******************************************************************************** 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/CG1647.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3R:28831325-28831445 1.0000 120 chr2L:8552604-8552724 1.0000 120 chr3L:1549389-1549509 1.0000 120 chr3L:11492600-11492720 1.0000 120 chr3L:9614061-9614181 1.0000 120 chr3L:8448738-8448858 1.0000 120 chrX:22449405-22449525 1.0000 120 chr3L:8029553-8029673 1.0000 120 chr2L:8894383-8894503 1.0000 120 chr3R:5059390-5059510 1.0000 120 chr2R:9553521-9553641 1.0000 120 chr3R:23190963-23191083 1.0000 120 chr2L:5972228-5972348 1.0000 120 chr2L:1738213-1738333 1.0000 120 chr2R:11178513-11178633 1.0000 120 chrX:6574611-6574731 1.0000 120 chr2L:8611008-8611128 1.0000 120 chr3L:1320640-1320760 1.0000 120 chr3R:23763180-23763300 1.0000 120 chr2R:16856798-16856918 1.0000 120 chr2R:13261830-13261950 1.0000 120 chr2R:6811595-6811715 1.0000 120 chr2R:16660251-16660371 1.0000 120 chr2R:6707756-6707876 1.0000 120 chr2L:10276984-10277104 1.0000 120 chr3L:20097404-20097524 1.0000 120 chr2R:7756276-7756396 1.0000 120 chr3L:7367941-7368061 1.0000 120 chr2R:18774932-18775052 1.0000 120 chr2L:12546604-12546724 1.0000 120 chr3R:23927604-23927724 1.0000 120 chr2R:7139401-7139521 1.0000 120 chr2R:6464977-6465097 1.0000 120 chr3R:14741475-14741595 1.0000 120 chr3L:5183362-5183482 1.0000 120 chr3L:16494855-16494975 1.0000 120 chr2R:23079186-23079306 1.0000 120 chr3L:15794457-15794577 1.0000 120 chr2L:1725197-1725317 1.0000 120 chrX:19663927-19664047 1.0000 120 chr2R:23997272-23997392 1.0000 120 chr3R:8815439-8815559 1.0000 120 chr3L:4103870-4103990 1.0000 120 chr2R:20994802-20994922 1.0000 120 chr2R:9546528-9546648 1.0000 120 chr3R:23820445-23820565 1.0000 120 chr2R:22384491-22384611 1.0000 120 chr3L:18357823-18357943 1.0000 120 chr2R:14219818-14219938 1.0000 120 chrX:13278192-13278312 1.0000 120 chr3L:5662191-5662311 1.0000 120 chr2R:7076978-7077098 1.0000 120 chr3R:12350649-12350769 1.0000 120 chr3L:11580086-11580206 1.0000 120 chr2L:15039377-15039497 1.0000 120 chr3L:629822-629942 1.0000 120 chrX:18834485-18834605 1.0000 120 chr2L:2494643-2494763 1.0000 120 chr3R:12591806-12591926 1.0000 120 chr3R:7092131-7092251 1.0000 120 chr3R:19011065-19011185 1.0000 120 chrX:11137040-11137160 1.0000 120 chr2L:18707988-18708108 1.0000 120 chrX:8499244-8499364 1.0000 120 chr3L:21484297-21484417 1.0000 120 chr2L:5980922-5981042 1.0000 120 chr3L:10694059-10694179 1.0000 120 chr3L:3320150-3320270 1.0000 120 chr3L:2572109-2572229 1.0000 120 chrX:13789045-13789165 1.0000 120 chr2L:7155120-7155240 1.0000 120 chrX:15697304-15697424 1.0000 120 chr2R:14604325-14604445 1.0000 120 chr3R:26005798-26005918 1.0000 120 chr3L:745655-745775 1.0000 120 chr2L:2992878-2992998 1.0000 120 chr2L:20715187-20715307 1.0000 120 chrX:15063803-15063923 1.0000 120 chr3R:9701471-9701591 1.0000 120 chr2L:13512196-13512316 1.0000 120 chr3L:16544395-16544515 1.0000 120 chr3R:7108225-7108345 1.0000 120 chr3L:10866692-10866812 1.0000 120 chr3L:11285124-11285244 1.0000 120 chr2L:3012962-3013082 1.0000 120 chr3R:11735420-11735540 1.0000 120 chr3R:11993212-11993332 1.0000 120 chr2R:21909940-21910060 1.0000 120 chr3R:27273631-27273751 1.0000 120 chr3R:26799006-26799126 1.0000 120 chr3R:23817882-23818002 1.0000 120 chr3R:30802930-30803050 1.0000 120 chr3R:31805425-31805545 1.0000 120 chr2R:9577968-9578088 1.0000 120 chr2R:13507298-13507418 1.0000 120 chr3L:12045513-12045633 1.0000 120 chr3L:550519-550639 1.0000 120 chr3L:295221-295341 1.0000 120 chrX:5671795-5671915 1.0000 120 chr2R:11094445-11094565 1.0000 120 chr2L:901444-901564 1.0000 120 chrX:16651198-16651318 1.0000 120 chr3L:15988189-15988309 1.0000 120 chrX:17652528-17652648 1.0000 120 chrX:19243364-19243484 1.0000 120 chr3R:30198951-30199071 1.0000 120 chrX:9121012-9121132 1.0000 120 chr3R:10696508-10696628 1.0000 120 chr3L:1464599-1464719 1.0000 120 chr3R:15129293-15129413 1.0000 120 chr3L:8584231-8584351 1.0000 120 chr2L:15254367-15254487 1.0000 120 chr2R:9388714-9388834 1.0000 120 chr3L:7243881-7244001 1.0000 120 chr3L:199254-199374 1.0000 120 chr2L:1651271-1651391 1.0000 120 chr3R:26937631-26937751 1.0000 120 chr3L:648281-648401 1.0000 120 chrX:10326010-10326130 1.0000 120 chr3L:9461700-9461820 1.0000 120 chr2R:21712047-21712167 1.0000 120 chr3L:17007153-17007273 1.0000 120 chrX:2443914-2444034 1.0000 120 chr3R:26230275-26230395 1.0000 120 chr3R:26235126-26235246 1.0000 120 chrX:13333042-13333162 1.0000 120 chr3L:603905-604025 1.0000 120 chr3R:26952315-26952435 1.0000 120 chr3R:20263846-20263966 1.0000 120 chr3L:3760693-3760813 1.0000 120 chr3L:12350470-12350590 1.0000 120 chrX:1477009-1477129 1.0000 120 chrX:14826087-14826207 1.0000 120 chr3L:22277289-22277409 1.0000 120 chr3R:6353028-6353148 1.0000 120 chr3R:21176913-21177033 1.0000 120 chr3L:19092572-19092692 1.0000 120 chr3L:1702647-1702767 1.0000 120 chr3L:13411157-13411277 1.0000 