******************************************************************************** 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/Hr46.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3L:11918355-11918475 1.0000 120 chr2R:11303400-11303520 1.0000 120 chr3R:25045134-25045254 1.0000 120 chr2L:5542362-5542482 1.0000 120 chr2L:10479932-10480052 1.0000 120 chr3L:18788057-18788177 1.0000 120 chr3L:18892108-18892228 1.0000 120 chr3L:18771837-18771957 1.0000 120 chr3L:18783755-18783875 1.0000 120 chr3L:17972472-17972592 1.0000 120 chrX:1399746-1399866 1.0000 120 chrX:16275943-16276063 1.0000 120 chr3L:18757340-18757460 1.0000 120 chr2L:8528506-8528626 1.0000 120 chr2L:3514748-3514868 1.0000 120 chrX:1966576-1966696 1.0000 120 chr3R:31794686-31794806 1.0000 120 chr3R:28599586-28599706 1.0000 120 chr2R:10195004-10195124 1.0000 120 chrX:16276145-16276265 1.0000 120 chr2R:6117615-6117735 1.0000 120 chr3R:21206417-21206537 1.0000 120 chr2R:18158119-18158239 1.0000 120 chr2R:16847134-16847254 1.0000 120 chrX:16414632-16414752 1.0000 120 chr3L:17968899-17969019 1.0000 120 chrX:1970704-1970824 1.0000 120 chr3L:11074575-11074695 1.0000 120 chr2R:14971194-14971314 1.0000 120 chr2L:1654395-1654515 1.0000 120 chr3L:18759324-18759444 1.0000 120 chr2L:3100949-3101069 1.0000 120 chr3R:14894610-14894730 1.0000 120 chr3L:17967346-17967466 1.0000 120 chr2R:21312991-21313111 1.0000 120 chr2R:10265396-10265516 1.0000 120 chr3R:25221482-25221602 1.0000 120 chrX:19495336-19495456 1.0000 120 chr3L:16131644-16131764 1.0000 120 chr2L:1491943-1492063 1.0000 120 chr2R:6116748-6116868 1.0000 120 chr2R:14903834-14903954 1.0000 120 chr2R:8062697-8062817 1.0000 120 chr2R:17726808-17726928 1.0000 120 chr2L:10543551-10543671 1.0000 120 chr2R:10196353-10196473 1.0000 120 chr3L:5136247-5136367 1.0000 120 chr2R:12757552-12757672 1.0000 120 chr2R:13934449-13934569 1.0000 120 chr2R:14645045-14645165 1.0000 120 chr2L:6540146-6540266 1.0000 120 chr2R:22886192-22886312 1.0000 120 chr3R:14308877-14308997 1.0000 120 chr3L:11278928-11279048 1.0000 120 chr3L:17427184-17427304 1.0000 120 chr2R:12344772-12344892 1.0000 120 chr4:1181838-1181958 1.0000 120 chr3R:11244141-11244261 1.0000 120 chr3R:7122671-7122791 1.0000 120 chr2L:15911485-15911605 1.0000 120 chrX:16650552-16650672 1.0000 120 chr2L:18484767-18484887 1.0000 120 chr3L:16386032-16386152 1.0000 120 chr3R:11822400-11822520 1.0000 120 chr3L:7510838-7510958 1.0000 120 chr3L:13964771-13964891 1.0000 120 chr2R:8734649-8734769 1.0000 120 chr2L:14024813-14024933 1.0000 120 chr3L:14205118-14205238 1.0000 120 chr3R:22025492-22025612 1.0000 120 chr3R:31812263-31812383 1.0000 120 chr3R:9872458-9872578 1.0000 120 chrX:11798629-11798749 1.0000 120 chr3L:2651885-2652005 1.0000 120 chr2L:21310170-21310290 1.0000 120 chr2R:16800194-16800314 1.0000 120 chr2R:6115521-6115641 1.0000 120 chr3R:12630451-12630571 1.0000 120 chr2L:11331835-11331955 1.0000 120 chr3R:4311154-4311274 1.0000 120 chr2R:22886392-22886512 1.0000 120 chr2L:21143015-21143135 1.0000 120 chr2L:14701618-14701738 1.0000 120 chr2L:19490259-19490379 1.0000 120 chrX:17737954-17738074 1.0000 120 chrX:13307314-13307434 1.0000 120 chr3L:3855318-3855438 1.0000 120 chr2R:15381279-15381399 1.0000 120 chr2R:12916811-12916931 1.0000 120 chr3L:8951118-8951238 1.0000 120 chr3R:8867824-8867944 1.0000 120 chrX:5329395-5329515 1.0000 120 chr3R:26588286-26588406 1.0000 120 chr2L:15248737-15248857 1.0000 120 chr3L:3159781-3159901 1.0000 120 chr2R:6144908-6145028 1.0000 120 chr3L:18784719-18784839 1.0000 120 chrX:5966127-5966247 1.0000 120 chr2L:14252616-14252736 1.0000 120 chr3L:21859820-21859940 1.0000 120 chr3R:9494341-9494461 1.0000 120 chr3L:20771191-20771311 1.0000 120 chr2L:2905165-2905285 1.0000 120 chr2R:1264209-1264329 1.0000 120 chr3L:12336446-12336566 1.0000 120 chr2L:21163381-21163501 1.0000 120 chr2R:18850632-18850752 1.0000 120 chrX:6255491-6255611 1.0000 120 chr2L:21573278-21573398 1.0000 120 chrX:19371594-19371714 1.0000 120 chr2L:1916653-1916773 1.0000 120 chr2R:9712035-9712155 1.0000 120 chr3L:9066225-9066345 1.0000 120 chrX:3109055-3109175 1.0000 120 chr2R:20906663-20906783 1.0000 120 chr3R:10641365-10641485 1.0000 120 chrX:5970322-5970442 1.0000 120 chrX:8125290-8125410 1.0000 120 chr2R:4829110-4829230 1.0000 120 chr3R:25880475-25880595 1.0000 120 chr3L:3059393-3059513 1.0000 120 chr2L:11091246-11091366 1.0000 120 chr3R:7907454-7907574 1.0000 120 chr3R:12997732-12997852 1.0000 120 chr2L:12005404-12005524 1.0000 120 chr2R:7674392-7674512 1.0000 120 chr2R:14803416-14803536 1.0000 120 chrX:10601764-10601884 1.0000 120 chr2L:14995161-14995281 1.0000 120 chr3L:6969331-6969451 1.0000 120 chr2L:14519383-14519503 1.0000 120 chrX:15653671-15653791 1.0000 120 chr2L:5043930-5044050 1.0000 120 chr3L:11350858-11350978 1.0000 120 chr3L:6743175-6743295 1.0000 120 chr2R:19127957-19128077 1.0000 120 chr3R:5660211-5660331 1.0000 120 chr3R:24917926-24918046 1.0000 120 chr3L:22471688-22471808 1.0000 120 chr3L:4254345-4254465 1.0000 120 chr3L:10899350-10899470 1.0000 120 chr2R:9682001-9682121 1.0000 120 chr3L:11993141-11993261 1.0000 120 chrX:14234146-14234266 1.0000 120 