2159110 1.0000 120 chr3L:1755544-1755664 1.0000 120 chr3R:26121965-26122085 1.0000 120 chr2L:493369-493489 1.0000 120 chr3L:18898184-18898304 1.0000 120 chr2L:7828238-7828358 1.0000 120 chr3R:26567049-26567169 1.0000 120 chr2R:9955159-9955279 1.0000 120 chr3L:11336605-11336725 1.0000 120 chr3R:18298621-18298741 1.0000 120 chr2L:8554447-8554567 1.0000 120 chr2R:16552174-16552294 1.0000 120 chrX:3811450-3811570 1.0000 120 chr3L:13923724-13923844 1.0000 120 chrX:4322741-4322861 1.0000 120 chrX:16102437-16102557 1.0000 120 chr3L:3760655-3760775 1.0000 120 chr3L:12802743-12802863 1.0000 120 chr2L:8083121-8083241 1.0000 120 chr2L:6047867-6047987 1.0000 120 chr3R:15290855-15290975 1.0000 120 chrX:3538862-3538982 1.0000 120 chr3R:9677842-9677962 1.0000 120 chr2R:14485571-14485691 1.0000 120 chr2L:18881442-18881562 1.0000 120 chr3L:15729482-15729602 1.0000 120 chr2L:5982159-5982279 1.0000 120 chr2L:12009950-12010070 1.0000 120 chrX:13232833-13232953 1.0000 120 chr3R:8980088-8980208 1.0000 120 chr3L:11414672-11414792 1.0000 120 chr2L:20915468-20915588 1.0000 120 chr2R:19451256-19451376 1.0000 120 chr3R:8744369-8744489 1.0000 120 chr3R:24582613-24582733 1.0000 120 chr2L:9616737-9616857 1.0000 120 chr2R:14267740-14267860 1.0000 120 chr3R:24518129-24518249 1.0000 120 chr2R:23386445-23386565 1.0000 120 chr2R:18172302-18172422 1.0000 120 chr3L:6189659-6189779 1.0000 120 chr3R:11661898-11662018 1.0000 120 chr2R:9409315-9409435 1.0000 120 chr3L:22407836-22407956 1.0000 120 chr3R:5015304-5015424 1.0000 120 chr3R:14657231-14657351 1.0000 120 chrX:5517037-5517157 1.0000 120 chr3L:9762225-9762345 1.0000 120 chr3L:554717-554837 1.0000 120 chr2R:9207373-9207493 1.0000 120 chr2R:21128503-21128623 1.0000 120 chr3R:5282862-5282982 1.0000 120 chrX:12659329-12659449 1.0000 120 chr3L:15142498-15142618 1.0000 120 chr3R:10042789-10042909 1.0000 120 chr3R:27557171-27557291 1.0000 120 chr2L:14234188-14234308 1.0000 120 chr3L:160777-160897 1.0000 120 chrX:16103644-16103764 1.0000 120 chr2R:22312742-22312862 1.0000 120 chr2L:2858325-2858445 1.0000 120 chr2R:7745489-7745609 1.0000 120 chrX:16319315-16319435 1.0000 120 chrX:8863541-8863661 1.0000 120 chr3R:31060359-31060479 1.0000 120 chr2L:2227460-2227580 1.0000 120 chr2R:16135463-16135583 1.0000 120 chr3R:29725639-29725759 1.0000 120 chr3R:7000953-7001073 1.0000 120 chr2R:21663182-21663302 1.0000 120 chr2R:7150687-7150807 1.0000 120 chr3L:14780378-14780498 1.0000 120 chr2R:20836054-20836174 1.0000 120 chr3R:11796902-11797022 1.0000 120 chr3R:9370574-9370694 1.0000 120 chr2R:9958793-9958913 1.0000 120 chrX:16610653-16610773 1.0000 120 chr3R:28845190-28845310 1.0000 120 chr3R:19847902-19848022 1.0000 120 chr2R:17564783-17564903 1.0000 120 chr3R:16249785-16249905 1.0000 120 chr3R:15089691-15089811 1.0000 120 chr3R:13064325-13064445 1.0000 120 chr2L:10221173-10221293 1.0000 120 chr2L:9594964-9595084 1.0000 120 chr2R:24657128-24657248 1.0000 120 chr3L:20540350-20540470 1.0000 120 chr2L:11199194-11199314 1.0000 120 chr2R:12259331-12259451 1.0000 120 chrX:17176697-17176817 1.0000 120 chr3R:16005055-16005175 1.0000 120 chr3L:6703520-6703640 1.0000 120 chr3R:27153421-27153541 1.0000 120 chrX:18647124-18647244 1.0000 120 chr3L:5654677-5654797 1.0000 120 chr3L:9511376-9511496 1.0000 120 chr2L:14490833-14490953 1.0000 120 chr2L:6078967-6079087 1.0000 120 chr2R:15252499-15252619 1.0000 120 chr2R:7474255-7474375 1.0000 120 chr3R:8819716-8819836 1.0000 120 chrX:6621768-6621888 1.0000 120 chr2R:9578063-9578183 1.0000 120 chr3R:8789092-8789212 1.0000 120 chrX:17330385-17330505 1.0000 120 chr3R:10139931-10140051 1.0000 120 chr3L:3471273-3471393 1.0000 120 chrX:7703076-7703196 1.0000 120 chr3R:14755123-14755243 1.0000 120 chr2R:7735291-7735411 1.0000 120 chr3L:15825523-15825643 1.0000 120 chr2L:67018-67138 1.0000 120 chr3R:20835028-20835148 1.0000 120 chr2R:11603454-11603574 1.0000 120 chr2L:2177769-2177889 1.0000 120 chr3R:27677198-27677318 1.0000 120 chr2R:17796696-17796816 1.0000 120 chrX:13784553-13784673 1.0000 120 chr2L:8573095-8573215 1.0000 120 chr3L:11403647-11403767 1.0000 120 chrX:19852118-19852238 1.0000 120 chr3R:8171580-8171700 1.0000 120 chr2R:18829729-18829849 1.0000 120 chr2R:11359216-11359336 1.0000 120 chr2R:17394513-17394633 1.0000 120 chr2L:4441015-4441135 1.0000 120 chr2R:16170812-16170932 1.0000 120 chr2L:1629675-1629795 1.0000 120 chr3R:17385491-17385611 1.0000 120 chr2R:8928080-8928200 1.0000 120 chr2L:11037983-11038103 1.0000 120 chrX:245839-245959 1.0000 120 chrX:16782158-16782278 1.0000 120 chr3L:21135985-21136105 1.0000 120 chr2R:13502258-13502378 1.0000 120 chr3R:22754351-22754471 1.0000 120 chrX:10775895-10776015 1.0000 120 chr2R:10475423-10475543 1.0000 120 chr3R:20309550-20309670 1.0000 120 chr2L:7641777-7641897 1.0000 120 chr3L:16131957-16132077 1.0000 120 chr2R:14981191-14981311 1.0000 120 chrX:3086048-3086168 1.0000 120 chr2R:14621655-14621775 1.0000 120 chrX:6741299-6741419 1.0000 120 chr3R:17060322-17060442 1.0000 120 chr2L:5009779-5009899 1.0000 120 chr3L:14545561-14545681 1.0000 120 chr3R:16186981-16187101 1.0000 120 chr3L:17476189-17476309 1.0000 120 chr2R:8064328-8064448 1.0000 120 