120 chr2L:10428701-10428821 1.0000 120 chr2R:17590732-17590852 1.0000 120 chrX:7710910-7711030 1.0000 120 chr2R:23180964-23181084 1.0000 120 chr2R:21535547-21535667 1.0000 120 chrX:18494293-18494413 1.0000 120 chr3L:13923457-13923577 1.0000 120 chr2R:18829753-18829873 1.0000 120 chrX:16103535-16103655 1.0000 120 chrX:13845872-13845992 1.0000 120 chr3L:16571516-16571636 1.0000 120 chr2R:25183098-25183218 1.0000 120 chrX:17582784-17582904 1.0000 120 chr3R:29891309-29891429 1.0000 120 chr3R:6405790-6405910 1.0000 120 chr3R:21499623-21499743 1.0000 120 chr2L:18688828-18688948 1.0000 120 chr3L:13486718-13486838 1.0000 120 chr3L:11258549-11258669 1.0000 120 chr3R:17539922-17540042 1.0000 120 chrX:3068417-3068537 1.0000 120 chr2L:9570843-9570963 1.0000 120 chr3L:9864483-9864603 1.0000 120 chr3L:1376110-1376230 1.0000 120 chr2L:5093217-5093337 1.0000 120 chr2L:14021834-14021954 1.0000 120 chrX:17887222-17887342 1.0000 120 chr2R:7699132-7699252 1.0000 120 chr2R:12586942-12587062 1.0000 120 chr2R:24159379-24159499 1.0000 120 chr2R:9103185-9103305 1.0000 120 chr3L:17659297-17659417 1.0000 120 chrX:3968837-3968957 1.0000 120 chr2R:5967736-5967856 1.0000 120 chrX:10600660-10600780 1.0000 120 chr3L:22065798-22065918 1.0000 120 chr2R:17478615-17478735 1.0000 120 chr2L:13445640-13445760 1.0000 120 chrX:15712527-15712647 1.0000 120 chr3L:9446801-9446921 1.0000 120 chr3L:3875140-3875260 1.0000 120 chr2R:19446243-19446363 1.0000 120 chr3R:18298313-18298433 1.0000 120 chr2L:3444925-3445045 1.0000 120 chrX:12221709-12221829 1.0000 120 chr2R:15817108-15817228 1.0000 120 chr3R:21273790-21273910 1.0000 120 chr2L:7027136-7027256 1.0000 120 chr3R:20555163-20555283 1.0000 120 chr3L:12081769-12081889 1.0000 120 chrX:10587605-10587725 1.0000 120 chr2L:1629675-1629795 1.0000 120 chrX:16278114-16278234 1.0000 120 chr2L:16476558-16476678 1.0000 120 chr2L:117858-117978 1.0000 120 chr3L:20630804-20630924 1.0000 120 chrX:8560331-8560451 1.0000 120 chr3R:8819834-8819954 1.0000 120 chrX:19643321-19643441 1.0000 120 chr2R:17461250-17461370 1.0000 120 chr3L:4292256-4292376 1.0000 120 chr2R:23970251-23970371 1.0000 120 chr2L:6481423-6481543 1.0000 120 chr2L:11970994-11971114 1.0000 120 chr2L:18377305-18377425 1.0000 120 chr2L:10698113-10698233 1.0000 120 chr3L:1335569-1335689 1.0000 120 chr2R:19127970-19128090 1.0000 120 chr2R:24657186-24657306 1.0000 120 chr2R:20906663-20906783 1.0000 120 chr2L:19140971-19141091 1.0000 120 chrX:5285962-5286082 1.0000 120 chr3L:5789871-5789991 1.0000 120 chr3L:3770975-3771095 1.0000 120 chr3R:30052586-30052706 1.0000 120 chr3R:26121355-26121475 1.0000 120 chr2L:1980802-1980922 1.0000 120 chr3L:11790001-11790121 1.0000 120 chr2R:8900220-8900340 1.0000 120 chr2R:10096793-10096913 1.0000 120 chr2L:8528443-8528563 1.0000 120 chr3L:6189696-6189816 1.0000 120 chr2L:4971460-4971580 1.0000 120 chr2L:6797531-6797651 1.0000 120 chrX:18370891-18371011 1.0000 120 chr3R:15644883-15645003 1.0000 120 chr3R:9038851-9038971 1.0000 120 chr3L:21821878-21821998 1.0000 120 chr3R:27937881-27938001 1.0000 120 chrX:5084742-5084862 1.0000 120 chrX:4610560-4610680 1.0000 120 chr3L:3896733-3896853 1.0000 120 chr2R:22213111-22213231 1.0000 120 chr3R:10390916-10391036 1.0000 120 chr2L:12003025-12003145 1.0000 120 chr2L:6968302-6968422 1.0000 120 chr3L:15825721-15825841 1.0000 120 chrX:22837473-22837593 1.0000 120 chr2R:23574945-23575065 1.0000 120 chr3R:9052429-9052549 1.0000 120 chr2R:16170804-16170924 1.0000 120 chr3L:14336021-14336141 1.0000 120 chr3R:29859893-29860013 1.0000 120 chr2L:2037579-2037699 1.0000 120 chrX:15076057-15076177 1.0000 120 chr3L:8720155-8720275 1.0000 120 chr3R:19472381-19472501 1.0000 120 chr3R:18366461-18366581 1.0000 120 chr3L:10745747-10745867 1.0000 120 chr2R:13586383-13586503 1.0000 120 chr3R:11244073-11244193 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_CG1647/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/CG1647.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 0.303 C 0.201 G 0.198 T 0.298 Background letter frequencies (from file dataset with add-one prior applied): A 0.303 C 0.201 G 0.198 T 0.298 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CAGTGYWG MEME-1 width = 8 sites = 26 llr = 248 E-value = 2.0e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :a::::4: pos.