chr2R:1345199-1345319 1.0000 120 chr2L:14358992-14359112 1.0000 120 chr3R:15250586-15250706 1.0000 120 chr3R:12017014-12017134 1.0000 120 chrX:20507882-20508002 1.0000 120 chr2R:16551913-16552033 1.0000 120 chrX:10825474-10825594 1.0000 120 chr3R:25184130-25184250 1.0000 120 chr3L:12277463-12277583 1.0000 120 chrX:19348966-19349086 1.0000 120 chr2L:14245640-14245760 1.0000 120 chr3L:18789541-18789661 1.0000 120 chrX:17510329-17510449 1.0000 120 chr2L:18152423-18152543 1.0000 120 chr3L:8751409-8751529 1.0000 120 chr2R:15934707-15934827 1.0000 120 chr3L:18226140-18226260 1.0000 120 chrX:2978202-2978322 1.0000 120 chrX:9899884-9900004 1.0000 120 chr2L:5326955-5327075 1.0000 120 chr2L:15908766-15908886 1.0000 120 chr3L:14977984-14978104 1.0000 120 chr2R:12468399-12468519 1.0000 120 chr2L:10856711-10856831 1.0000 120 chr2L:11189277-11189397 1.0000 120 chr3R:17540237-17540357 1.0000 120 chr3L:12503954-12504074 1.0000 120 chr3R:6791404-6791524 1.0000 120 chr3R:6468131-6468251 1.0000 120 chr2R:17461117-17461237 1.0000 120 chr3L:8692128-8692248 1.0000 120 chr2L:8071731-8071851 1.0000 120 chr3R:23293549-23293669 1.0000 120 chrX:17696852-17696972 1.0000 120 chr2R:21709638-21709758 1.0000 120 chr3R:18366392-18366512 1.0000 120 chr2R:11435227-11435347 1.0000 120 chr2L:5297406-5297526 1.0000 120 chr3R:16431763-16431883 1.0000 120 chr3L:14614016-14614136 1.0000 120 chr2R:5128356-5128476 1.0000 120 chr2R:25085526-25085646 1.0000 120 chr3L:1350744-1350864 1.0000 120 chrX:11570397-11570517 1.0000 120 chr3L:13929213-13929333 1.0000 120 chr2R:8045158-8045278 1.0000 120 chr2L:8365844-8365964 1.0000 120 chr3L:15094893-15095013 1.0000 120 chr3R:27937957-27938077 1.0000 120 chr3R:5636921-5637041 1.0000 120 chr3R:26052377-26052497 1.0000 120 chrX:8444971-8445091 1.0000 120 chr3L:18801234-18801354 1.0000 120 chr3R:8960504-8960624 1.0000 120 chr3L:16779797-16779917 1.0000 120 chrX:7728476-7728596 1.0000 120 chr2L:3472381-3472501 1.0000 120 chr3L:13911770-13911890 1.0000 120 chr3R:16209115-16209235 1.0000 120 chr2L:7395957-7396077 1.0000 120 chrX:12925990-12926110 1.0000 120 chr3R:17680920-17681040 1.0000 120 chr3R:4319533-4319653 1.0000 120 chr2L:5238345-5238465 1.0000 120 chr3L:9508847-9508967 1.0000 120 chr3R:24010945-24011065 1.0000 120 chr2L:20097252-20097372 1.0000 120 chr2R:18834849-18834969 1.0000 120 chr2L:20416935-20417055 1.0000 120 chr2L:9207240-9207360 1.0000 120 chr3L:11334123-11334243 1.0000 120 chrX:7617095-7617215 1.0000 120 chr3R:15837142-15837262 1.0000 120 chr3L:2371994-2372114 1.0000 120 chr2R:10103743-10103863 1.0000 120 chr2L:13833092-13833212 1.0000 120 chr2L:10522652-10522772 1.0000 120 chrX:15384113-15384233 1.0000 120 chr3R:17584144-17584264 1.0000 120 chrX:12463144-12463264 1.0000 120 chr2L:827626-827746 1.0000 120 chr3L:4607806-4607926 1.0000 120 chr3L:264436-264556 1.0000 120 chr2L:13366284-13366404 1.0000 120 chr3R:14609370-14609490 1.0000 120 chr3L:6743379-6743499 1.0000 120 chr2R:5122265-5122385 1.0000 120 chr2L:11417635-11417755 1.0000 120 chr3L:7360357-7360477 1.0000 120 chr2L:18305168-18305288 1.0000 120 chr3L:7151927-7152047 1.0000 120 chr2R:14411663-14411783 1.0000 120 chrX:12909915-12910035 1.0000 120 chr3R:16222123-16222243 1.0000 120 chr2R:20257474-20257594 1.0000 120 chr2L:73204-73324 1.0000 120 chr3L:642610-642730 1.0000 120 chr3L:12644440-12644560 1.0000 120 chrX:2146210-2146330 1.0000 120 chr3L:10843509-10843629 1.0000 120 chr3R:14729296-14729416 1.0000 120 chr3L:11822494-11822614 1.0000 120 chr3R:29148220-29148340 1.0000 120 chr3L:13197622-13197742 1.0000 120 chr2R:23898311-23898431 1.0000 120 chr3R:19031372-19031492 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_Hr46/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Hr46.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 0.339 C 0.161 G 0.163 T 0.336 Background letter frequencies (from file dataset with add-one prior applied): A 0.339 C 0.161 G 0.163 T 0.336 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF KGCGSCMS MEME-1 width = 8 sites = 46 llr = 395 E-value = 2.0e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::::::52 pos.-specific C ::824a35 probability G 6a276:23 matrix T 4::2:::1 bits 2.6 * * 2.4 * * 2.1 * * 1.8 ** * Relative 1.6 ** ** Entropy 1.3 ***** (12.4 bits) 1.1 ****** 0.8 ****** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GGCGGCAC consensus T C CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:21709638-21709758 22 1.47e-06 CTTTTCTTCC GGCGGCAC AGTGAACGCT chr3R:18366392-18366512 22 1.94e-06 TTGAAAAATT GGCGCCCC ACATTTTGGG chr2R:6117615-6117735 33 1.94e-06 TTGGAGCGTG GGCGCCCC ACGCTGAGTG chr2L:73204-73324 41 3.89e-06 TATACACAAT GGCGCCAC TGTTGTTTTA chr2L:3472381-3472501 86 3.89e-06 CTGTGCAGAT GGCGCCAC CATGACGCGC chr2R:16800194-16800314 100 3.89e-06 TCGTATAGGT GGCGCCAC TTAAACTCAG chr3L:6743175-6743295 37 1.04e-05 TCACTAGAGA TGCGGCAC TCGGGGCAAA chr2R:20906663-20906783 94 1.04e-05 AACGGTAGAT GGCGCCAG TGCAACATTA chr3L:18788057-18788177 71 1.04e-05 TCAAAAGGGG GGCGGCGG GGTACGGATT chr2R:6116748-6116868 22 1.13e-05 GAGCACGCGG TGCGCCCC AGAAGTGCGT chrX:1399746-1399866 36 1.68e-05 CCGCTCGCAC TGCGGCCG CAGTGGGCGC chr3L:18784719-18784839 