chr2R:17015723-17015843 1.0000 120 chr2L:9576790-9576910 1.0000 120 chr2L:10516680-10516800 1.0000 120 chr3L:4186825-4186945 1.0000 120 chr2L:2857079-2857199 1.0000 120 chr3R:16099809-16099929 1.0000 120 chr3R:16431620-16431740 1.0000 120 chr2L:12026718-12026838 1.0000 120 chr3L:18759345-18759465 1.0000 120 chr3R:30796798-30796918 1.0000 120 chr3L:1029721-1029841 1.0000 120 chr2R:9833726-9833846 1.0000 120 chr2L:16719874-16719994 1.0000 120 chrX:15615547-15615667 1.0000 120 chrX:16296513-16296633 1.0000 120 chr3L:4239624-4239744 1.0000 120 chr2R:13198291-13198411 1.0000 120 chr3L:9847549-9847669 1.0000 120 chr2R:16608357-16608477 1.0000 120 chr2R:8156345-8156465 1.0000 120 chr3L:17010131-17010251 1.0000 120 chr3R:6374013-6374133 1.0000 120 chrX:16773077-16773197 1.0000 120 chr2R:12633378-12633498 1.0000 120 chr2R:7815032-7815152 1.0000 120 chr3L:1647419-1647539 1.0000 120 chr3L:12091522-12091642 1.0000 120 chr2L:2161769-2161889 1.0000 120 chr3R:8812727-8812847 1.0000 120 chr3R:30021940-30022060 1.0000 120 chr3R:4453509-4453629 1.0000 120 chr2L:7333188-7333308 1.0000 120 chr3L:2466856-2466976 1.0000 120 chr2R:11095274-11095394 1.0000 120 chr2R:12757549-12757669 1.0000 120 chr2R:16125029-16125149 1.0000 120 chr3R:7977608-7977728 1.0000 120 chr2R:15246596-15246716 1.0000 120 chr2L:9598410-9598530 1.0000 120 chr3R:15145660-15145780 1.0000 120 chr3L:5185254-5185374 1.0000 120 chr3R:23986567-23986687 1.0000 120 chr2L:3813395-3813515 1.0000 120 chrX:5908026-5908146 1.0000 120 chr3L:11120426-11120546 1.0000 120 chr2L:14500578-14500698 1.0000 120 chr3L:18625943-18626063 1.0000 120 chr2R:24539653-24539773 1.0000 120 chr3R:10168866-10168986 1.0000 120 chr2L:7039378-7039498 1.0000 120 chr2L:13549285-13549405 1.0000 120 chr2R:14429909-14430029 1.0000 120 chr2L:14372424-14372544 1.0000 120 chr2L:3303171-3303291 1.0000 120 chrX:5638682-5638802 1.0000 120 chr3R:10560720-10560840 1.0000 120 chrX:2318463-2318583 1.0000 120 chr2L:13550132-13550252 1.0000 120 chr3L:6816346-6816466 1.0000 120 chr3R:26953566-26953686 1.0000 120 chr2R:6134602-6134722 1.0000 120 chr3L:13006534-13006654 1.0000 120 chr3R:25050206-25050326 1.0000 120 chr2R:22063272-22063392 1.0000 120 chr2R:16229938-16230058 1.0000 120 chrX:14766002-14766122 1.0000 120 chr3L:1740240-1740360 1.0000 120 chr3L:19656013-19656133 1.0000 120 chr3L:14982909-14983029 1.0000 120 chr2L:8952751-8952871 1.0000 120 chr2L:2878980-2879100 1.0000 120 chr3L:13036817-13036937 1.0000 120 chr3L:22262949-22263069 1.0000 120 chr2L:19547350-19547470 1.0000 120 chr3L:17644937-17645057 1.0000 120 chrX:19613628-19613748 1.0000 120 chr3L:11449069-11449189 1.0000 120 chr2R:10853403-10853523 1.0000 120 chr3R:17151752-17151872 1.0000 120 chr3R:28887981-28888101 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_gcm2/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/gcm2.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 0.285 C 0.21 G 0.208 T 0.297 Background letter frequencies (from file dataset with add-one prior applied): A 0.285 C 0.21 G 0.208 T 0.297 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GSTCACAC MEME-1 width = 8 sites = 22 llr = 210 E-value = 2.5e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 Description -------------------------------------------------------------------------------- Simplified A 2:2:a:a: pos.-specific C :41a:a:a probability G 86:::::: matrix T ::7::::: bits 2.3 * * * 2.0 * * * 1.8 ***** 1.6 * ***** Relative 1.4 ** ***** Entropy 1.1 ** ***** (13.8 bits) 0.9 ** ***** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGTCACAC consensus CA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:12757549-12757669 103 9.67e-06 TCTTTGAAGC GGTCACAC TGGTCGATGG chr2L:16719874-16719994 24 9.67e-06 CGGTCACTCT GGTCACAC TAATTACCTA chr2L:2857079-2857199 98 9.67e-06 CAGCAAACGC GGTCACAC TGCAAGTTCA chr2R:14981191-14981311 69 9.67e-06 ACCGCGCTGC GGTCACAC CGAATTCAGC chr2R:9958793-9958913 73 9.67e-06 TGAGCGGATG GGTCACAC TCAGCCAGCA chrX:12659329-12659449 50 9.67e-06 ACTCGCGGCT GGTCACAC TGCCGGGCAA chr3R:24518129-24518249 73 9.67e-06 TGCATATTCC GGTCACAC TACCTTTTAC chr3L:15729482-15729602 79 9.67e-06 CTGGGTTAAA GGTCACAC GGTGTGTTGT chr2L:6047867-6047987 112 9.67e-06 GGGCTAGGGT GGTCACAC T chr3L:3787967-3788087 113 9.67e-06 TCGGCAGCGC GGTCACAC chr2L:4441015-4441135 28 1.94e-05 CACGACTTTG GCTCACAC CGTTCACTTT chr3L:18898184-18898304 93 1.94e-05 AAAGTGGGCT GCTCACAC GCGACTGAAT chr3R:30021940-30022060 32 3.81e-05 GGCCGCCGCT GCACACAC ACACACGCAC chr3R:7000953-7001073 8 3.81e-05 AGAGACC GCACACAC ACAAGCGCGG chr3R:18298621-18298741 35 3.81e-05 TTATACGCAC GCACACAC ACACCAAGGC chr2R:13897640-13897760 12 3.81e-05 CAGCAAGTCG GCACACAC AGCGGATACG chr3R:28845190-28845310 34 4.49e-05 CTTAGCAACT GGCCACAC TGCAACGTAT chr2R:23964753-23964873 14 4.49e-05 CACCAGCTCT GGCCACAC TCGCCCGCCT chr3R:24298584-24298704 55 5.81e-05 GTTAGCATTG AGTCACAC CAACAACGAT chr3R:16099809-16099929 23 7.84e-05 ACGGCCAGAC ACTCACAC ATACACTCAC chr2R:20618114-20618234 10 7.84e-05 GACGCGTTC ACTCACAC TAGCACAGGT chr2R:8156345-8156465 27 1.04e-04 CTCGCCAAAT ACACACAC ATTGACCACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:12757549-12757669 9.7e-06 