-specific C a::::7:2 probability G ::a:a::8 matrix T :::a:36: bits 2.3 * * * 2.1 * * * 1.9 * * * 1.6 * *** * Relative 1.4 ***** * Entropy 1.2 ****** * (13.8 bits) 0.9 ****** * 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAGTGCTG consensus TAC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:16170804-16170924 37 8.44e-06 ATCTGCCTAA CAGTGCTG TAAAATGTGT chr2L:6481423-6481543 27 8.44e-06 AAAACGGTGA CAGTGCTG CCAGACCGAG chr2R:24159379-24159499 8 8.44e-06 CAGCGAG CAGTGCTG CCAGACTGTC chr3R:21499623-21499743 8 8.44e-06 TACCGAC CAGTGCTG CCCATCGGCG chrX:1477009-1477129 53 8.44e-06 CGAGATAAAC CAGTGCTG TAAAGCGCCG chrX:15063803-15063923 44 8.44e-06 GCTGTTCGAG CAGTGCTG AAAAACGCCG chr3L:10694059-10694179 57 8.44e-06 GGCTATAACA CAGTGCTG TGAAATGCCA chrX:11137040-11137160 40 8.44e-06 GCAGCGCAAA CAGTGCTG GCAATCAGCC chr2L:15039377-15039497 51 8.44e-06 ATCCAACCAA CAGTGCTG TGAAGCGACA chr2R:24657186-24657306 83 1.70e-05 CTCTTTTTCT CAGTGCAG CTCAAGCTTA chr3R:21273790-21273910 37 1.70e-05 CAGAACGGGT CAGTGCAG GTACTACACT chr2R:19446243-19446363 79 2.95e-05 CCTGGCAGCG CAGTGTTG TCAATCGATA chr2R:5967736-5967856 37 2.95e-05 TAGTGGTGTT CAGTGTTG TTAGATGTCG chr3R:17539922-17540042 52 2.95e-05 ATGCCGAAAT CAGTGTTG GCTAATCCTG chrX:19663927-19664047 76 2.95e-05 AACTGGTCGA CAGTGTTG AAAAGTTCGT chr3R:29859893-29860013 82 3.81e-05 CGTTTAAGTA CAGTGCTC ACTATTGAAT chr3R:30198951-30199071 105 3.81e-05 TGGCCCACAA CAGTGCTC ATCATCCA chr2R:23574945-23575065 93 5.08e-05 GGATTTTCCT CAGTGTAG CCTAAAACAT chrX:19643321-19643441 13 5.08e-05 AGCTCGGCCC CAGTGTAG CGTAGCCCTG chrX:12221709-12221829 87 5.08e-05 ATTTTTTTGC CAGTGTAG CAAGCCTGAG chr3L:1464599-1464719 113 5.08e-05 CTTTTTCGAG CAGTGTAG chr3R:15644883-15645003 108 5.95e-05 CTATTTCTCT CAGTGCAC AGATG chr3L:1335569-1335689 19 5.95e-05 CAAACTAATA CAGTGCAC TTTCGCAAAG chr2L:7155120-7155240 40 5.95e-05 TTATTTGGCT CAGTGCAC TTGAACATCT chr2R:9103185-9103305 34 9.07e-05 TGCAATGTGA CCGTGCTG CTGATTGTGT chr2L:8611008-8611128 102 9.07e-05 ATTTTTTGCG CAGTGTAC TGGTGTGTAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:16170804-16170924 8.4e-06 36_[+1]_76 chr2L:6481423-6481543 8.4e-06 26_[+1]_86 chr2R:24159379-24159499 8.4e-06 7_[+1]_105 chr3R:21499623-21499743 8.4e-06 7_[+1]_105 chrX:1477009-1477129 8.4e-06 52_[+1]_60 chrX:15063803-15063923 8.4e-06 43_[+1]_69 chr3L:10694059-10694179 8.4e-06 56_[+1]_56 chrX:11137040-11137160 8.4e-06 39_[+1]_73 chr2L:15039377-15039497 8.4e-06 50_[+1]_62 chr2R:24657186-24657306 1.7e-05 82_[+1]_30 chr3R:21273790-21273910 1.7e-05 36_[+1]_76 chr2R:19446243-19446363 3e-05 78_[+1]_34 chr2R:5967736-5967856 3e-05 36_[+1]_76 chr3R:17539922-17540042 3e-05 51_[+1]_61 chrX:19663927-19664047 3e-05 75_[+1]_37 chr3R:29859893-29860013 3.8e-05 81_[+1]_31 chr3R:30198951-30199071 3.8e-05 104_[+1]_8 chr2R:23574945-23575065 5.1e-05 92_[+1]_20 chrX:19643321-19643441 5.1e-05 12_[+1]_100 chrX:12221709-12221829 5.1e-05 86_[+1]_26 chr3L:1464599-1464719 5.1e-05 112_[+1] chr3R:15644883-15645003 6e-05 107_[+1]_5 chr3L:1335569-1335689 6e-05 18_[+1]_94 chr2L:7155120-7155240 6e-05 39_[+1]_73 chr2R:9103185-9103305 9.1e-05 33_[+1]_79 chr2L:8611008-8611128 9.1e-05 101_[+1]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGTGYWG width=8 seqs=26 chr2R:16170804-16170924 ( 37) CAGTGCTG 1 chr2L:6481423-6481543 ( 27) CAGTGCTG 1 chr2R:24159379-24159499 ( 8) CAGTGCTG 1 chr3R:21499623-21499743 ( 8) CAGTGCTG 1 chrX:1477009-1477129 ( 53) CAGTGCTG 1 chrX:15063803-15063923 ( 44) CAGTGCTG 1 chr3L:10694059-10694179 ( 57) CAGTGCTG 1 chrX:11137040-11137160 ( 40) CAGTGCTG 1 chr2L:15039377-15039497 ( 51) CAGTGCTG 1 chr2R:24657186-24657306 ( 83) CAGTGCAG 1 chr3R:21273790-21273910 ( 37) CAGTGCAG 1 chr2R:19446243-19446363 ( 79) CAGTGTTG 1 chr2R:5967736-5967856 ( 37) CAGTGTTG 1 chr3R:17539922-17540042 ( 52) CAGTGTTG 1 chrX:19663927-19664047 ( 76) CAGTGTTG 1 chr3R:29859893-29860013 ( 82) CAGTGCTC 1 chr3R:30198951-30199071 ( 105) CAGTGCTC 1 chr2R:23574945-23575065 ( 93) CAGTGTAG 1 chrX:19643321-19643441 ( 13) CAGTGTAG 1 chrX:12221709-12221829 ( 87) CAGTGTAG 1 chr3L:1464599-1464719 ( 113) CAGTGTAG 1 chr3R:15644883-15645003 ( 108) CAGTGCAC 1 chr3L:1335569-1335689 ( 19) CAGTGCAC 1 chr2L:7155120-7155240 ( 40) CAGTGCAC 1 chr2R:9103185-9103305 ( 34) CCGTGCTG 1 chr2L:8611008-8611128 ( 102) CAGTGTAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.0201 E= 2.0e-004 -1134 232 -1134 -1134 166 -238 -1134 -1134 -1134 -1134 233 -1134 -1134 -1134 -1134 175 -1134 -1134 233 -1134 -1134 170 -1134 22 34 -1134 -1134 105 -1134 20 196 -1134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 2.0e-004 0.000000 1.000000 0.000000 0.000000 0.961538 0.038462 0.000000 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 0.653846 0.000000 0.346154 0.384615 0.000000 0.000000 0.615385 0.000000 0.230769 0.769231 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGTGYWG MEME-1 regular expression -------------------------------------------------------------------------------- CAGTG[CT][TA][GC] -------------------------------------------------------------------------------- Time 7.40 secs. ******************************************************************************** ******************************************************************************** MOTIF ATCGATAK MEME-2 width = 8 sites = 14 llr = 140 E-value = 1.2e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 Description -------------------------------------------------------------------------------- Simplified A a:::a:a: pos.