43 2.19e-05 ttttcatacg ggcggcca ccccttttct chr3R:26588286-26588406 36 2.19e-05 CAAGTGGTGT GGCGGCCA GTGACCTTGA chr3R:11244141-11244261 44 2.19e-05 CTGCTGTTCT GGCCGCAC TTCAAGATAA chr2R:17726808-17726928 101 2.40e-05 GATTACACTT GGCGGCAA ACAGCTGTGG chr3L:18783755-18783875 85 2.40e-05 AACAATTGCA GGCGGCAA AAAGGGGGGG chr3L:14614016-14614136 97 3.48e-05 ATTTAATAGG TGCGCCAG GTGGTGGTTC chr3L:17967346-17967466 104 3.48e-05 GGGGGGGAAG GGGGGCGC TTGTGTGCG chrX:1966576-1966696 98 3.48e-05 GGGGTGTTGA GGGGGCGC GCGGGACGGT chr3L:17972472-17972592 21 3.48e-05 CGGCAGCGAC TGCGGCGG TGGTTCAGTT chr2L:10479932-10480052 48 3.99e-05 ATATCTGCGA GGCGCCAA ATTGAATTGA chr2L:20097252-20097372 110 4.09e-05 ACTATCTAAA GGCTGCCC ATG chr2R:11303400-11303520 37 4.88e-05 TTACGAATTC TGCCGCCC AATTAATGCA chr2L:18152423-18152543 36 6.10e-05 ATTCCACAAT GGCCGCGG AAAAAGTAGC chrX:5970322-5970442 2 6.10e-05 T TGCGGCCA TTGAGTGTAA chr2R:6115521-6115641 78 6.10e-05 TGAACGATTG TGGGGCAC TGTGTTATCA chr2R:8062697-8062817 100 6.10e-05 GGGTAGCAga gggggcgg tggagtagga chr2R:10265396-10265516 22 6.63e-05 AGGTGAACAG TGCGGCAA GTGCTTTGGT chr2L:15911485-15911605 38 7.03e-05 TCATCCGGAC GGCTGCGC GTTGGATGCT chrX:1970704-1970824 9 7.03e-05 GTTTTGAT GGCTCCAC TTTTCTCGCT chrX:12925990-12926110 92 7.53e-05 GCGTGGTGCA GGCTGCAG GACCACTTGG chr3L:10899350-10899470 31 7.53e-05 TTGTTGTAGT GGCGCCCT CTTTTGTTTT chr3R:7907454-7907574 112 7.53e-05 CTGCAGATGC GGCTGCAG T chrX:7728476-7728596 78 8.99e-05 AAAAATTATA TGGGCCAC AAATACAATA chr3R:16431763-16431883 42 8.99e-05 CATTCTCACA GGCGCCAT CTTACGTATT chrX:20507882-20508002 1 8.99e-05 . TGGGCCAC TTTACTTCGC chrX:16414632-16414752 110 8.99e-05 GTTTAGCCGT TGCCCCAC TTT chr3R:31794686-31794806 37 8.99e-05 AAATTACAGC TGCCGCCG CACAGCTGCT chr2L:12005404-12005524 12 1.03e-04 GCTCATGGCT GGGGGCCA TGAGAACAGC chr3L:11918355-11918475 43 1.26e-04 CAAACGCAGA TGCCCCCG ATATTTTCTG chr3L:13964771-13964891 38 1.43e-04 GGAACAAATC TGCGGCAT TCAAAACAAT chrX:11798629-11798749 88 1.73e-04 AGAAGCTGTC TGCTGCAG CAACCGCCTG chr2R:25085526-25085646 46 1.89e-04 AAAAGTTGAG TGCGCCAT CTTTTGCTTG chr3L:17968899-17969019 105 2.03e-04 CATTTCGAAA TGGCGCAC ACTTCTCG chrX:7617095-7617215 31 2.17e-04 atcatttttT TGCTCCGC GGTCTTGCAG chr3L:18759324-18759444 73 2.73e-04 GATGGCACTA TGGGCCAA GTACACGAAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:21709638-21709758 1.5e-06 21_[+1]_91 chr3R:18366392-18366512 1.9e-06 21_[+1]_91 chr2R:6117615-6117735 1.9e-06 32_[+1]_80 chr2L:73204-73324 3.9e-06 40_[+1]_72 chr2L:3472381-3472501 3.9e-06 85_[+1]_27 chr2R:16800194-16800314 3.9e-06 99_[+1]_13 chr3L:6743175-6743295 1e-05 36_[+1]_76 chr2R:20906663-20906783 1e-05 93_[+1]_19 chr3L:18788057-18788177 1e-05 70_[+1]_42 chr2R:6116748-6116868 1.1e-05 21_[+1]_91 chrX:1399746-1399866 1.7e-05 35_[+1]_77 chr3L:18784719-18784839 2.2e-05 42_[+1]_70 chr3R:26588286-26588406 2.2e-05 35_[+1]_77 chr3R:11244141-11244261 2.2e-05 43_[+1]_69 chr2R:17726808-17726928 2.4e-05 100_[+1]_12 chr3L:18783755-18783875 2.4e-05 84_[+1]_28 chr3L:14614016-14614136 3.5e-05 96_[+1]_16 chr3L:17967346-17967466 3.5e-05 103_[+1]_9 chrX:1966576-1966696 3.5e-05 97_[+1]_15 chr3L:17972472-17972592 3.5e-05 20_[+1]_92 chr2L:10479932-10480052 4e-05 47_[+1]_65 chr2L:20097252-20097372 4.1e-05 109_[+1]_3 chr2R:11303400-11303520 4.9e-05 36_[+1]_76 chr2L:18152423-18152543 6.1e-05 35_[+1]_77 chrX:5970322-5970442 6.1e-05 1_[+1]_111 chr2R:6115521-6115641 6.1e-05 77_[+1]_35 chr2R:8062697-8062817 6.1e-05 99_[+1]_13 chr2R:10265396-10265516 6.6e-05 21_[+1]_91 chr2L:15911485-15911605 7e-05 37_[+1]_75 chrX:1970704-1970824 7e-05 8_[+1]_104 chrX:12925990-12926110 7.5e-05 91_[+1]_21 chr3L:10899350-10899470 7.5e-05 30_[+1]_82 chr3R:7907454-7907574 7.5e-05 111_[+1]_1 chrX:7728476-7728596 9e-05 77_[+1]_35 chr3R:16431763-16431883 9e-05 41_[+1]_71 chrX:20507882-20508002 9e-05 [+1]_112 chrX:16414632-16414752 9e-05 109_[+1]_3 chr3R:31794686-31794806 9e-05 36_[+1]_76 chr2L:12005404-12005524 0.0001 11_[+1]_101 chr3L:11918355-11918475 0.00013 42_[+1]_70 chr3L:13964771-13964891 0.00014 37_[+1]_75 chrX:11798629-11798749 0.00017 87_[+1]_25 chr2R:25085526-25085646 0.00019 45_[+1]_67 chr3L:17968899-17969019 0.0002 104_[+1]_8 chrX:7617095-7617215 0.00022 30_[+1]_82 chr3L:18759324-18759444 0.00027 72_[+1]_40 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KGCGSCMS width=8 seqs=46 chr2R:21709638-21709758 ( 22) GGCGGCAC 1 chr3R:18366392-18366512 ( 22) GGCGCCCC 1 chr2R:6117615-6117735 ( 33) GGCGCCCC 1 chr2L:73204-73324 ( 41) GGCGCCAC 1 chr2L:3472381-3472501 ( 86) GGCGCCAC 1 chr2R:16800194-16800314 ( 100) GGCGCCAC 1 chr3L:6743175-6743295 ( 37) TGCGGCAC 1 chr2R:20906663-20906783 ( 94) GGCGCCAG 1 chr3L:18788057-18788177 ( 71) GGCGGCGG 1 chr2R:6116748-6116868 ( 22) TGCGCCCC 1 chrX:1399746-1399866 ( 36) TGCGGCCG 1 chr3L:18784719-18784839 ( 43) GGCGGCCA 1 chr3R:26588286-26588406 ( 36) GGCGGCCA 1 chr3R:11244141-11244261 ( 44) GGCCGCAC 1 chr2R:17726808-17726928 ( 101) GGCGGCAA 1 chr3L:18783755-18783875 ( 85) GGCGGCAA 1 chr3L:14614016-14614136 ( 97) TGCGCCAG 1 chr3L:17967346-17967466 ( 104) GGGGGCGC 1 chrX:1966576-1966696 ( 98) GGGGGCGC 1 chr3L:17972472-17972592 ( 21) TGCGGCGG 1 chr2L:10479932-10480052 ( 48) GGCGCCAA 1 chr2L:20097252-20097372 ( 110) GGCTGCCC 1 chr2R:11303400-11303520 ( 37) TGCCGCCC 1 chr2L:18152423-18152543 ( 36) GGCCGCGG 1 chrX:5970322-5970442 ( 2) TGCGGCCA 1 chr2R:6115521-6115641 ( 78) TGGGGCAC 1 chr2R:8062697-8062817 ( 100) GGGGGCGG 1 chr2R:10265396-10265516 ( 22) TGCGGCAA 1 chr2L:15911485-15911605 ( 38) GGCTGCGC 1 chrX:1970704-1970824 ( 9) GGCTCCAC 1 chrX:12925990-12926110 ( 92) GGCTGCAG 1 chr3L:10899350-10899470 ( 31) GGCGCCCT 1 chr3R:7907454-7907574 ( 112) GGCTGCAG 1 chrX:7728476-7728596 ( 78) TGGGCCAC 1 chr3R:16431763-16431883 ( 42) GGCGCCAT 1 chrX:20507882-20508002 ( 1) TGGGCCAC 1 chrX:16414632-16414752 ( 110) TGCCCCAC 1 chr3R:31794686-31794806 ( 37) TGCCGCCG 1 chr2L:12005404-12005524 ( 12) GGGGGCCA 1 chr3L:11918355-11918475 ( 43) TGCCCCCG 1 chr3L:13964771-13964891 ( 38) TGCGGCAT 1 chrX:11798629-11798749 ( 88) TGCTGCAG 1 chr2R:25085526-25085646 ( 46) TGCGCCAT 1 chr3L:17968899-17969019 ( 105) TGGCGCAC 1 chrX:7617095-7617215 ( 31) TGCTCCGC 1 chr3L:18759324-18759444 ( 73) TGGGCCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.3525 E= 2.0e-009 -1217 -1217 179 37 -1217 -1217 261 -1217 -1217 232 26 -1217 -1217 -8 209 -114 -1217 136 185 -1217 -1217 263 -1217 -1217 68 81 9 -1217 -79 150 68 -195 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 46 E= 2.0e-009 0.000000 0.000000 0.565217 0.434783 0.000000 0.000000 1.000000 0.000000 0.000000 0.804348 0.195652 0.000000 0.000000 0.152174 0.695652 0.152174 0.000000 0.413043 0.586957 0.000000 0.000000 1.000000 0.000000 0.000000 0.543478 0.282609 0.173913 0.000000 0.195652 0.456522 0.260870 0.086957 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCGSCMS MEME-1 regular expression -------------------------------------------------------------------------------- [GT]GCG[GC]C[AC][CG] -------------------------------------------------------------------------------- Time 7.50 secs. ******************************************************************************** ******************************************************************************** MOTIF MGSBGCGG MEME-2 width = 8 sites = 12 llr = 131 E-value = 7.4e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 Description -------------------------------------------------------------------------------- Simplified A 6::::::: pos.-specific C 4:63:8:: probability G :a45a3aa matrix T :::3:::: bits 2.6 * * ** 2.4 * * ** 2.1 * * ** 1.8 * **** Relative 1.6 ** **** Entropy 1.3 ** **** (15.8 bits) 1.1 *** **** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel AGCGGCGG consensus C GC G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:17967346-17967466 31 1.98e-06 GCTGCACGTC AGCGGCGG TCAATGAACT chrX:1966576-1966696 72 1.98e-06 CGGGGCGGGG CGGGGCGG TAGGAAAAGG chr3R:27937957-27938077 88 2.45e-06 AAATCATAAG CGCCGCGG GGTGTTCTTT chrX:17737954-17738074 102 2.45e-06 TGTTCTTTTT CGCCGCGG TAGCTATCAT chr3R:31794686-31794806 55 2.45e-06 CACAGCTGCT CGCCGCGG AGTTGCCACC chr2L:20097252-20097372 11 3.48e-06 CGATACATTC AGGGGCGG AACATTTCTC chr2R:6144908-6145028 81 3.48e-06 GCAGCGGGGG AGGGGCGG TGTCAGGTGG chr3R:11822400-11822520 29 1.25e-05 TTACAAATTA AGCTGCGG ATTGTTTATA chr3L:16131644-16131764 37 1.25e-05 TACCACCAAC AGCTGCGG TAATTTAAAT chr2R:12916811-12916931 107 1.36e-05 GTGCGGAAGC AGGGGGGG CTCATT chr3L:18783755-18783875 95 1.36e-05 GGCGGCAAAA AGGGGGGG TTTTCGGCTA chrX:5970322-5970442 59 1.92e-05 CGGACATGGG CGCTGGGG AAGGGAGTCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:17967346-17967466 2e-06 30_[+2]_82 chrX:1966576-1966696 2e-06 71_[+2]_41 chr3R:27937957-27938077 2.5e-06 87_[+2]_25 chrX:17737954-17738074 2.5e-06 101_[+2]_11 chr3R:31794686-31794806 2.5e-06 54_[+2]_58 chr2L:20097252-20097372 3.5e-06 10_[+2]_102 chr2R:6144908-6145028 3.5e-06 80_[+2]_32 chr3R:11822400-11822520 1.3e-05 28_[+2]_84 chr3L:16131644-16131764 1.3e-05 36_[+2]_76 chr2R:12916811-12916931 1.4e-05 106_[+2]_6 chr3L:18783755-18783875 1.4e-05 94_[+2]_18 chrX:5970322-5970442 1.9e-05 58_[+2]_54 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF MGSBGCGG width=8 seqs=12 chr3L:17967346-17967466 ( 31) AGCGGCGG 1 chrX:1966576-1966696 ( 72) CGGGGCGG 1 chr3R:27937957-27938077 ( 88) CGCCGCGG 1 chrX:17737954-17738074 ( 102) CGCCGCGG 1 chr3R:31794686-31794806 ( 55) CGCCGCGG 1 chr2L:20097252-20097372 ( 11) AGGGGCGG 1 chr2R:6144908-6145028 ( 81) AGGGGCGG 1 chr3R:11822400-11822520 ( 29) AGCTGCGG 1 chr3L:16131644-16131764 ( 37) AGCTGCGG 1 chr2R:12916811-12916931 ( 107) AGGGGGGG 1 chr3L:18783755-18783875 ( 95) AGGGGGGG 1 chrX:5970322-5970442 ( 59) CGCTGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.7858 E= 7.4e+000 78 137 -1023 -1023 -1023 -1023 261 -1023 -1023 186 135 -1023 -1023 63 161 -43 -1023 -1023 261 -1023 -1023 222 61 -1023 -1023 -1023 261 -1023 -1023 -1023 261 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 7.4e+000 0.583333 0.416667 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.583333 0.416667 0.000000 0.000000 0.250000 0.500000 0.250000 0.000000 0.000000 1.000000 0.000000 0.000000 0.750000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MGSBGCGG MEME-2 regular expression -------------------------------------------------------------------------------- [AC]G[CG][GCT]G[CG]GG -------------------------------------------------------------------------------- Time 13.73 secs. ******************************************************************************** ******************************************************************************** MOTIF SCMCTSGC MEME-3 width = 8 sites = 16 llr = 163 E-value = 1.2e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::5::::: pos.