102_[+1]_10 chr2L:16719874-16719994 9.7e-06 23_[+1]_89 chr2L:2857079-2857199 9.7e-06 97_[+1]_15 chr2R:14981191-14981311 9.7e-06 68_[+1]_44 chr2R:9958793-9958913 9.7e-06 72_[+1]_40 chrX:12659329-12659449 9.7e-06 49_[+1]_63 chr3R:24518129-24518249 9.7e-06 72_[+1]_40 chr3L:15729482-15729602 9.7e-06 78_[+1]_34 chr2L:6047867-6047987 9.7e-06 111_[+1]_1 chr3L:3787967-3788087 9.7e-06 112_[+1] chr2L:4441015-4441135 1.9e-05 27_[+1]_85 chr3L:18898184-18898304 1.9e-05 92_[+1]_20 chr3R:30021940-30022060 3.8e-05 31_[+1]_81 chr3R:7000953-7001073 3.8e-05 7_[+1]_105 chr3R:18298621-18298741 3.8e-05 34_[+1]_78 chr2R:13897640-13897760 3.8e-05 11_[+1]_101 chr3R:28845190-28845310 4.5e-05 33_[+1]_79 chr2R:23964753-23964873 4.5e-05 13_[+1]_99 chr3R:24298584-24298704 5.8e-05 54_[+1]_58 chr3R:16099809-16099929 7.8e-05 22_[+1]_90 chr2R:20618114-20618234 7.8e-05 9_[+1]_103 chr2R:8156345-8156465 0.0001 26_[+1]_86 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSTCACAC width=8 seqs=22 chr2R:12757549-12757669 ( 103) GGTCACAC 1 chr2L:16719874-16719994 ( 24) GGTCACAC 1 chr2L:2857079-2857199 ( 98) GGTCACAC 1 chr2R:14981191-14981311 ( 69) GGTCACAC 1 chr2R:9958793-9958913 ( 73) GGTCACAC 1 chrX:12659329-12659449 ( 50) GGTCACAC 1 chr3R:24518129-24518249 ( 73) GGTCACAC 1 chr3L:15729482-15729602 ( 79) GGTCACAC 1 chr2L:6047867-6047987 ( 112) GGTCACAC 1 chr3L:3787967-3788087 ( 113) GGTCACAC 1 chr2L:4441015-4441135 ( 28) GCTCACAC 1 chr3L:18898184-18898304 ( 93) GCTCACAC 1 chr3R:30021940-30022060 ( 32) GCACACAC 1 chr3R:7000953-7001073 ( 8) GCACACAC 1 chr3R:18298621-18298741 ( 35) GCACACAC 1 chr2R:13897640-13897760 ( 12) GCACACAC 1 chr3R:28845190-28845310 ( 34) GGCCACAC 1 chr2R:23964753-23964873 ( 14) GGCCACAC 1 chr3R:24298584-24298704 ( 55) AGTCACAC 1 chr3R:16099809-16099929 ( 23) ACTCACAC 1 chr2R:20618114-20618234 ( 10) ACTCACAC 1 chr2R:8156345-8156465 ( 27) ACACACAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.3525 E= 2.5e+000 -65 -1110 198 -1110 -1110 96 151 -1110 -33 -120 -1110 120 -1110 225 -1110 -1110 181 -1110 -1110 -1110 -1110 225 -1110 -1110 181 -1110 -1110 -1110 -1110 225 -1110 -1110 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 2.5e+000 0.181818 0.000000 0.818182 0.000000 0.000000 0.409091 0.590909 0.000000 0.227273 0.090909 0.000000 0.681818 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSTCACAC MEME-1 regular expression -------------------------------------------------------------------------------- G[GC][TA]CACAC -------------------------------------------------------------------------------- Time 7.43 secs. ******************************************************************************** ******************************************************************************** MOTIF CAGCTGTK MEME-2 width = 8 sites = 24 llr = 227 E-value = 2.3e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 Description -------------------------------------------------------------------------------- Simplified A :a::::2: pos.-specific C a::a::32 probability G ::a::a:3 matrix T ::::a:65 bits 2.3 * ** * 2.0 * ** * 1.8 ****** 1.6 ****** Relative 1.4 ****** Entropy 1.1 ****** (13.7 bits) 0.9 ****** 0.7 ****** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAGCTGTT consensus CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:17151752-17151872 94 1.42e-05 CCGTGACCGC CAGCTGTT GCGCAGTGCT chr3L:22262949-22263069 49 1.42e-05 CTGCACCCAT CAGCTGTT TCTTAAAAAA chr2L:2878980-2879100 91 1.42e-05 CTGCGTCGAT CAGCTGTT TGATAAGCCA chr3L:2466856-2466976 76 1.42e-05 CAACGACGCA CAGCTGTT TGCGACGCCG chr3L:1647419-1647539 21 1.42e-05 CAATACACAA CAGCTGTT TAATGTGCCC chr3L:17476189-17476309 60 1.42e-05 AGCCACCGCA CAGCTGTT TGCAAGCAAA chr3L:6703520-6703640 41 1.42e-05 CATTCACAGC CAGCTGTT TCGGCTACCC chr3L:12802743-12802863 73 1.42e-05 CAATAACTGG CAGCTGTT TCGAAAAACT chr2L:9616737-9616857 44 2.42e-05 AACACTGCGC CAGCTGTG TTGGTGGTGG chr3R:18298621-18298741 107 2.42e-05 GAATCGCTTT CAGCTGTG CATTTA chr3R:26567049-26567169 98 2.42e-05 GCAGCAACAG CAGCTGTG GTGGCTGAGT chr3R:30021940-30022060 12 3.43e-05 CACATACCAG CAGCTGCT ACGGCCGCCG chr2R:17564783-17564903 49 3.43e-05 TATCATCGCA CAGCTGCT AATTCGACGT chr3L:3787967-3788087 52 3.43e-05 GCAGTGTGGC CAGCTGCT TAGCGGCCGA chr3R:7977608-7977728 38 4.13e-05 GGGTATTCAG CAGCTGCG TTGATTGTAC chrX:16782158-16782278 54 4.13e-05 GGTGCAAACA CAGCTGCG ACATTAGTTT chr3R:10560720-10560840 44 5.14e-05 TTATTCTAGC CAGCTGTC TTTAAAATAC chr2L:3303171-3303291 51 5.14e-05 GCGCCGCAAT CAGCTGTC TTTCCAATGA chr3R:4453509-4453629 12 5.14e-05 GAAGAAGCAC CAGCTGTC GCAGGGGTAC chrX:19613628-19613748 83 6.51e-05 CCAGCGGCAA CAGCTGAT CGTCGTGGAA chr3R:11796902-11797022 88 6.51e-05 CTTTCTGCAT CAGCTGAT TGAATGTGTC chr3R:23986567-23986687 23 7.22e-05 CAGCACCCTG CAGCTGCC TGCATTGGTA chr3R:28845190-28845310 92 8.18e-05 GTTCTTCAAA CAGCTGAG CGGCGGACGG chr2R:22312742-22312862 4 8.18e-05 CGG CAGCTGAG TGGCAAAACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:17151752-17151872 1.4e-05 93_[+2]_19 chr3L:22262949-22263069 1.4e-05 48_[+2]_64 chr2L:2878980-2879100 1.4e-05 90_[+2]_22 chr3L:2466856-2466976 1.4e-05 75_[+2]_37 chr3L:1647419-1647539 1.4e-05 20_[+2]_92 chr3L:17476189-17476309 1.4e-05 59_[+2]_53 