-specific C ::a::::: probability G :::a:::6 matrix T :a:::a:4 bits 2.3 ** 2.1 ** 1.9 ** 1.6 ******* Relative 1.4 ******* Entropy 1.2 ******** (14.4 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel ATCGATAG consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:11244073-11244193 89 1.95e-05 TATCAAGGGC ATCGATAG TTTGGCTGCT chr2R:10096793-10096913 110 1.95e-05 AAAGACCAGT ATCGATAG CAA chr3R:21273790-21273910 64 1.95e-05 TCTGCATGCA ATCGATAG TCGGAATCGA chrX:15712527-15712647 57 1.95e-05 ACTTAACCAT ATCGATAG GCAAAGCCGA chr3L:19092572-19092692 13 1.95e-05 TAATCGATAC ATCGATAG TTGGGTCCTA chr3R:12350649-12350769 42 1.95e-05 AGCGATAGGT ATCGATAG CGAGGTCAGA chr3L:5662191-5662311 41 1.95e-05 TTCGGACGAT ATCGATAG ATGCCTTGTA chr3R:14741475-14741595 103 1.95e-05 TACCCTATAC ATCGATAG TATCGCATAA chr3L:11790001-11790121 21 4.88e-05 TGGTAAACGA ATCGATAT TGTTTGGCAA chr3L:9864483-9864603 98 4.88e-05 ATTGTTGACA ATCGATAT AGCCAAGTCT chrX:9121012-9121132 21 4.88e-05 TAAATTTGTC ATCGATAT CTAAGTTTAG chr2L:2992878-2992998 83 4.88e-05 TAATCGAAAC ATCGATAT GTTATATTGA chr2R:20994802-20994922 4 4.88e-05 TAT ATCGATAT GTGGATAAAC chrX:19663927-19664047 110 4.88e-05 GCGGCAAGAA ATCGATAT AAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:11244073-11244193 1.9e-05 88_[+2]_24 chr2R:10096793-10096913 1.9e-05 109_[+2]_3 chr3R:21273790-21273910 1.9e-05 63_[+2]_49 chrX:15712527-15712647 1.9e-05 56_[+2]_56 chr3L:19092572-19092692 1.9e-05 12_[+2]_100 chr3R:12350649-12350769 1.9e-05 41_[+2]_71 chr3L:5662191-5662311 1.9e-05 40_[+2]_72 chr3R:14741475-14741595 1.9e-05 102_[+2]_10 chr3L:11790001-11790121 4.9e-05 20_[+2]_92 chr3L:9864483-9864603 4.9e-05 97_[+2]_15 chrX:9121012-9121132 4.9e-05 20_[+2]_92 chr2L:2992878-2992998 4.9e-05 82_[+2]_30 chr2R:20994802-20994922 4.9e-05 3_[+2]_109 chrX:19663927-19664047 4.9e-05 109_[+2]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ATCGATAK width=8 seqs=14 chr3R:11244073-11244193 ( 89) ATCGATAG 1 chr2R:10096793-10096913 ( 110) ATCGATAG 1 chr3R:21273790-21273910 ( 64) ATCGATAG 1 chrX:15712527-15712647 ( 57) ATCGATAG 1 chr3L:19092572-19092692 ( 13) ATCGATAG 1 chr3R:12350649-12350769 ( 42) ATCGATAG 1 chr3L:5662191-5662311 ( 41) ATCGATAG 1 chr3R:14741475-14741595 ( 103) ATCGATAG 1 chr3L:11790001-11790121 ( 21) ATCGATAT 1 chr3L:9864483-9864603 ( 98) ATCGATAT 1 chrX:9121012-9121132 ( 21) ATCGATAT 1 chr2L:2992878-2992998 ( 83) ATCGATAT 1 chr2R:20994802-20994922 ( 4) ATCGATAT 1 chrX:19663927-19664047 ( 110) ATCGATAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 9.95669 E= 1.2e+004 172 -1045 -1045 -1045 -1045 -1045 -1045 175 -1045 232 -1045 -1045 -1045 -1045 233 -1045 172 -1045 -1045 -1045 -1045 -1045 -1045 175 172 -1045 -1045 -1045 -1045 -1045 153 53 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 1.2e+004 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.571429 0.428571 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATCGATAK MEME-2 regular expression -------------------------------------------------------------------------------- ATCGATA[GT] -------------------------------------------------------------------------------- Time 13.62 secs. ******************************************************************************** ******************************************************************************** MOTIF VGCRCYGC MEME-3 width = 8 sites = 18 llr = 171 E-value = 1.9e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A 4::7:::: pos.-specific C 2:a:a3:a probability G 3a:3:2a: matrix T :::::6:: bits 2.3 ** * ** 2.1 ** * ** 1.9 ** * ** 1.6 ** * ** Relative 1.4 ** * ** Entropy 1.2 ** * ** (13.7 bits) 0.9 **** ** 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AGCACTGC consensus G G C sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:22213111-22213231 69 5.69e-06 CAGAATCGGT GGCACTGC ATCGCGCTAA chr2R:6811595-6811715 67 5.69e-06 TTAAAAACCG GGCACTGC GCTCATTTCC chr3R:30052586-30052706 32 1.44e-05 CGCACATACG AGCACTGC TAGCGCTGGC chr2L:7027136-7027256 25 1.44e-05 TGGCCCAACC AGCACTGC GCCAGAAGAT chr2R:5967736-5967856 105 1.44e-05 CGTCTGCACT AGCACTGC CAAAGAAA chr2L:10428701-10428821 108 1.44e-05 AAATATTTAC AGCACTGC CACAC chrX:22837473-22837593 33 2.20e-05 CTTTCGCTTG GGCACCGC AATATAAAAA chr2L:11970994-11971114 26 2.20e-05 AAAAGTGACT GGCACCGC GTTTCCACTG chr3R:9052429-9052549 103 3.93e-05 GTCGGATCGC AGCGCTGC TGGATTTTTC chr3L:2572109-2572229 100 3.93e-05 TTCTGTGCCG AGCACCGC CTAACGAGGG chr3R:23820445-23820565 73 3.93e-05 TATTTCTTTC AGCACCGC ATGGTATCTT chrX:12221709-12221829 23 5.33e-05 TTGAAGACTA CGCGCTGC AGATTTAGAT chrX:1477009-1477129 64 5.33e-05 AGTGCTGTAA AGCGCCGC CATTTAATTG chrX:8499244-8499364 80 5.33e-05 TGGGCATGGT CGCGCTGC AATGAAACAG chr3L:7367941-7368061 22 5.33e-05 ATCATCAGAA CGCGCTGC TGGCGCTTCT chr3L:1464599-1464719 86 5.71e-05 CGCCAGCCAA GGCACGGC ACCCACTCAC chr3R:26005798-26005918 15 5.71e-05 TGTTAATCCT GGCACGGC GCTTACGCTC chr2L:5093217-5093337 97 7.80e-05 CTGTTGCGTA CGCGCGGC tgtgtgtgcg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:22213111-22213231 5.7e-06 68_[+3]_44 