-specific C 585a:53a probability G 53:::57: matrix T ::::a::: bits 2.6 * * 2.4 * * 2.1 * * 1.8 * * ** Relative 1.6 ** ***** Entropy 1.3 ** ***** (14.7 bits) 1.1 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCACTCGC consensus GGC GC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:16222123-16222243 105 3.86e-06 AACGCCCACG CCCCTGGC TTACCGCA chr3L:18801234-18801354 111 3.86e-06 AAGACCGAAA GCCCTCGC GC chr3R:18366392-18366512 48 1.20e-05 GGGGACATCT CCACTCGC AGAGCCTGTG chr2L:5043930-5044050 48 1.20e-05 TTCAAAATTT GCACTCGC ACTGTCTGCA chr2L:12005404-12005524 84 1.20e-05 ACTGACCCTG GCACTGGC GACGCTCTAA chr2R:17726808-17726928 78 1.20e-05 GGCTAGCGCT GCACTGGC CAATCGATTA chr2L:1654395-1654515 82 1.20e-05 tctccctcgc gcactcgc cccgtcccgc chr3R:7122671-7122791 27 1.58e-05 GGAAAATGCA GCCCTGCC CCGAATCCAA chrX:1970704-1970824 65 1.58e-05 TCATGTTCAT CCCCTCCC TCTCTTGCTC chr3L:18771837-18771957 51 1.58e-05 CACCACTACT CCCCTCCC AACCAGCTCC chr3L:12644440-12644560 4 1.97e-05 TGG GGCCTCGC ATCTGAGAAA chr3L:17968899-17969019 33 1.97e-05 gagaCGCGAT GGCCTCGC TCTGCTGTCT chr3R:25045134-25045254 14 1.97e-05 GTGACCATAC CGCCTGGC GAAAACTAGG chr2R:13934449-13934569 55 2.78e-05 GCGGTGATTT CCACTGCC TTATCTCTGT chr2R:14971194-14971314 29 2.78e-05 AATTTTTAGA CCACTGCC TTTTGATTCA chrX:19495336-19495456 101 3.60e-05 TGAATTCAAT CGACTGGC GCGGAACAGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:16222123-16222243 3.9e-06 104_[+3]_8 chr3L:18801234-18801354 3.9e-06 110_[+3]_2 chr3R:18366392-18366512 1.2e-05 47_[+3]_65 chr2L:5043930-5044050 1.2e-05 47_[+3]_65 chr2L:12005404-12005524 1.2e-05 83_[+3]_29 chr2R:17726808-17726928 1.2e-05 77_[+3]_35 chr2L:1654395-1654515 1.2e-05 81_[+3]_31 chr3R:7122671-7122791 1.6e-05 26_[+3]_86 chrX:1970704-1970824 1.6e-05 64_[+3]_48 chr3L:18771837-18771957 1.6e-05 50_[+3]_62 chr3L:12644440-12644560 2e-05 3_[+3]_109 chr3L:17968899-17969019 2e-05 32_[+3]_80 chr3R:25045134-25045254 2e-05 13_[+3]_99 chr2R:13934449-13934569 2.8e-05 54_[+3]_58 chr2R:14971194-14971314 2.8e-05 28_[+3]_84 chrX:19495336-19495456 3.6e-05 100_[+3]_12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF SCMCTSGC width=8 seqs=16 chr3R:16222123-16222243 ( 105) CCCCTGGC 1 chr3L:18801234-18801354 ( 111) GCCCTCGC 1 chr3R:18366392-18366512 ( 48) CCACTCGC 1 chr2L:5043930-5044050 ( 48) GCACTCGC 1 chr2L:12005404-12005524 ( 84) GCACTGGC 1 chr2R:17726808-17726928 ( 78) GCACTGGC 1 chr2L:1654395-1654515 ( 82) GCACTCGC 1 chr3R:7122671-7122791 ( 27) GCCCTGCC 1 chrX:1970704-1970824 ( 65) CCCCTCCC 1 chr3L:18771837-18771957 ( 51) CCCCTCCC 1 chr3L:12644440-12644560 ( 4) GGCCTCGC 1 chr3L:17968899-17969019 ( 33) GGCCTCGC 1 chr3R:25045134-25045254 ( 14) CGCCTGGC 1 chr2R:13934449-13934569 ( 55) CCACTGCC 1 chr2R:14971194-14971314 ( 29) CCACTGCC 1 chrX:19495336-19495456 ( 101) CGACTGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.5227 E= 1.2e+000 -1064 163 161 -1064 -1064 222 61 -1064 56 163 -1064 -1064 -1064 263 -1064 -1064 -1064 -1064 -1064 157 -1064 163 161 -1064 -1064 96 207 -1064 -1064 263 -1064 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 16 E= 1.2e+000 0.000000 0.500000 0.500000 0.000000 0.000000 0.750000 0.250000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.312500 0.687500 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SCMCTSGC MEME-3 regular expression -------------------------------------------------------------------------------- [CG][CG][AC]CT[CG][GC]C -------------------------------------------------------------------------------- Time 19.93 secs. ******************************************************************************** ******************************************************************************** MOTIF GTGACCCA MEME-4 width = 8 sites = 16 llr = 161 E-value = 3.5e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::a:::9 pos.-specific C 11::a991 probability G 6:a::::: matrix T 39:::11: bits 2.6 * * 2.4 * * 2.1 * * * 1.8 * *** Relative 1.6 ***** Entropy 1.3 ****** (14.5 bits) 1.1 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GTGACCCA consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:11822400-11822520 56 4.28e-06 AAAATTGTAG GTGACCCA AAACACTGTT chr3L:17967346-17967466 8 4.28e-06 gcCAATG GTGACCCA GTTTCGCTGC chr3L:17972472-17972592 59 4.28e-06 CGCCATTGTC GTGACCCA CATTTCGGTC chr3L:18788057-18788177 35 4.28e-06 TCAAATCTAG GTGACCCA AATTGCATTG chr3L:10843509-10843629 106 6.31e-06 ACCTATTGTT GTGACCCC TGCTGTG chr3R:26588286-26588406 83 6.31e-06 TAATTGCGTC GTGACCCC AATTGGTCAA chrX:11798629-11798749 103 1.94e-05 CAGCAACCGC CTGACCCA ATTTTAATTT chr2L:15911485-15911605 61 1.94e-05 ATGCTCTTCG CTGACCCA CTTTTTTGGG chr2R:17726808-17726928 46 1.94e-05 CCACACTCCG TTGACCCA ATTGAGACAG chr2R:21312991-21313111 