chr3L:6703520-6703640 1.4e-05 40_[+2]_72 chr3L:12802743-12802863 1.4e-05 72_[+2]_40 chr2L:9616737-9616857 2.4e-05 43_[+2]_69 chr3R:18298621-18298741 2.4e-05 106_[+2]_6 chr3R:26567049-26567169 2.4e-05 97_[+2]_15 chr3R:30021940-30022060 3.4e-05 11_[+2]_101 chr2R:17564783-17564903 3.4e-05 48_[+2]_64 chr3L:3787967-3788087 3.4e-05 51_[+2]_61 chr3R:7977608-7977728 4.1e-05 37_[+2]_75 chrX:16782158-16782278 4.1e-05 53_[+2]_59 chr3R:10560720-10560840 5.1e-05 43_[+2]_69 chr2L:3303171-3303291 5.1e-05 50_[+2]_62 chr3R:4453509-4453629 5.1e-05 11_[+2]_101 chrX:19613628-19613748 6.5e-05 82_[+2]_30 chr3R:11796902-11797022 6.5e-05 87_[+2]_25 chr3R:23986567-23986687 7.2e-05 22_[+2]_90 chr3R:28845190-28845310 8.2e-05 91_[+2]_21 chr2R:22312742-22312862 8.2e-05 3_[+2]_109 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGCTGTK width=8 seqs=24 chr3R:17151752-17151872 ( 94) CAGCTGTT 1 chr3L:22262949-22263069 ( 49) CAGCTGTT 1 chr2L:2878980-2879100 ( 91) CAGCTGTT 1 chr3L:2466856-2466976 ( 76) CAGCTGTT 1 chr3L:1647419-1647539 ( 21) CAGCTGTT 1 chr3L:17476189-17476309 ( 60) CAGCTGTT 1 chr3L:6703520-6703640 ( 41) CAGCTGTT 1 chr3L:12802743-12802863 ( 73) CAGCTGTT 1 chr2L:9616737-9616857 ( 44) CAGCTGTG 1 chr3R:18298621-18298741 ( 107) CAGCTGTG 1 chr3R:26567049-26567169 ( 98) CAGCTGTG 1 chr3R:30021940-30022060 ( 12) CAGCTGCT 1 chr2R:17564783-17564903 ( 49) CAGCTGCT 1 chr3L:3787967-3788087 ( 52) CAGCTGCT 1 chr3R:7977608-7977728 ( 38) CAGCTGCG 1 chrX:16782158-16782278 ( 54) CAGCTGCG 1 chr3R:10560720-10560840 ( 44) CAGCTGTC 1 chr2L:3303171-3303291 ( 51) CAGCTGTC 1 chr3R:4453509-4453629 ( 12) CAGCTGTC 1 chrX:19613628-19613748 ( 83) CAGCTGAT 1 chr3R:11796902-11797022 ( 88) CAGCTGAT 1 chr3R:23986567-23986687 ( 23) CAGCTGCC 1 chr3R:28845190-28845310 ( 92) CAGCTGAG 1 chr2R:22312742-22312862 ( 4) CAGCTGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.3 E= 2.3e-001 -1123 225 -1123 -1123 181 -1123 -1123 -1123 -1123 -1123 227 -1123 -1123 225 -1123 -1123 -1123 -1123 -1123 175 -1123 -1123 227 -1123 -78 25 -1123 97 -1123 -33 49 86 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 2.3e-001 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.166667 0.250000 0.000000 0.583333 0.000000 0.166667 0.291667 0.541667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCTGTK MEME-2 regular expression -------------------------------------------------------------------------------- CAGCTG[TC][TG] -------------------------------------------------------------------------------- Time 13.76 secs. ******************************************************************************** ******************************************************************************** MOTIF CRCAGTGS MEME-3 width = 8 sites = 42 llr = 345 E-value = 1.9e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 Description -------------------------------------------------------------------------------- Simplified A 15:6:::: pos.-specific C 9:a1:3:5 probability G :5::a:a3 matrix T :::2:7:2 bits 2.3 * * * 2.0 * * * 1.8 * * * 1.6 * * * * Relative 1.4 * * * * Entropy 1.1 *** *** (11.8 bits) 0.9 *** *** 0.7 *** **** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CGCAGTGC consensus A T C G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:17151752-17151872 103 7.05e-06 CCAGCTGTTG CGCAGTGC TGGAAAGTGC chr2L:8573095-8573215 95 7.05e-06 TATTTTTTCT CGCAGTGC CTTTCAGCAA chr3L:11449069-11449189 94 1.67e-05 CATAATTTCT CACAGTGc actcccattc chrX:3086048-3086168 49 1.67e-05 ACTTTTTTCT CACAGTGC AGCTTATCGG chr2R:12259331-12259451 60 2.17e-05 TATATGGCGA CGCAGCGC TATTTTGAAC chr3R:9677842-9677962 74 2.17e-05 GTCACATCTC CGCAGCGC GCTCGGTAAC chrX:21281072-21281192 87 2.17e-05 TGagcgccaa cgcagcgc cagtgtagcg chr3L:1647419-1647539 97 3.60e-05 TTTGCTTAAG CGCTGTGC TAACCAACAC chrX:5638682-5638802 10 5.77e-05 ACGGTTTGG CACAGTGG TTGTGTGGAT chr3R:15145660-15145780 65 5.77e-05 CCTGATTTCT CGCCGTGC ATCGACCGCG chr2L:7333188-7333308 43 5.77e-05 GGCGACGTTG CACAGTGG GCTGGATCTG chr3R:30796798-30796918 35 5.77e-05 GACAGCGAAA CACAGTGG CAACGAAAAG chr3L:18759345-18759465 12 5.77e-05 CACACCAGCG CACAGTGG AATCTAGGTC chr2R:8928080-8928200 42 5.77e-05 TCTTGCCACG CACAGTGG CGTCGCGCAG chr3R:24518129-24518249 102 5.77e-05 GATAGCTGCG CGCCGTgc aatggatagg chr3R:23384924-23385044 3 5.77e-05 TG CGCCGTGC ACTTTGCTCT chr3L:5654677-5654797 45 6.26e-05 GTGCGTCGTG CGCAGCGG CAGCGTTTTC chr3R:28887981-28888101 5 7.27e-05 CCAA CACTGTGC TACGACGACC chr2L:11037983-11038103 63 7.27e-05 ACTTCCGTAC CACTGTGC GCTCGAACGC chr2L:2177769-2177889 88 7.27e-05 CTGTTTGCTC CACTGTGC ACTGTGGTTA chrX:5517037-5517157 67 7.27e-05 CGTTTCGTCC CACTGTGC CATGTGTTGC chr2R:10568435-10568555 94 7.27e-05 TGGTTTGTCC CACTGTGC GCGTGATGTG chr3L:17644937-17645057 103 8.78e-05 TCACGTCTGA CGCTGCGC TAGAGATGGT chr2L:4441015-4441135 86 8.78e-05 AGGAATTTCT CGCAGTGT TTTGGCCTGG chr2R:14267740-14267860 103 8.78e-05 TAACGGTGCG CGCAGTGT AAGTTTCTCG chr3L:3787967-3788087 41 8.78e-05 GTTTATATGC CGCAGTGT GGCCAGCTGC chr2R:9955159-9955279 44 1.02e-04 CTCTCTCTCT CGCTGTGG AAAAAAAGGG chr3R:30021940-30022060 47 1.13e-04 CACACACACG CACAGCGG GCAAACGGGC chr2L:13550132-13550252 70 1.18e-04 GATCTCGGAA CGCCGTGG GAGTCGGAAA