chr2R:6811595-6811715 5.7e-06 66_[+3]_46 chr3R:30052586-30052706 1.4e-05 31_[+3]_81 chr2L:7027136-7027256 1.4e-05 24_[+3]_88 chr2R:5967736-5967856 1.4e-05 104_[+3]_8 chr2L:10428701-10428821 1.4e-05 107_[+3]_5 chrX:22837473-22837593 2.2e-05 32_[+3]_80 chr2L:11970994-11971114 2.2e-05 25_[+3]_87 chr3R:9052429-9052549 3.9e-05 102_[+3]_10 chr3L:2572109-2572229 3.9e-05 99_[+3]_13 chr3R:23820445-23820565 3.9e-05 72_[+3]_40 chrX:12221709-12221829 5.3e-05 22_[+3]_90 chrX:1477009-1477129 5.3e-05 63_[+3]_49 chrX:8499244-8499364 5.3e-05 79_[+3]_33 chr3L:7367941-7368061 5.3e-05 21_[+3]_91 chr3L:1464599-1464719 5.7e-05 85_[+3]_27 chr3R:26005798-26005918 5.7e-05 14_[+3]_98 chr2L:5093217-5093337 7.8e-05 96_[+3]_16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF VGCRCYGC width=8 seqs=18 chr2R:22213111-22213231 ( 69) GGCACTGC 1 chr2R:6811595-6811715 ( 67) GGCACTGC 1 chr3R:30052586-30052706 ( 32) AGCACTGC 1 chr2L:7027136-7027256 ( 25) AGCACTGC 1 chr2R:5967736-5967856 ( 105) AGCACTGC 1 chr2L:10428701-10428821 ( 108) AGCACTGC 1 chrX:22837473-22837593 ( 33) GGCACCGC 1 chr2L:11970994-11971114 ( 26) GGCACCGC 1 chr3R:9052429-9052549 ( 103) AGCGCTGC 1 chr3L:2572109-2572229 ( 100) AGCACCGC 1 chr3R:23820445-23820565 ( 73) AGCACCGC 1 chrX:12221709-12221829 ( 23) CGCGCTGC 1 chrX:1477009-1477129 ( 64) AGCGCCGC 1 chrX:8499244-8499364 ( 80) CGCGCTGC 1 chr3L:7367941-7368061 ( 22) CGCGCTGC 1 chr3L:1464599-1464719 ( 86) GGCACGGC 1 chr3R:26005798-26005918 ( 15) GGCACGGC 1 chr2L:5093217-5093337 ( 97) CGCGCGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.7495 E= 1.9e+004 55 15 75 -1081 -1081 -1081 233 -1081 -1081 232 -1081 -1081 114 -1081 75 -1081 -1081 232 -1081 -1081 -1081 47 -25 90 -1081 -1081 233 -1081 -1081 232 -1081 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 1.9e+004 0.444444 0.222222 0.333333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.666667 0.000000 0.333333 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.277778 0.166667 0.555556 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VGCRCYGC MEME-3 regular expression -------------------------------------------------------------------------------- [AGC]GC[AG]C[TC]GC -------------------------------------------------------------------------------- Time 19.80 secs. ******************************************************************************** ******************************************************************************** MOTIF KGCAGCSM MEME-4 width = 8 sites = 28 llr = 251 E-value = 6.8e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::8:::6 pos.-specific C :2a::a54 probability G 58::a:5: matrix T 5::2:::: bits 2.3 * ** 2.1 * ** 1.9 * ** 1.6 ** ** Relative 1.4 ** *** Entropy 1.2 ** *** (12.9 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGCAGCGA consensus GC CC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:1980802-1980922 44 9.48e-06 CAGGTGGCAA GGCAGCGA TAGATCGGAT chrX:3968837-3968957 81 9.48e-06 CCACAGGTCT GGCAGCGC AAAAGCTTGT chr3R:27273631-27273751 63 9.48e-06 ACTAAACAAC GGCAGCGC CAGCAGCTAG chr2L:15039377-15039497 84 9.48e-06 ATCGCCGGTA GGCAGCGA CTATCATAAA chrX:3068417-3068537 57 1.91e-05 CAAAGAAAGG GGCAGCCA TGTTAAGCAT chr2R:23079186-23079306 103 1.91e-05 TAAGCCATCT GGCAGCCC CAGGCTTGTT chr2R:16856798-16856918 31 1.91e-05 CGGCAGAAAC GGCAGCCA AAGAAAATGC chr2R:20906663-20906783 16 3.34e-05 TTGAACACAT TGCAGCGA CATCTATCGT chr3L:13411157-13411277 43 3.34e-05 TTTTAACGTT TGCAGCGA CATCTAGTGG chrX:14826087-14826207 71 3.34e-05 TTCGTCGGCG TGCAGCGA AAGCACTATC chrX:11137040-11137160 29 3.34e-05 AGCACTGGAC TGCAGCGC AAACAGTGCT chr3L:629822-629942 93 3.34e-05 TGTTAAAATG TGCAGCGC CCTTGTGTGC chr2R:12586942-12587062 110 4.79e-05 gtggtggtgg tgCAGCCA CAG chr2L:18707988-18708108 41 4.79e-05 GTAGTATTCT TGCAGCCA CCACTGTATG chr3R:23820445-23820565 104 4.79e-05 GGGACGCGAG TGCAGCCA CACCAAAAG chr2R:20994802-20994922 69 4.79e-05 CCATCTAGTT TGCAGCCC TGGTACCGCT chr3R:14741475-14741595 82 4.79e-05 ATTTAATCAA TGCAGCCC TCTTACCCTA chr2R:13586383-13586503 19 5.75e-05 GCCAAAAAAC GCCAGCGA TTTCGGGCGA chr3L:9446801-9446921 67 6.73e-05 TTTCGCTGAG GCCAGCCA TGGTCACTCT chr3L:1464599-1464719 77 6.73e-05 TGAAAAGAGC GCCAGCCA AGGCACGGCA chr3R:28831325-28831445 19 6.73e-05 cagccagcaa gccagcca gcTGCGTTTG chr3L:12350470-12350590 41 7.66e-05 TCTAAGCCGA GGCTGCGA TATTTGCACA chr2R:13507298-13507418 49 1.01e-04 GTCAACAAGG GGCTGCCA CCCCTTTCAA chr3R:9701471-9701591 48 1.01e-04 TTATTGACTT TCCAGCGC TTCGCCCCAC chr3L:18357823-18357943 14 1.01e-04 AATTGTTAGT TCCAGCGC CTAACTTATT chr2L:4971460-4971580 51 1.29e-04 ACATAGAGGT TGCTGCGC AACGGTCACA chr2L:18688828-18688948 37 1.29e-04 GATGGCAATT TGCTGCGA TGCACGAGCT chr2R:10096793-10096913 72 1.44e-04 CTTGAGTCAA TGCTGCCC ATTGTTTAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:1980802-1980922 9.5e-06 43_[+4]_69 chrX:3968837-3968957 9.5e-06 80_[+4]_32 chr3R:27273631-27273751 9.5e-06 62_[+4]_50 chr2L:15039377-15039497 9.5e-06 83_[+4]_29 chrX:3068417-3068537 