44 1.94e-05 GTGCAATTCA TTGACCCA CATATGCGAG chr3R:28599586-28599706 111 1.94e-05 AGACGCTAAT TTGACCCA CA chr3R:31794686-31794806 109 1.94e-05 TTGGAATTTG TTGACCCA ATTC chr2L:18152423-18152543 12 2.14e-05 CAACGATACT GCGACCCA TTAAAAATTC chr2R:10103743-10103863 20 3.04e-05 ACTTGTCTGA GTGACTCA GATAATATTA chr3L:11993141-11993261 11 3.04e-05 TCTACACGAA GTGACTCA TGACCAGGGA chr3L:7360357-7360477 87 4.65e-05 TTAGTACTTG GTGACCTA AAAAATCAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:11822400-11822520 4.3e-06 55_[+4]_57 chr3L:17967346-17967466 4.3e-06 7_[+4]_105 chr3L:17972472-17972592 4.3e-06 58_[+4]_54 chr3L:18788057-18788177 4.3e-06 34_[+4]_78 chr3L:10843509-10843629 6.3e-06 105_[+4]_7 chr3R:26588286-26588406 6.3e-06 82_[+4]_30 chrX:11798629-11798749 1.9e-05 102_[+4]_10 chr2L:15911485-15911605 1.9e-05 60_[+4]_52 chr2R:17726808-17726928 1.9e-05 45_[+4]_67 chr2R:21312991-21313111 1.9e-05 43_[+4]_69 chr3R:28599586-28599706 1.9e-05 110_[+4]_2 chr3R:31794686-31794806 1.9e-05 108_[+4]_4 chr2L:18152423-18152543 2.1e-05 11_[+4]_101 chr2R:10103743-10103863 3e-05 19_[+4]_93 chr3L:11993141-11993261 3e-05 10_[+4]_102 chr3L:7360357-7360477 4.6e-05 86_[+4]_26 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTGACCCA width=8 seqs=16 chr3R:11822400-11822520 ( 56) GTGACCCA 1 chr3L:17967346-17967466 ( 8) GTGACCCA 1 chr3L:17972472-17972592 ( 59) GTGACCCA 1 chr3L:18788057-18788177 ( 35) GTGACCCA 1 chr3L:10843509-10843629 ( 106) GTGACCCC 1 chr3R:26588286-26588406 ( 83) GTGACCCC 1 chrX:11798629-11798749 ( 103) CTGACCCA 1 chr2L:15911485-15911605 ( 61) CTGACCCA 1 chr2R:17726808-17726928 ( 46) TTGACCCA 1 chr2R:21312991-21313111 ( 44) TTGACCCA 1 chr3R:28599586-28599706 ( 111) TTGACCCA 1 chr3R:31794686-31794806 ( 109) TTGACCCA 1 chr2L:18152423-18152543 ( 12) GCGACCCA 1 chr2R:10103743-10103863 ( 20) GTGACTCA 1 chr3L:11993141-11993261 ( 11) GTGACTCA 1 chr3L:7360357-7360477 ( 87) GTGACCTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.7851 E= 3.5e+001 -1064 -37 194 -43 -1064 -136 -1064 148 -1064 -1064 261 -1064 156 -1064 -1064 -1064 -1064 263 -1064 -1064 -1064 244 -1064 -143 -1064 254 -1064 -242 137 -37 -1064 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 16 E= 3.5e+001 0.000000 0.125000 0.625000 0.250000 0.000000 0.062500 0.000000 0.937500 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.875000 0.000000 0.125000 0.000000 0.937500 0.000000 0.062500 0.875000 0.125000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGACCCA MEME-4 regular expression -------------------------------------------------------------------------------- [GT]TGACCCA -------------------------------------------------------------------------------- Time 26.10 secs. ******************************************************************************** ******************************************************************************** MOTIF CCCGCTCG MEME-5 width = 8 sites = 3 llr = 40 E-value = 2.9e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C aaa:a:a: probability G :::a:3:a matrix T :::::7:: bits 2.6 ***** ** 2.4 ***** ** 2.1 ***** ** 1.8 ***** ** Relative 1.6 ***** ** Entropy 1.3 ***** ** (19.4 bits) 1.1 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCCGCTCG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:6116748-6116868 113 1.43e-06 ATATTCCACA CCCGCGCG chr2L:1654395-1654515 95 1.43e-06 ctcgccccgt cccgctcG CACGCGTTGG chrX:1399746-1399866 25 1.43e-06 ATGTCGTTGT CCCGCTCG CACTGCGGCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:6116748-6116868 1.4e-06 112_[+5] chr2L:1654395-1654515 1.4e-06 94_[+5]_18 chrX:1399746-1399866 1.4e-06 24_[+5]_88 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCCGCTCG width=8 seqs=3 chr2R:6116748-6116868 ( 113) CCCGCGCG 1 chr2L:1654395-1654515 ( 95) CCCGCTCG 1 chrX:1399746-1399866 ( 25) CCCGCTCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.6483 E= 2.9e+003 -823 263 -823 -823 -823 263 -823 -823 -823 263 -823 -823 -823 -823 261 -823 -823 263 -823 -823 -823 -823 103 99 -823 263 -823 -823 -823 -823 261 -823 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 2.9e+003 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.666667 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTCG MEME-5 regular expression -------------------------------------------------------------------------------- CCCGC[TG]CG -------------------------------------------------------------------------------- Time 32.58 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:11918355-11918475 1.06e-01 120 chr2R:11303400-11303520 2.95e-02 36_[+1(4.88e-05)]_76 chr3R:25045134-25045254 2.55e-02 13_[+3(1.97e-05)]_99 chr2L:5542362-5542482 9.64e-01 120 chr2L:10479932-10480052 2.58e-02 47_[+1(3.99e-05)]_65 chr3L:18788057-18788177 3.29e-06 34_[+4(4.28e-06)]_28_[+1(1.04e-05)]_\ 42 chr3L:18892108-18892228 1.38e-01 120 chr3L:18771837-18771957 5.72e-04 50_[+3(1.58e-05)]_62 chr3L:18783755-18783875 9.84e-06 14_[+1(7.53e-05)]_62_[+1(2.40e-05)]_\ 2_[+2(1.36e-05)]_18 chr3L:17972472-17972592 1.57e-06 20_[+2(2.59e-05)]_30_[+4(4.28e-06)]_\ 54 chrX:1399746-1399866 7.59e-07 24_[+5(1.43e-06)]_3_[+1(1.68e-05)]_\ 77 chrX:16275943-16276063 9.96e-01 120 