chr2R:16135463-16135583 84 1.39e-04 AGAGTTCGCT CACAGTGT TCCCAGCCAG chr2L:9616737-9616857 36 1.39e-04 CCGAATGCAA CACTGCGC CAGCTGTGTT chr2R:14219494-14219614 36 1.39e-04 GCGTATACGA CACAGTGT TCTCGGGCCA chr2L:14490833-14490953 47 1.56e-04 ATTTTGACTT CGCAGCGT TCAGACGTGT chr3R:29725639-29725759 83 1.56e-04 AGGCCCACTG CACTGTGG TTCGAGTCCC chr3R:24298584-24298704 12 1.56e-04 TATTTGCATA CGCAGCGT ACTGCCAGCA chr2R:14981191-14981311 58 1.66e-04 TATCTGGTAA CACCGCGC TGCGGTCACA chr2L:3813395-3813515 77 1.82e-04 TTGCAAGGAG AGCAGTGC TCAAAAGCAA chr2L:7641777-7641897 65 1.82e-04 AAACTAGTCA AGCAGTGC ACAGTAACTA chr3L:2466856-2466976 89 1.86e-04 CTGTTTGCGA CGCCGCGG TTTTTGTTTA chrX:6621768-6621888 35 2.34e-04 AACTATTTTG AACAGTGC ACAAACGCTC chr2R:13897640-13897760 68 2.45e-04 TACTGAATGG AGCAGCGC CACTCCGAGA chr3R:5282862-5282982 48 2.69e-04 GGCGGTGTTC AGCAGTGG AAGCGGGCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:17151752-17151872 7.1e-06 102_[+3]_10 chr2L:8573095-8573215 7.1e-06 94_[+3]_18 chr3L:11449069-11449189 1.7e-05 93_[+3]_19 chrX:3086048-3086168 1.7e-05 48_[+3]_64 chr2R:12259331-12259451 2.2e-05 59_[+3]_53 chr3R:9677842-9677962 2.2e-05 73_[+3]_39 chrX:21281072-21281192 2.2e-05 86_[+3]_26 chr3L:1647419-1647539 3.6e-05 96_[+3]_16 chrX:5638682-5638802 5.8e-05 9_[+3]_103 chr3R:15145660-15145780 5.8e-05 64_[+3]_48 chr2L:7333188-7333308 5.8e-05 42_[+3]_70 chr3R:30796798-30796918 5.8e-05 34_[+3]_78 chr3L:18759345-18759465 5.8e-05 11_[+3]_101 chr2R:8928080-8928200 5.8e-05 41_[+3]_71 chr3R:24518129-24518249 5.8e-05 101_[+3]_11 chr3R:23384924-23385044 5.8e-05 2_[+3]_110 chr3L:5654677-5654797 6.3e-05 44_[+3]_68 chr3R:28887981-28888101 7.3e-05 4_[+3]_108 chr2L:11037983-11038103 7.3e-05 62_[+3]_50 chr2L:2177769-2177889 7.3e-05 87_[+3]_25 chrX:5517037-5517157 7.3e-05 66_[+3]_46 chr2R:10568435-10568555 7.3e-05 93_[+3]_19 chr3L:17644937-17645057 8.8e-05 102_[+3]_10 chr2L:4441015-4441135 8.8e-05 85_[+3]_27 chr2R:14267740-14267860 8.8e-05 102_[+3]_10 chr3L:3787967-3788087 8.8e-05 40_[+3]_72 chr2R:9955159-9955279 0.0001 43_[+3]_69 chr3R:30021940-30022060 0.00011 46_[+3]_66 chr2L:13550132-13550252 0.00012 69_[+3]_43 chr2R:16135463-16135583 0.00014 83_[+3]_29 chr2L:9616737-9616857 0.00014 35_[+3]_77 chr2R:14219494-14219614 0.00014 35_[+3]_77 chr2L:14490833-14490953 0.00016 46_[+3]_66 chr3R:29725639-29725759 0.00016 82_[+3]_30 chr3R:24298584-24298704 0.00016 11_[+3]_101 chr2R:14981191-14981311 0.00017 57_[+3]_55 chr2L:3813395-3813515 0.00018 76_[+3]_36 chr2L:7641777-7641897 0.00018 64_[+3]_48 chr3L:2466856-2466976 0.00019 88_[+3]_24 chrX:6621768-6621888 0.00023 34_[+3]_78 chr2R:13897640-13897760 0.00025 67_[+3]_45 chr3R:5282862-5282982 0.00027 47_[+3]_65 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CRCAGTGS width=8 seqs=42 chr3R:17151752-17151872 ( 103) CGCAGTGC 1 chr2L:8573095-8573215 ( 95) CGCAGTGC 1 chr3L:11449069-11449189 ( 94) CACAGTGC 1 chrX:3086048-3086168 ( 49) CACAGTGC 1 chr2R:12259331-12259451 ( 60) CGCAGCGC 1 chr3R:9677842-9677962 ( 74) CGCAGCGC 1 chrX:21281072-21281192 ( 87) CGCAGCGC 1 chr3L:1647419-1647539 ( 97) CGCTGTGC 1 chrX:5638682-5638802 ( 10) CACAGTGG 1 chr3R:15145660-15145780 ( 65) CGCCGTGC 1 chr2L:7333188-7333308 ( 43) CACAGTGG 1 chr3R:30796798-30796918 ( 35) CACAGTGG 1 chr3L:18759345-18759465 ( 12) CACAGTGG 1 chr2R:8928080-8928200 ( 42) CACAGTGG 1 chr3R:24518129-24518249 ( 102) CGCCGTGC 1 chr3R:23384924-23385044 ( 3) CGCCGTGC 1 chr3L:5654677-5654797 ( 45) CGCAGCGG 1 chr3R:28887981-28888101 ( 5) CACTGTGC 1 chr2L:11037983-11038103 ( 63) CACTGTGC 1 chr2L:2177769-2177889 ( 88) CACTGTGC 1 chrX:5517037-5517157 ( 67) CACTGTGC 1 chr2R:10568435-10568555 ( 94) CACTGTGC 1 chr3L:17644937-17645057 ( 103) CGCTGCGC 1 chr2L:4441015-4441135 ( 86) CGCAGTGT 1 chr2R:14267740-14267860 ( 103) CGCAGTGT 1 chr3L:3787967-3788087 ( 41) CGCAGTGT 1 chr2R:9955159-9955279 ( 44) CGCTGTGG 1 chr3R:30021940-30022060 ( 47) CACAGCGG 1 chr2L:13550132-13550252 ( 70) CGCCGTGG 1 chr2R:16135463-16135583 ( 84) CACAGTGT 1 chr2L:9616737-9616857 ( 36) CACTGCGC 1 chr2R:14219494-14219614 ( 36) CACAGTGT 1 chr2L:14490833-14490953 ( 47) CGCAGCGT 1 chr3R:29725639-29725759 ( 83) CACTGTGG 1 chr3R:24298584-24298704 ( 12) CGCAGCGT 1 chr2R:14981191-14981311 ( 58) CACCGCGC 1 chr2L:3813395-3813515 ( 77) AGCAGTGC 1 chr2L:7641777-7641897 ( 65) AGCAGTGC 1 chr3L:2466856-2466976 ( 89) CGCCGCGG 1 chrX:6621768-6621888 ( 35) AACAGTGC 1 chr2R:13897640-13897760 ( 68) AGCAGCGC 1 chr3R:5282862-5282982 ( 48) AGCAGTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.3789 E= 1.9e+002 -126 207 -1204 -1204 66 -1204 140 -1204 -1204 225 -1204 -1204 112 -55 -1204 -32 -1204 -1204 227 -1204 -1204 45 -1204 126 -1204 -1204 227 -1204 -1204 139 46 -84 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 1.9e+002 0.119048 0.880952 0.000000 0.000000 0.452381 0.000000 0.547619 0.000000 0.000000 1.000000 0.000000 0.000000 0.619048 0.142857 0.000000 0.238095 0.000000 0.000000 1.000000 0.000000 0.000000 0.285714 0.000000 0.714286 0.000000 0.000000 1.000000 0.000000 0.000000 0.547619 0.285714 0.166667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CRCAGTGS MEME-3 regular expression -------------------------------------------------------------------------------- C[GA]C[AT]G[TC]G[CG] -------------------------------------------------------------------------------- Time 20.05 secs. ******************************************************************************** ******************************************************************************** MOTIF DGAGAGCG MEME-4 width = 8 sites = 11 llr = 115 E-value = 4.