1.9e-05 56_[+4]_56 chr2R:23079186-23079306 1.9e-05 102_[+4]_10 chr2R:16856798-16856918 1.9e-05 30_[+4]_82 chr2R:20906663-20906783 3.3e-05 15_[+4]_97 chr3L:13411157-13411277 3.3e-05 42_[+4]_70 chrX:14826087-14826207 3.3e-05 70_[+4]_42 chrX:11137040-11137160 3.3e-05 28_[+4]_84 chr3L:629822-629942 3.3e-05 92_[+4]_20 chr2R:12586942-12587062 4.8e-05 109_[+4]_3 chr2L:18707988-18708108 4.8e-05 40_[+4]_72 chr3R:23820445-23820565 4.8e-05 103_[+4]_9 chr2R:20994802-20994922 4.8e-05 68_[+4]_44 chr3R:14741475-14741595 4.8e-05 81_[+4]_31 chr2R:13586383-13586503 5.7e-05 18_[+4]_94 chr3L:9446801-9446921 6.7e-05 66_[+4]_46 chr3L:1464599-1464719 6.7e-05 76_[+4]_36 chr3R:28831325-28831445 6.7e-05 18_[+4]_94 chr3L:12350470-12350590 7.7e-05 40_[+4]_72 chr2R:13507298-13507418 0.0001 48_[+4]_64 chr3R:9701471-9701591 0.0001 47_[+4]_65 chr3L:18357823-18357943 0.0001 13_[+4]_99 chr2L:4971460-4971580 0.00013 50_[+4]_62 chr2L:18688828-18688948 0.00013 36_[+4]_76 chr2R:10096793-10096913 0.00014 71_[+4]_41 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KGCAGCSM width=8 seqs=28 chr2L:1980802-1980922 ( 44) GGCAGCGA 1 chrX:3968837-3968957 ( 81) GGCAGCGC 1 chr3R:27273631-27273751 ( 63) GGCAGCGC 1 chr2L:15039377-15039497 ( 84) GGCAGCGA 1 chrX:3068417-3068537 ( 57) GGCAGCCA 1 chr2R:23079186-23079306 ( 103) GGCAGCCC 1 chr2R:16856798-16856918 ( 31) GGCAGCCA 1 chr2R:20906663-20906783 ( 16) TGCAGCGA 1 chr3L:13411157-13411277 ( 43) TGCAGCGA 1 chrX:14826087-14826207 ( 71) TGCAGCGA 1 chrX:11137040-11137160 ( 29) TGCAGCGC 1 chr3L:629822-629942 ( 93) TGCAGCGC 1 chr2R:12586942-12587062 ( 110) TGCAGCCA 1 chr2L:18707988-18708108 ( 41) TGCAGCCA 1 chr3R:23820445-23820565 ( 104) TGCAGCCA 1 chr2R:20994802-20994922 ( 69) TGCAGCCC 1 chr3R:14741475-14741595 ( 82) TGCAGCCC 1 chr2R:13586383-13586503 ( 19) GCCAGCGA 1 chr3L:9446801-9446921 ( 67) GCCAGCCA 1 chr3L:1464599-1464719 ( 77) GCCAGCCA 1 chr3R:28831325-28831445 ( 19) GCCAGCCA 1 chr3L:12350470-12350590 ( 41) GGCTGCGA 1 chr2R:13507298-13507418 ( 49) GGCTGCCA 1 chr3R:9701471-9701591 ( 48) TCCAGCGC 1 chr3L:18357823-18357943 ( 14) TCCAGCGC 1 chr2L:4971460-4971580 ( 51) TGCTGCGC 1 chr2L:18688828-18688948 ( 37) TGCTGCGA 1 chr2R:10096793-10096913 ( 72) TGCTGCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5834 E= 6.8e+001 -1145 -1145 123 85 -1145 9 199 -1145 -1145 232 -1145 -1145 144 -1145 -1145 -74 -1145 -1145 233 -1145 -1145 232 -1145 -1145 -1145 121 143 -1145 100 97 -1145 -1145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 6.8e+001 0.000000 0.000000 0.464286 0.535714 0.000000 0.214286 0.785714 0.000000 0.000000 1.000000 0.000000 0.000000 0.821429 0.000000 0.000000 0.178571 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.464286 0.535714 0.000000 0.607143 0.392857 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGCAGCSM MEME-4 regular expression -------------------------------------------------------------------------------- [TG][GC]CAGC[GC][AC] -------------------------------------------------------------------------------- Time 25.93 secs. ******************************************************************************** ******************************************************************************** MOTIF CCGTCTGS MEME-5 width = 8 sites = 6 llr = 69 E-value = 2.5e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C aa::a::3 probability G ::a:::a7 matrix T :::a:a:: bits 2.3 *** * * 2.1 *** * * 1.9 *** * * 1.6 ******* Relative 1.4 ******** Entropy 1.2 ******** (16.5 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CCGTCTGG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:3968837-3968957 101 5.60e-06 AAGCTTGTGC CCGTCTGG CAGCTCCAAA chr3R:20263846-20263966 29 5.60e-06 GCCAGCCCGT CCGTCTGG CTGTATTTGT chr3L:550519-550639 57 5.60e-06 ACAGGTTCCA CCGTCTGG GTTCCCGAAA chr3L:10866692-10866812 95 5.60e-06 TGTCGCATTG CCGTCTGG GCCATAATTC chr2R:5967736-5967856 94 1.13e-05 TGGGAATATT CCGTCTGC ACTAGCACTG chr3R:6405790-6405910 25 1.13e-05 CTTGAcgcct ccgtctgc tcttcgcctt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:3968837-3968957 5.6e-06 100_[+5]_12 chr3R:20263846-20263966 5.6e-06 28_[+5]_84 chr3L:550519-550639 5.6e-06 56_[+5]_56 chr3L:10866692-10866812 5.6e-06 94_[+5]_18 chr2R:5967736-5967856 1.1e-05 93_[+5]_19 chr3R:6405790-6405910 1.1e-05 24_[+5]_88 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCGTCTGS width=8 seqs=6 chrX:3968837-3968957 ( 101) CCGTCTGG 1 chr3R:20263846-20263966 ( 29) CCGTCTGG 1 chr3L:550519-550639 ( 57) CCGTCTGG 1 chr3L:10866692-10866812 ( 95) CCGTCTGG 1 chr2R:5967736-5967856 ( 94) CCGTCTGC 1 chr3R:6405790-6405910 ( 25) CCGTCTGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.8596 E= 2.5e+004 -923 232 -923 -923 -923 232 -923 -923 -923 -923 233 -923 -923 -923 -923 175 -923 232 -923 -923 -923 -923 -923 175 -923 -923 233 -923 -923 73 175 -923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 2.5e+004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 