chr3L:18757340-18757460 1.68e-01 120 chr2L:8528506-8528626 6.17e-01 120 chr2L:3514748-3514868 2.19e-01 120 chrX:1966576-1966696 1.07e-04 61_[+2(1.98e-06)]_2_[+2(1.98e-06)]_\ 18_[+1(3.48e-05)]_1_[+2(9.72e-05)]_6 chr3R:31794686-31794806 1.13e-06 36_[+1(8.99e-05)]_10_[+2(2.45e-06)]_\ 46_[+4(1.94e-05)]_4 chr3R:28599586-28599706 4.47e-02 110_[+4(1.94e-05)]_2 chr2R:10195004-10195124 9.91e-01 120 chrX:16276145-16276265 9.26e-01 120 chr2R:6117615-6117735 2.35e-07 32_[+1(1.94e-06)]_80 chr3R:21206417-21206537 9.84e-01 120 chr2R:18158119-18158239 1.65e-01 101_[+3(9.97e-05)]_11 chr2R:16847134-16847254 2.65e-01 120 chrX:16414632-16414752 1.61e-02 109_[+1(8.99e-05)]_3 chr3L:17968899-17969019 4.67e-04 32_[+3(1.97e-05)]_80 chrX:1970704-1970824 9.88e-04 8_[+1(7.03e-05)]_48_[+3(1.58e-05)]_\ 48 chr3L:11074575-11074695 3.72e-01 120 chr2R:14971194-14971314 1.11e-01 28_[+3(2.78e-05)]_84 chr2L:1654395-1654515 7.02e-06 59_[+3(8.37e-05)]_6_[+3(8.37e-05)]_\ [+3(1.20e-05)]_5_[+5(1.43e-06)]_18 chr3L:18759324-18759444 9.16e-02 120 chr2L:3100949-3101069 3.92e-01 120 chr3R:14894610-14894730 1.81e-01 120 chr3L:17967346-17967466 6.61e-07 7_[+4(4.28e-06)]_15_[+2(1.98e-06)]_\ 49_[+2(1.36e-05)]_8_[+1(3.48e-05)]_9 chr2R:21312991-21313111 9.62e-03 43_[+4(1.94e-05)]_69 chr2R:10265396-10265516 5.18e-02 21_[+1(6.63e-05)]_91 chr3R:25221482-25221602 8.18e-01 120 chrX:19495336-19495456 1.89e-04 100_[+3(3.60e-05)]_12 chr3L:16131644-16131764 3.53e-02 36_[+2(1.25e-05)]_76 chr2L:1491943-1492063 9.75e-02 120 chr2R:6116748-6116868 5.49e-07 21_[+1(1.13e-05)]_83_[+5(1.43e-06)] chr2R:14903834-14903954 4.78e-02 120 chr2R:8062697-8062817 6.76e-04 99_[+2(3.05e-05)]_13 chr2R:17726808-17726928 2.24e-06 45_[+4(1.94e-05)]_24_[+3(1.20e-05)]_\ 15_[+1(2.40e-05)]_12 chr2L:10543551-10543671 1.00e+00 120 chr2R:10196353-10196473 9.66e-01 120 chr3L:5136247-5136367 2.14e-01 120 chr2R:12757552-12757672 2.10e-01 120 chr2R:13934449-13934569 1.70e-02 54_[+3(2.78e-05)]_58 chr2R:14645045-14645165 3.48e-01 120 chr2L:6540146-6540266 2.92e-01 120 chr2R:22886192-22886312 3.63e-01 120 chr3R:14308877-14308997 1.00e+00 120 chr3L:11278928-11279048 1.00e+00 120 chr3L:17427184-17427304 7.43e-01 120 chr2R:12344772-12344892 7.34e-01 120 chr4:1181838-1181958 9.90e-01 120 chr3R:11244141-11244261 1.12e-02 43_[+1(2.19e-05)]_69 chr3R:7122671-7122791 1.04e-03 26_[+3(1.58e-05)]_86 chr2L:15911485-15911605 9.81e-05 37_[+1(7.03e-05)]_15_[+4(1.94e-05)]_\ 18_[+4(3.66e-05)]_26 chrX:16650552-16650672 8.19e-01 120 chr2L:18484767-18484887 5.75e-01 120 chr3L:16386032-16386152 9.88e-01 120 chr3R:11822400-11822520 2.81e-04 28_[+2(1.25e-05)]_19_[+4(4.28e-06)]_\ 57 chr3L:7510838-7510958 5.38e-01 120 chr3L:13964771-13964891 9.33e-02 120 chr2R:8734649-8734769 1.18e-01 120 chr2L:14024813-14024933 9.30e-01 120 chr3L:14205118-14205238 1.14e-01 120 chr3R:22025492-22025612 3.44e-03 120 chr3R:31812263-31812383 6.73e-01 120 chr3R:9872458-9872578 2.82e-02 120 chrX:11798629-11798749 3.09e-04 102_[+4(1.94e-05)]_10 chr3L:2651885-2652005 9.72e-01 120 chr2L:21310170-21310290 2.33e-01 120 chr2R:16800194-16800314 2.91e-03 99_[+1(3.89e-06)]_13 chr2R:6115521-6115641 5.17e-03 77_[+1(6.10e-05)]_35 chr3R:12630451-12630571 1.00e+00 120 chr2L:11331835-11331955 4.36e-01 120 chr3R:4311154-4311274 8.13e-01 120 chr2R:22886392-22886512 4.42e-01 120 chr2L:21143015-21143135 9.94e-01 120 chr2L:14701618-14701738 6.11e-01 120 chr2L:19490259-19490379 1.73e-01 120 chrX:17737954-17738074 1.18e-02 101_[+2(2.45e-06)]_11 chrX:13307314-13307434 9.26e-01 120 chr3L:3855318-3855438 9.11e-01 120 chr2R:15381279-15381399 9.73e-01 120 chr2R:12916811-12916931 4.44e-03 106_[+2(1.36e-05)]_6 chr3L:8951118-8951238 9.95e-01 120 chr3R:8867824-8867944 9.90e-01 120 chrX:5329395-5329515 9.71e-01 120 chr3R:26588286-26588406 2.17e-05 35_[+1(2.19e-05)]_6_[+4(8.42e-05)]_\ 25_[+4(6.31e-06)]_30 chr2L:15248737-15248857 7.50e-01 120 chr3L:3159781-3159901 8.98e-01 120 chr2R:6144908-6145028 5.64e-03 72_[+2(8.96e-06)]_[+2(3.48e-06)]_32 chr3L:18784719-18784839 7.44e-04 42_[+1(2.19e-05)]_70 chrX:5966127-5966247 9.98e-01 120 chr2L:14252616-14252736 9.72e-01 120 chr3L:21859820-21859940 1.00e+00 120 chr3R:9494341-9494461 9.51e-01 120 chr3L:20771191-20771311 1.00e+00 120 chr2L:2905165-2905285 9.98e-01 120 chr2R:1264209-1264329 8.05e-01 120 chr3L:12336446-12336566 8.97e-01 120 chr2L:21163381-21163501 9.70e-01 120 chr2R:18850632-18850752 1.00e+00 120 chrX:6255491-6255611 3.03e-02 120 chr2L:21573278-21573398 9.84e-01 120 chrX:19371594-19371714 1.00e+00 120 chr2L:1916653-1916773 7.16e-01 120 chr2R:9712035-9712155 9.96e-01 120 chr3L:9066225-9066345 9.40e-01 120 chrX:3109055-3109175 9.93e-01 120 chr2R:20906663-20906783 1.25e-03 93_[+1(1.04e-05)]_19 chr3R:10641365-10641485 9.15e-01 120 chrX:5970322-5970442 1.71e-04 1_[+1(6.10e-05)]_34_[+2(5.33e-05)]_\ 7_[+2(1.92e-05)]_54 chrX:8125290-8125410 1.00e+00 120 chr2R:4829110-4829230 6.77e-01 120 chr3R:25880475-25880595 9.52e-01 120 chr3L:3059393-3059513 7.45e-01 120 chr2L:11091246-11091366 5.21e-01 120 chr3R:7907454-7907574 1.74e-03 111_[+1(7.53e-05)]_1 chr3R:12997732-12997852 9.86e-01 120 chr2L:12005404-12005524 3.72e-05 83_[+3(1.20e-05)]_29 chr2R:7674392-7674512 3.02e-01 