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 Description -------------------------------------------------------------------------------- Simplified A 4:a:a::: pos.-specific C 1:::::a: probability G 4a:a:a:a matrix T 2::::::: bits 2.3 * * *** 2.0 * * *** 1.8 ******* 1.6 ******* Relative 1.4 ******* Entropy 1.1 ******* (15.1 bits) 0.9 ******* 0.7 ******* 0.5 ******* 0.2 ******** 0.0 -------- Multilevel AGAGAGCG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:3303171-3303291 28 6.64e-06 GATAACGAGG GGAGAGCG CGAGAGCGCC chr2L:20915468-20915588 48 6.64e-06 TTAAAATGTA GGAGAGCG ATCAAATCCA chr2L:7828238-7828358 78 6.64e-06 GGCGCTGAGC GGAGAGCG CGAGAGCATG chr2R:13897640-13897760 101 6.64e-06 ATGGTTAAGT GGAGAGCG AGAGCGAGCT chr3R:20309550-20309670 38 1.57e-05 GGAGCGATAG AGAGAGCG ATAGAGCCGC chr3R:7000953-7001073 60 1.57e-05 CGGCGCAGGC Agagagcg agagtgcgag chr3L:22407836-22407956 76 1.57e-05 agagagagct agagagCG CAAGTCGCTG chr2R:9554258-9554378 7 1.57e-05 AAGCAT AGAGAGCG GAATAGAGGG chr3R:10139931-10140051 81 2.52e-05 ATCGCTCCTA TGAGAGCG TTGACAACGT chr2R:16552174-16552294 7 2.52e-05 CGCTGC TGAGAGCG CGGCGAGAGA chr2R:12259331-12259451 1 3.19e-05 . CGAGAGCG AGAGCGGTTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:3303171-3303291 6.6e-06 27_[+4]_85 chr2L:20915468-20915588 6.6e-06 47_[+4]_65 chr2L:7828238-7828358 6.6e-06 77_[+4]_35 chr2R:13897640-13897760 6.6e-06 100_[+4]_12 chr3R:20309550-20309670 1.6e-05 37_[+4]_75 chr3R:7000953-7001073 1.6e-05 59_[+4]_53 chr3L:22407836-22407956 1.6e-05 75_[+4]_37 chr2R:9554258-9554378 1.6e-05 6_[+4]_106 chr3R:10139931-10140051 2.5e-05 80_[+4]_32 chr2R:16552174-16552294 2.5e-05 6_[+4]_106 chr2R:12259331-12259451 3.2e-05 [+4]_112 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF DGAGAGCG width=8 seqs=11 chr2L:3303171-3303291 ( 28) GGAGAGCG 1 chr2L:20915468-20915588 ( 48) GGAGAGCG 1 chr2L:7828238-7828358 ( 78) GGAGAGCG 1 chr2R:13897640-13897760 ( 101) GGAGAGCG 1 chr3R:20309550-20309670 ( 38) AGAGAGCG 1 chr3R:7000953-7001073 ( 60) AGAGAGCG 1 chr3L:22407836-22407956 ( 76) AGAGAGCG 1 chr2R:9554258-9554378 ( 7) AGAGAGCG 1 chr3R:10139931-10140051 ( 81) TGAGAGCG 1 chr2R:16552174-16552294 ( 7) TGAGAGCG 1 chr2R:12259331-12259451 ( 1) CGAGAGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.8598 E= 4.5e+002 35 -120 81 -71 -1010 -1010 227 -1010 181 -1010 -1010 -1010 -1010 -1010 227 -1010 181 -1010 -1010 -1010 -1010 -1010 227 -1010 -1010 225 -1010 -1010 -1010 -1010 227 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 4.5e+002 0.363636 0.090909 0.363636 0.181818 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DGAGAGCG MEME-4 regular expression -------------------------------------------------------------------------------- [AG]GAGAGCG -------------------------------------------------------------------------------- Time 26.21 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGAGGG MEME-5 width = 8 sites = 2 llr = 25 E-value = 4.5e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::a::: pos.-specific C :::::::: probability G aaaa:aaa matrix T :::::::: bits 2.3 **** *** 2.0 **** *** 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.1 ******** (17.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGGGAGGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:6078967-6079087 61 4.80e-06 AAGTGGTGTG GGGGAGGG GTGCAGCCAG chr2R:14267740-14267860 14 4.80e-06 CAGTTCAATT GGGGAGGG AAAATCTCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:6078967-6079087 4.8e-06 60_[+5]_52 chr2R:14267740-14267860 4.8e-06 13_[+5]_99 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGAGGG width=8 seqs=2 chr2L:6078967-6079087 ( 61) GGGGAGGG 1 chr2R:14267740-14267860 ( 14) GGGGAGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.7859 E= 4.5e+004 -765 -765 226 -765 -765 -765 226 -765 -765 -765 226 -765 -765 -765 226 -765 180 -765 -765 -765 -765 -765 226 -765 -765 -765 226 -765 -765 -765 226 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 4.5e+004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 regular expression -------------------------------------------------------------------------------- GGGGAGGG -------------------------------------------------------------------------------- Time 32.33 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:9554258-9554378 2.41e-02 6_[+4(1.57e-05)]_106 chr2L:8198783-8198903 9.83e-01 120 chr2R:14219494-14219614 7.63e-02 120 chr2L:9618142-9618262 9.91e-01 120 chrX:18512439-18512559 4.71e-01 120 chr2L:9613367-9613487 6.11e-02 120 chr2R:20618114-20618234 6.39e-02 9_[+1(7.84e-05)]_103 chr3L:13021796-13021916 8.48e-01 120 chr2R:23964753-23964873 3.20e-02 13_[+1(4.49e-05)]_99 chr3L:3787967-3788087 3.69e-05 40_[+3(8.78e-05)]_3_[+2(3.43e-05)]_\ 53_[+1(9.67e-06)] chr2R:10568435-10568555 5.00e-02 