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 0.333333 0.666667 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTCTGS MEME-5 regular expression -------------------------------------------------------------------------------- CCGTCTG[GC] -------------------------------------------------------------------------------- Time 32.02 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:28831325-28831445 2.83e-02 18_[+4(6.73e-05)]_94 chr2L:8552604-8552724 9.68e-01 120 chr3L:1549389-1549509 7.47e-01 120 chr3L:11492600-11492720 2.23e-01 120 chr3L:9614061-9614181 4.53e-01 120 chr3L:8448738-8448858 1.75e-01 120 chrX:22449405-22449525 7.02e-01 120 chr3L:8029553-8029673 1.48e-01 120 chr2L:8894383-8894503 3.39e-01 120 chr3R:5059390-5059510 8.20e-01 120 chr2R:9553521-9553641 7.13e-01 120 chr3R:23190963-23191083 7.55e-01 120 chr2L:5972228-5972348 5.24e-01 120 chr2L:1738213-1738333 7.54e-01 120 chr2R:11178513-11178633 8.05e-01 120 chrX:6574611-6574731 1.36e-01 120 chr2L:8611008-8611128 1.17e-01 101_[+1(9.07e-05)]_11 chr3L:1320640-1320760 8.67e-01 120 chr3R:23763180-23763300 2.98e-01 120 chr2R:16856798-16856918 2.35e-03 30_[+4(1.91e-05)]_73_[+3(9.24e-05)]_\ 1 chr2R:13261830-13261950 9.53e-01 120 chr2R:6811595-6811715 1.14e-02 66_[+3(5.69e-06)]_46 chr2R:16660251-16660371 5.42e-01 120 chr2R:6707756-6707876 7.52e-01 120 chr2L:10276984-10277104 2.64e-01 120 chr3L:20097404-20097524 8.30e-01 120 chr2R:7756276-7756396 3.85e-01 120 chr3L:7367941-7368061 7.99e-02 21_[+3(5.33e-05)]_91 chr2R:18774932-18775052 9.59e-01 120 chr2L:12546604-12546724 9.98e-01 120 chr3R:23927604-23927724 1.81e-01 120 chr2R:7139401-7139521 8.85e-01 120 chr2R:6464977-6465097 4.79e-01 120 chr3R:14741475-14741595 4.80e-05 81_[+4(4.79e-05)]_13_[+2(1.95e-05)]_\ 10 chr3L:5183362-5183482 9.92e-01 120 chr3L:16494855-16494975 8.55e-01 120 chr2R:23079186-23079306 3.15e-03 102_[+4(1.91e-05)]_10 chr3L:15794457-15794577 9.99e-01 120 chr2L:1725197-1725317 2.31e-02 120 chrX:19663927-19664047 3.01e-04 75_[+1(2.95e-05)]_26_[+2(4.88e-05)]_\ 3 chr2R:23997272-23997392 1.47e-01 120 chr3R:8815439-8815559 8.24e-01 120 chr3L:4103870-4103990 5.28e-01 120 chr2R:20994802-20994922 5.99e-05 3_[+2(4.88e-05)]_57_[+4(4.79e-05)]_\ 44 chr2R:9546528-9546648 2.61e-01 120 chr3R:23820445-23820565 5.96e-04 72_[+3(3.93e-05)]_23_[+4(4.79e-05)]_\ 9 chr2R:22384491-22384611 6.14e-01 120 chr3L:18357823-18357943 3.93e-02 120 chr2R:14219818-14219938 6.65e-02 120 chrX:13278192-13278312 9.73e-01 120 chr3L:5662191-5662311 5.58e-02 40_[+2(1.95e-05)]_72 chr2R:7076978-7077098 8.21e-01 120 chr3R:12350649-12350769 1.58e-03 41_[+2(1.95e-05)]_71 chr3L:11580086-11580206 8.59e-01 120 chr2L:15039377-15039497 1.02e-04 50_[+1(8.44e-06)]_25_[+4(9.48e-06)]_\ 29 chr3L:629822-629942 2.89e-02 92_[+4(3.34e-05)]_20 chrX:18834485-18834605 7.92e-01 120 chr2L:2494643-2494763 7.93e-01 120 chr3R:12591806-12591926 6.13e-01 120 chr3R:7092131-7092251 4.25e-01 120 chr3R:19011065-19011185 9.95e-01 120 chrX:11137040-11137160 6.52e-05 28_[+4(3.34e-05)]_3_[+1(8.44e-06)]_\ 73 chr2L:18707988-18708108 6.49e-02 40_[+4(4.79e-05)]_72 chrX:8499244-8499364 2.10e-01 79_[+3(5.33e-05)]_33 chr3L:21484297-21484417 1.92e-01 120 chr2L:5980922-5981042 9.56e-02 120 chr3L:10694059-10694179 5.10e-03 27_[+1(8.44e-06)]_21_[+1(8.44e-06)]_\ 56 chr3L:3320150-3320270 4.04e-01 120 chr3L:2572109-2572229 9.02e-03 99_[+3(3.93e-05)]_13 chrX:13789045-13789165 9.94e-01 120 chr2L:7155120-7155240 2.46e-02 39_[+1(5.95e-05)]_73 chrX:15697304-15697424 9.70e-01 120 chr2R:14604325-14604445 1.78e-01 120 chr3R:26005798-26005918 8.23e-02 14_[+3(5.71e-05)]_98 chr3L:745655-745775 1.00e+00 120 chr2L:2992878-2992998 2.33e-01 82_[+2(4.88e-05)]_30 chr2L:20715187-20715307 9.14e-01 120 chrX:15063803-15063923 1.59e-03 43_[+1(8.44e-06)]_69 chr3R:9701471-9701591 8.14e-02 120 chr2L:13512196-13512316 4.23e-01 120 chr3L:16544395-16544515 8.78e-01 120 chr3R:7108225-7108345 5.33e-02 120 chr3L:10866692-10866812 9.99e-04 94_[+5(5.60e-06)]_18 chr3L:11285124-11285244 4.44e-01 120 chr2L:3012962-3013082 7.44e-02 120 chr3R:11735420-11735540 3.11e-01 120 chr3R:11993212-11993332 9.17e-01 120 chr2R:21909940-21910060 3.97e-02 120 chr3R:27273631-27273751 6.02e-03 62_[+4(9.48e-06)]_50 chr3R:26799006-26799126 6.42e-01 120 chr3R:23817882-23818002 9.58e-02 120 chr3R:30802930-30803050 4.39e-01 120 chr3R:31805425-31805545 3.72e-01 33_[+1(9.07e-05)]_79 chr2R:9577968-9578088 7.02e-01 120 chr2R:13507298-13507418 5.29e-02 120 chr3L:12045513-12045633 5.23e-01 120 chr3L:550519-550639 2.97e-02 56_[+5(5.60e-06)]_56 chr3L:295221-295341 8.95e-01 120 chrX:5671795-5671915 3.48e-01 120 chr2R:11094445-11094565 9.78e-01 120 chr2L:901444-901564 3.75e-01 120 chrX:16651198-16651318 1.87e-01 120 chr3L:15988189-15988309 8.47e-02 120 chrX:17652528-17652648 3.68e-02 53_[+2(9.83e-05)]_59 chrX:19243364-19243484 9.90e-01 120 chr3R:30198951-30199071 6.92e-02 104_[+1(3.81e-05)]_8 chrX:9121012-9121132 2.57e-02 20_[+2(4.88e-05)]_92 