120 chr2R:14803416-14803536 2.40e-01 120 chrX:10601764-10601884 6.75e-01 120 chr2L:14995161-14995281 9.85e-01 120 chr3L:6969331-6969451 9.48e-01 120 chr2L:14519383-14519503 5.26e-01 120 chrX:15653671-15653791 1.01e-01 120 chr2L:5043930-5044050 1.44e-02 47_[+3(1.20e-05)]_65 chr3L:11350858-11350978 1.00e+00 120 chr3L:6743175-6743295 4.64e-04 36_[+1(1.04e-05)]_76 chr2R:19127957-19128077 9.91e-01 120 chr3R:5660211-5660331 1.08e-01 69_[+2(6.30e-05)]_43 chr3R:24917926-24918046 6.42e-01 120 chr3L:22471688-22471808 6.91e-01 120 chr3L:4254345-4254465 9.91e-02 120 chr3L:10899350-10899470 2.29e-03 30_[+1(7.53e-05)]_82 chr2R:9682001-9682121 9.89e-01 120 chr3L:11993141-11993261 1.36e-02 10_[+4(3.04e-05)]_102 chrX:14234146-14234266 8.29e-01 120 chr2R:1345199-1345319 5.55e-01 120 chr2L:14358992-14359112 9.96e-01 120 chr3R:15250586-15250706 5.47e-01 120 chr3R:12017014-12017134 6.18e-02 120 chrX:20507882-20508002 3.50e-02 [+1(8.99e-05)]_112 chr2R:16551913-16552033 3.37e-01 120 chrX:10825474-10825594 4.28e-01 120 chr3R:25184130-25184250 9.43e-01 120 chr3L:12277463-12277583 9.45e-01 120 chrX:19348966-19349086 7.05e-01 120 chr2L:14245640-14245760 9.98e-01 120 chr3L:18789541-18789661 1.40e-02 8_[+3(8.37e-05)]_104 chrX:17510329-17510449 4.73e-02 120 chr2L:18152423-18152543 9.43e-06 11_[+4(2.14e-05)]_16_[+2(3.71e-05)]_\ 77 chr3L:8751409-8751529 7.22e-01 120 chr2R:15934707-15934827 6.89e-01 120 chr3L:18226140-18226260 1.08e-01 120 chrX:2978202-2978322 7.60e-01 120 chrX:9899884-9900004 9.98e-01 120 chr2L:5326955-5327075 6.44e-01 120 chr2L:15908766-15908886 9.71e-02 120 chr3L:14977984-14978104 9.91e-01 120 chr2R:12468399-12468519 7.11e-01 120 chr2L:10856711-10856831 9.99e-01 120 chr2L:11189277-11189397 9.10e-01 120 chr3R:17540237-17540357 7.93e-01 120 chr3L:12503954-12504074 9.86e-01 120 chr3R:6791404-6791524 8.18e-01 120 chr3R:6468131-6468251 9.71e-01 120 chr2R:17461117-17461237 4.33e-01 120 chr3L:8692128-8692248 8.59e-01 120 chr2L:8071731-8071851 9.93e-01 120 chr3R:23293549-23293669 9.79e-01 120 chrX:17696852-17696972 8.65e-01 120 chr2R:21709638-21709758 3.80e-04 21_[+1(1.47e-06)]_91 chr3R:18366392-18366512 8.55e-06 21_[+1(1.94e-06)]_18_[+3(1.20e-05)]_\ 65 chr2R:11435227-11435347 5.21e-01 120 chr2L:5297406-5297526 5.78e-01 120 chr3R:16431763-16431883 6.73e-02 41_[+1(8.99e-05)]_71 chr3L:14614016-14614136 2.15e-02 96_[+1(3.48e-05)]_16 chr2R:5128356-5128476 4.35e-01 120 chr2R:25085526-25085646 8.10e-02 120 chr3L:1350744-1350864 1.02e-01 120 chrX:11570397-11570517 4.09e-01 120 chr3L:13929213-13929333 9.92e-01 120 chr2R:8045158-8045278 9.77e-01 120 chr2L:8365844-8365964 7.14e-01 120 chr3L:15094893-15095013 8.98e-01 120 chr3R:27937957-27938077 7.50e-04 87_[+2(2.45e-06)]_25 chr3R:5636921-5637041 9.75e-01 120 chr3R:26052377-26052497 9.92e-01 120 chrX:8444971-8445091 9.94e-01 120 chr3L:18801234-18801354 5.42e-04 110_[+3(3.86e-06)]_2 chr3R:8960504-8960624 8.72e-01 120 chr3L:16779797-16779917 8.15e-01 120 chrX:7728476-7728596 4.45e-01 77_[+1(8.99e-05)]_35 chr2L:3472381-3472501 5.33e-04 85_[+1(3.89e-06)]_27 chr3L:13911770-13911890 7.80e-01 120 chr3R:16209115-16209235 1.00e+00 120 chr2L:7395957-7396077 9.59e-01 120 chrX:12925990-12926110 5.33e-03 91_[+1(7.53e-05)]_21 chr3R:17680920-17681040 8.08e-01 120 chr3R:4319533-4319653 2.75e-01 120 chr2L:5238345-5238465 9.99e-01 120 chr3L:9508847-9508967 8.35e-01 120 chr3R:24010945-24011065 7.90e-01 120 chr2L:20097252-20097372 7.36e-04 10_[+2(3.48e-06)]_91_[+1(4.09e-05)]_\ 3 chr2R:18834849-18834969 9.90e-01 120 chr2L:20416935-20417055 9.44e-01 120 chr2L:9207240-9207360 9.98e-01 120 chr3L:11334123-11334243 9.98e-01 120 chrX:7617095-7617215 3.14e-02 120 chr3R:15837142-15837262 1.00e+00 120 chr3L:2371994-2372114 9.98e-01 120 chr2R:10103743-10103863 2.30e-01 19_[+4(3.04e-05)]_93 chr2L:13833092-13833212 6.21e-01 120 chr2L:10522652-10522772 8.61e-01 120 chrX:15384113-15384233 9.99e-01 120 chr3R:17584144-17584264 9.86e-01 120 chrX:12463144-12463264 8.81e-01 120 chr2L:827626-827746 2.24e-01 120 chr3L:4607806-4607926 5.98e-01 120 chr3L:264436-264556 9.70e-01 120 chr2L:13366284-13366404 9.92e-01 120 chr3R:14609370-14609490 1.00e+00 120 chr3L:6743379-6743499 9.94e-01 120 chr2R:5122265-5122385 6.07e-01 120 chr2L:11417635-11417755 7.77e-01 120 chr3L:7360357-7360477 2.72e-01 86_[+4(4.65e-05)]_26 chr2L:18305168-18305288 9.99e-01 120 chr3L:7151927-7152047 9.71e-01 120 chr2R:14411663-14411783 7.13e-01 120 chrX:12909915-12910035 1.60e-01 120 chr3R:16222123-16222243 5.37e-04 104_[+3(3.86e-06)]_8 chr2R:20257474-20257594 9.81e-01 120 chr2L:73204-73324 1.55e-03 40_[+1(3.89e-06)]_58_[+1(3.89e-06)]_\ 6 chr3L:642610-642730 9.02e-01 120 chr3L:12644440-12644560 2.96e-03 3_[+3(1.97e-05)]_109 chrX:2146210-2146330 2.13e-01 120 chr3L:10843509-10843629 1.50e-03 105_[+4(6.31e-06)]_7 chr3R:14729296-14729416 4.75e-01 120 chr3L:11822494-11822614 2.00e-01 120 chr3R:29148220-29148340 1.99e-02 120 chr3L:13197622-13197742 9.89e-01 120 chr2R:23898311-23898431 7.10e-01 120 chr3R:19031372-19031492 9.46e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n05.farnam.hpc.yale.internal ********************************************************************************