93_[+3(7.27e-05)]_19 chrX:21281072-21281192 1.24e-02 86_[+3(2.17e-05)]_26 chr3R:23384924-23385044 3.46e-01 2_[+3(5.77e-05)]_110 chr2R:13897640-13897760 9.58e-06 11_[+1(3.81e-05)]_81_[+4(6.64e-06)]_\ 12 chr3R:24298584-24298704 3.52e-02 54_[+1(5.81e-05)]_58 chr2R:23942316-23942436 5.08e-01 120 chr3L:3814427-3814547 6.56e-01 120 chr3R:11949762-11949882 2.77e-01 120 chr3R:4804891-4805011 1.73e-01 120 chrX:2158990-2159110 2.57e-01 120 chr3L:1755544-1755664 9.38e-01 120 chr3R:26121965-26122085 3.74e-01 120 chr2L:493369-493489 7.66e-01 120 chr3L:18898184-18898304 9.69e-02 92_[+1(1.94e-05)]_20 chr2L:7828238-7828358 4.07e-04 77_[+4(6.64e-06)]_35 chr3R:26567049-26567169 3.59e-03 97_[+2(2.42e-05)]_15 chr2R:9955159-9955279 1.71e-02 120 chr3L:11336605-11336725 7.95e-01 120 chr3R:18298621-18298741 1.03e-03 34_[+1(3.81e-05)]_64_[+2(2.42e-05)]_\ 6 chr2L:8554447-8554567 9.97e-01 120 chr2R:16552174-16552294 5.30e-03 6_[+4(2.52e-05)]_106 chrX:3811450-3811570 8.69e-01 120 chr3L:13923724-13923844 4.38e-01 120 chrX:4322741-4322861 1.67e-01 120 chrX:16102437-16102557 9.61e-01 120 chr3L:3760655-3760775 3.89e-01 120 chr3L:12802743-12802863 3.76e-02 53_[+2(6.51e-05)]_11_[+2(1.42e-05)]_\ 40 chr2L:8083121-8083241 8.76e-01 120 chr2L:6047867-6047987 1.29e-03 111_[+1(9.67e-06)]_1 chr3R:15290855-15290975 3.45e-02 120 chrX:3538862-3538982 5.85e-01 120 chr3R:9677842-9677962 2.19e-02 73_[+3(2.17e-05)]_39 chr2R:14485571-14485691 1.00e+00 120 chr2L:18881442-18881562 5.19e-03 79_[+5(1.68e-05)]_33 chr3L:15729482-15729602 1.49e-02 78_[+1(9.67e-06)]_34 chr2L:5982159-5982279 5.78e-01 120 chr2L:12009950-12010070 2.29e-02 120 chrX:13232833-13232953 5.62e-01 120 chr3R:8980088-8980208 2.87e-01 120 chr3L:11414672-11414792 9.85e-01 120 chr2L:20915468-20915588 2.83e-02 47_[+4(6.64e-06)]_65 chr2R:19451256-19451376 4.12e-02 120 chr3R:8744369-8744489 6.32e-01 120 chr3R:24582613-24582733 2.20e-01 120 chr2L:9616737-9616857 1.88e-04 43_[+2(2.42e-05)]_69 chr2R:14267740-14267860 6.44e-04 13_[+5(4.80e-06)]_81_[+3(8.78e-05)]_\ 10 chr3R:24518129-24518249 5.93e-04 72_[+1(9.67e-06)]_21_[+3(5.77e-05)]_\ 11 chr2R:23386445-23386565 7.09e-01 120 chr2R:18172302-18172422 3.94e-01 120 chr3L:6189659-6189779 1.35e-01 120 chr3R:11661898-11662018 5.87e-01 120 chr2R:9409315-9409435 3.08e-01 120 chr3L:22407836-22407956 4.98e-02 75_[+4(1.57e-05)]_37 chr3R:5015304-5015424 6.81e-01 120 chr3R:14657231-14657351 2.42e-01 120 chrX:5517037-5517157 2.02e-01 66_[+3(7.27e-05)]_46 chr3L:9762225-9762345 9.53e-01 120 chr3L:554717-554837 1.00e+00 120 chr2R:9207373-9207493 9.84e-01 120 chr2R:21128503-21128623 4.33e-01 120 chr3R:5282862-5282982 1.85e-02 120 chrX:12659329-12659449 6.90e-03 49_[+1(9.67e-06)]_63 chr3L:15142498-15142618 2.44e-01 120 chr3R:10042789-10042909 4.41e-01 120 chr3R:27557171-27557291 7.61e-01 120 chr2L:14234188-14234308 9.24e-01 120 chr3L:160777-160897 4.68e-01 120 chrX:16103644-16103764 9.86e-01 120 chr2R:22312742-22312862 1.79e-01 3_[+2(8.18e-05)]_109 chr2L:2858325-2858445 3.94e-01 120 chr2R:7745489-7745609 2.66e-01 120 chrX:16319315-16319435 2.64e-01 120 chrX:8863541-8863661 7.50e-01 120 chr3R:31060359-31060479 6.04e-01 120 chr2L:2227460-2227580 9.15e-01 120 chr2R:16135463-16135583 1.39e-02 120 chr3R:29725639-29725759 2.00e-01 120 chr3R:7000953-7001073 3.70e-04 7_[+1(3.81e-05)]_44_[+4(1.57e-05)]_\ 53 chr2R:21663182-21663302 2.18e-01 120 chr2R:7150687-7150807 2.66e-01 120 chr3L:14780378-14780498 3.22e-01 120 chr2R:20836054-20836174 4.28e-03 14_[+5(1.68e-05)]_98 chr3R:11796902-11797022 4.08e-01 87_[+2(6.51e-05)]_25 chr3R:9370574-9370694 8.01e-01 120 chr2R:9958793-9958913 2.17e-03 72_[+1(9.67e-06)]_14_[+1(9.67e-06)]_\ 18 chrX:16610653-16610773 8.33e-01 120 chr3R:28845190-28845310 5.49e-04 33_[+1(4.49e-05)]_50_[+2(8.18e-05)]_\ 21 chr3R:19847902-19848022 9.75e-01 120 chr2R:17564783-17564903 3.98e-02 48_[+2(3.43e-05)]_64 chr3R:16249785-16249905 8.37e-01 120 chr3R:15089691-15089811 8.08e-01 120 chr3R:13064325-13064445 1.35e-01 120 chr2L:10221173-10221293 5.65e-01 120 chr2L:9594964-9595084 9.91e-01 120 chr2R:24657128-24657248 9.96e-01 120 chr3L:20540350-20540470 1.95e-01 120 chr2L:11199194-11199314 5.63e-01 120 chr2R:12259331-12259451 8.38e-04 [+4(3.19e-05)]_51_[+3(2.17e-05)]_53 chrX:17176697-17176817 9.73e-01 120 chr3R:16005055-16005175 7.78e-02 120 chr3L:6703520-6703640 8.56e-03 40_[+2(1.42e-05)]_72 chr3R:27153421-27153541 9.64e-01 120 chrX:18647124-18647244 2.22e-01 120 chr3L:5654677-5654797 1.05e-02 44_[+3(6.26e-05)]_68 chr3L:9511376-9511496 9.84e-01 120 chr2L:14490833-14490953 2.36e-01 120 chr2L:6078967-6079087 1.47e-03 60_[+5(4.80e-06)]_52 chr2R:15252499-15252619 2.55e-01 120 chr2R:7474255-7474375 1.00e+00 120 chr3R:8819716-8819836 8.48e-01 120 chrX:6621768-6621888 2.70e-02 120 chr2R:9578063-9578183 8.39e-01 120 chr3R:8789092-8789212 8.67e-01 120 chrX:17330385-17330505 9.97e-01 120 chr3R:10139931-10140051 1.66e-01 80_[+4(2.52e-05)]_32 chr3L:3471273-3471393 8.51e-02 120 chrX:7703076-7703196 9.99e-01 120 chr3R:14755123-14755243 4.12e-01 120 chr2R:7735291-7735411 7.69e-01 120 chr3L:15825523-15825643 4.18e-01 120 chr2L:67018-67138 7.94e-01 120 chr3R:20835028-20835148 1.70e-01 120 chr2R:11603454-11603574 4.04e-01 120 chr2L:2177769-2177889 5.66e-02 87_[+3(7.27e-05)]_25 chr3R:27677198-27677318 9.96e-01 120 chr2R:17796696-17796816 9.90e-01 120 chrX:13784553-13784673 9.99e-01 120 chr2L:8573095-8573215 4.05e-02 94_[+3(7.05e-06)]_18 chr3L:11403647-11403767 9.87e-01 120 chrX:19852118-19852238 7.17e-02 120 chr3R:8171580-8171700 7.57e-01 120 chr2R:18829729-18829849 8.64e-01 120 chr2R:11359216-11359336 9.25e-01 120 chr2R:17394513-17394633 7.10e-02 120 chr2L:4441015-4441135 1.03e-02 27_[+1(1.94e-05)]_50_[+3(8.78e-05)]_\ 27 chr2R:16170812-16170932 3.11e-01 120 chr2L:1629675-1629795 9.72e-01 120 chr3R:17385491-17385611 8.20e-01 120 chr2R:8928080-8928200 8.28e-02 41_[+3(5.77e-05)]_71 chr2L:11037983-11038103 8.29e-02 62_[+3(7.27e-05)]_50 chrX:245839-245959 3.27e-01 120 chrX:16782158-16782278 2.96e-02 53_[+2(4.13e-05)]_59 chr3L:21135985-21136105 5.52e-01 120 chr2R:13502258-13502378 1.23e-02 120 chr3R:22754351-22754471 1.00e+00 120 chrX:10775895-10776015 6.30e-01 120 chr2R:10475423-10475543 2.24e-01 120 chr3R:20309550-20309670 1.37e-02 37_[+4(1.57e-05)]_75 chr2L:7641777-7641897 4.03e-02 120 chr3L:16131957-16132077 2.19e-01 120 chr2R:14981191-14981311 2.90e-03 68_[+1(9.67e-06)]_44 chrX:3086048-3086168 4.66e-02 48_[+3(1.67e-05)]_64 chr2R:14621655-14621775 8.97e-01 120 chrX:6741299-6741419 8.44e-01 120 chr3R:17060322-17060442 9.99e-01 120 chr2L:5009779-5009899 9.54e-01 120 chr3L:14545561-14545681 7.50e-01 120 chr3R:16186981-16187101 1.20e-01 120 chr3L:17476189-17476309 1.69e-02 59_[+2(1.42e-05)]_53 chr2R:8064328-8064448 8.03e-01 120 chr2R:17015723-17015843 2.14e-01 120 chr2L:9576790-9576910 8.19e-02 120 chr2L:10516680-10516800 2.91e-01 120 chr3L:4186825-4186945 9.46e-02 120 chr2L:2857079-2857199 3.20e-02 97_[+1(9.67e-06)]_15 chr3R:16099809-16099929 2.33e-01 22_[+1(7.84e-05)]_4_[+1(7.84e-05)]_\ 78 chr3R:16431620-16431740 9.16e-01 120 chr2L:12026718-12026838 1.62e-01 120 chr3L:18759345-18759465 9.86e-02 11_[+3(5.77e-05)]_101 chr3R:30796798-30796918 3.80e-02 34_[+3(5.77e-05)]_78 chr3L:1029721-1029841 9.71e-01 120 chr2R:9833726-9833846 2.25e-02 120 chr2L:16719874-16719994 5.89e-02 23_[+1(9.67e-06)]_89 chrX:15615547-15615667 1.00e+00 120 chrX:16296513-16296633 6.48e-01 120 chr3L:4239624-4239744 7.28e-01 120 chr2R:13198291-13198411 5.89e-01 120 chr3L:9847549-9847669 9.93e-01 120 chr2R:16608357-16608477 9.99e-01 120 chr2R:8156345-8156465 2.54e-01 120 chr3L:17010131-17010251 2.65e-01 120 chr3R:6374013-6374133 8.27e-01 120 chrX:16773077-16773197 1.17e-01 120 chr2R:12633378-12633498 6.69e-01 120 chr2R:7815032-7815152 6.47e-01 120 chr3L:1647419-1647539 2.81e-03 20_[+2(1.42e-05)]_68_[+3(3.60e-05)]_\ 16 chr3L:12091522-12091642 5.15e-01 120 chr2L:2161769-2161889 5.40e-01 120 chr3R:8812727-8812847 9.44e-01 120 chr3R:30021940-30022060 2.64e-04 11_[+2(3.43e-05)]_12_[+1(3.81e-05)]_\ 81 chr3R:4453509-4453629 3.63e-02 11_[+2(5.14e-05)]_101 chr2L:7333188-7333308 5.94e-02 42_[+3(5.77e-05)]_70 chr3L:2466856-2466976 1.21e-02 75_[+2(1.42e-05)]_37 chr2R:11095274-11095394 3.99e-01 120 chr2R:12757549-12757669 2.73e-02 102_[+1(9.67e-06)]_10 chr2R:16125029-16125149 4.95e-01 120 chr3R:7977608-7977728 5.91e-03 37_[+2(4.13e-05)]_75 chr2R:15246596-15246716 9.71e-01 120 chr2L:9598410-9598530 1.51e-01 120 chr3R:15145660-15145780 1.52e-01 64_[+3(5.77e-05)]_48 chr3L:5185254-5185374 7.56e-01 120 chr3R:23986567-23986687 4.50e-02 22_[+2(7.22e-05)]_90 chr2L:3813395-3813515 1.34e-02 120 chrX:5908026-5908146 1.54e-01 120 chr3L:11120426-11120546 5.28e-01 120 chr2L:14500578-14500698 4.34e-01 120 chr3L:18625943-18626063 4.29e-01 120 chr2R:24539653-24539773 4.85e-01 120 chr3R:10168866-10168986 8.44e-01 120 chr2L:7039378-7039498 7.82e-01 120 chr2L:13549285-13549405 5.78e-02 120 chr2R:14429909-14430029 8.14e-01 120 chr2L:14372424-14372544 9.87e-01 120 chr2L:3303171-3303291 1.17e-05 27_[+4(6.64e-06)]_[+4(3.19e-05)]_7_\ [+2(5.14e-05)]_62 chrX:5638682-5638802 1.10e-01 9_[+3(5.77e-05)]_103 chr3R:10560720-10560840 2.74e-01 43_[+2(5.14e-05)]_69 chrX:2318463-2318583 8.44e-01 120 chr2L:13550132-13550252 3.83e-01 120 chr3L:6816346-6816466 9.76e-01 120 chr3R:26953566-26953686 9.87e-01 120 chr2R:6134602-6134722 9.83e-01 120 chr3L:13006534-13006654 9.41e-01 120 chr3R:25050206-25050326 1.65e-01 120 chr2R:22063272-22063392 5.52e-01 120 chr2R:16229938-16230058 8.53e-01 120 chrX:14766002-14766122 9.89e-01 120 chr3L:1740240-1740360 9.98e-01 120 chr3L:19656013-19656133 2.61e-01 120 chr3L:14982909-14983029 5.78e-02 120 chr2L:8952751-8952871 9.40e-01 120 chr2L:2878980-2879100 5.25e-02 90_[+2(1.42e-05)]_22 chr3L:13036817-13036937 2.55e-01 120 chr3L:22262949-22263069 9.30e-02 48_[+2(1.42e-05)]_64 chr2L:19547350-19547470 9.80e-01 120 chr3L:17644937-17645057 2.21e-01 102_[+3(8.78e-05)]_10 chrX:19613628-19613748 3.24e-02 82_[+2(6.51e-05)]_30 chr3L:11449069-11449189 3.64e-02 93_[+3(1.67e-05)]_19 chr2R:10853403-10853523 5.24e-01 120 chr3R:17151752-17151872 5.01e-04 93_[+2(1.42e-05)]_1_[+3(7.05e-06)]_\ 10 chr3R:28887981-28888101 2.90e-01 4_[+3(7.27e-05)]_108 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n09.farnam.hpc.yale.internal ********************************************************************************