chr3R:10696508-10696628 8.58e-01 120 chr3L:1464599-1464719 2.02e-05 76_[+4(6.73e-05)]_1_[+3(5.71e-05)]_\ 19_[+1(5.08e-05)] chr3R:15129293-15129413 4.47e-01 120 chr3L:8584231-8584351 8.43e-01 120 chr2L:15254367-15254487 2.24e-01 120 chr2R:9388714-9388834 9.96e-01 120 chr3L:7243881-7244001 2.45e-01 120 chr3L:199254-199374 1.75e-01 120 chr2L:1651271-1651391 4.74e-02 120 chr3R:26937631-26937751 7.22e-01 120 chr3L:648281-648401 2.80e-01 120 chrX:10326010-10326130 9.90e-01 120 chr3L:9461700-9461820 8.97e-03 120 chr2R:21712047-21712167 4.50e-01 120 chr3L:17007153-17007273 4.94e-01 120 chrX:2443914-2444034 2.80e-02 120 chr3R:26230275-26230395 6.99e-01 120 chr3R:26235126-26235246 9.24e-01 120 chrX:13333042-13333162 9.31e-01 120 chr3L:603905-604025 7.89e-01 120 chr3R:26952315-26952435 7.18e-01 120 chr3R:20263846-20263966 3.65e-04 14_[+4(6.73e-05)]_6_[+5(5.60e-06)]_\ 84 chr3L:3760693-3760813 9.03e-01 120 chr3L:12350470-12350590 1.16e-01 40_[+4(7.66e-05)]_72 chrX:1477009-1477129 9.37e-05 28_[+2(9.83e-05)]_16_[+1(8.44e-06)]_\ 3_[+3(5.33e-05)]_49 chrX:14826087-14826207 2.04e-03 70_[+4(3.34e-05)]_42 chr3L:22277289-22277409 8.88e-01 120 chr3R:6353028-6353148 9.05e-01 120 chr3R:21176913-21177033 7.03e-01 120 chr3L:19092572-19092692 1.16e-02 4_[+2(9.83e-05)]_[+2(1.95e-05)]_100 chr3L:1702647-1702767 7.03e-01 120 chr3L:13411157-13411277 5.98e-02 42_[+4(3.34e-05)]_70 chr2L:10428701-10428821 3.97e-02 107_[+3(1.44e-05)]_5 chr2R:17590732-17590852 8.02e-01 120 chrX:7710910-7711030 2.31e-01 120 chr2R:23180964-23181084 8.11e-02 120 chr2R:21535547-21535667 4.24e-01 120 chrX:18494293-18494413 6.30e-01 120 chr3L:13923457-13923577 9.97e-01 120 chr2R:18829753-18829873 3.31e-01 120 chrX:16103535-16103655 1.00e+00 120 chrX:13845872-13845992 2.74e-01 120 chr3L:16571516-16571636 5.35e-01 120 chr2R:25183098-25183218 8.97e-01 120 chrX:17582784-17582904 7.20e-01 120 chr3R:29891309-29891429 1.77e-01 120 chr3R:6405790-6405910 3.49e-02 24_[+5(1.13e-05)]_88 chr3R:21499623-21499743 2.42e-04 7_[+1(8.44e-06)]_105 chr2L:18688828-18688948 4.10e-02 120 chr3L:13486718-13486838 3.08e-02 120 chr3L:11258549-11258669 8.39e-01 120 chr3R:17539922-17540042 5.51e-03 51_[+1(2.95e-05)]_61 chrX:3068417-3068537 2.60e-02 56_[+4(1.91e-05)]_56 chr2L:9570843-9570963 2.33e-01 120 chr3L:9864483-9864603 1.34e-02 97_[+2(4.88e-05)]_15 chr3L:1376110-1376230 6.74e-01 120 chr2L:5093217-5093337 1.58e-02 96_[+3(7.80e-05)]_16 chr2L:14021834-14021954 3.57e-01 120 chrX:17887222-17887342 2.45e-01 120 chr2R:7699132-7699252 4.62e-01 120 chr2R:12586942-12587062 9.60e-02 109_[+4(4.79e-05)]_3 chr2R:24159379-24159499 2.04e-04 7_[+1(8.44e-06)]_105 chr2R:9103185-9103305 1.33e-02 33_[+1(9.07e-05)]_79 chr3L:17659297-17659417 2.37e-01 120 chrX:3968837-3968957 6.16e-05 80_[+4(9.48e-06)]_12_[+5(5.60e-06)]_\ 12 chr2R:5967736-5967856 2.48e-06 36_[+1(2.95e-05)]_49_[+5(1.13e-05)]_\ 3_[+3(1.44e-05)]_8 chrX:10600660-10600780 9.46e-01 120 chr3L:22065798-22065918 1.25e-01 120 chr2R:17478615-17478735 6.52e-01 120 chr2L:13445640-13445760 5.21e-01 120 chrX:15712527-15712647 6.92e-03 56_[+2(1.95e-05)]_56 chr3L:9446801-9446921 9.43e-02 66_[+4(6.73e-05)]_46 chr3L:3875140-3875260 9.83e-01 120 chr2R:19446243-19446363 1.23e-05 71_[+4(9.48e-06)]_10_[+2(9.83e-05)]_\ 23 chr3R:18298313-18298433 6.06e-01 120 chr2L:3444925-3445045 8.57e-02 120 chrX:12221709-12221829 1.04e-02 22_[+3(5.33e-05)]_56_[+1(5.08e-05)]_\ 26 chr2R:15817108-15817228 6.30e-01 120 chr3R:21273790-21273910 1.38e-04 36_[+1(1.70e-05)]_19_[+2(1.95e-05)]_\ 5_[+2(9.83e-05)]_36 chr2L:7027136-7027256 5.77e-02 24_[+3(1.44e-05)]_88 chr3R:20555163-20555283 9.51e-01 120 chr3L:12081769-12081889 2.76e-01 120 chrX:10587605-10587725 5.76e-01 120 chr2L:1629675-1629795 8.99e-01 120 chrX:16278114-16278234 7.63e-01 120 chr2L:16476558-16476678 6.59e-01 120 chr2L:117858-117978 3.25e-01 120 chr3L:20630804-20630924 9.88e-01 120 chrX:8560331-8560451 8.04e-01 120 chr3R:8819834-8819954 4.25e-01 120 chrX:19643321-19643441 2.84e-02 12_[+1(5.08e-05)]_100 chr2R:17461250-17461370 9.99e-01 120 chr3L:4292256-4292376 7.80e-01 120 chr2R:23970251-23970371 6.08e-01 120 chr2L:6481423-6481543 9.15e-04 26_[+1(8.44e-06)]_86 chr2L:11970994-11971114 3.42e-02 25_[+3(2.20e-05)]_87 chr2L:18377305-18377425 6.03e-01 120 chr2L:10698113-10698233 8.62e-01 120 chr3L:1335569-1335689 2.51e-02 18_[+1(5.95e-05)]_94 chr2R:19127970-19128090 9.30e-01 120 chr2R:24657186-24657306 1.72e-02 82_[+1(1.70e-05)]_30 chr2R:20906663-20906783 3.59e-03 15_[+4(3.34e-05)]_97 chr2L:19140971-19141091 5.76e-01 120 chrX:5285962-5286082 8.67e-01 120 chr3L:5789871-5789991 5.60e-01 120 chr3L:3770975-3771095 5.84e-01 120 chr3R:30052586-30052706 2.42e-03 31_[+3(1.44e-05)]_81 chr3R:26121355-26121475 8.88e-01 120 chr2L:1980802-1980922 2.80e-04 43_[+4(9.48e-06)]_69 chr3L:11790001-11790121 1.79e-01 20_[+2(4.88e-05)]_92 chr2R:8900220-8900340 9.65e-02 15_[+2(9.83e-05)]_97 chr2R:10096793-10096913 1.81e-04 109_[+2(1.95e-05)]_3 chr2L:8528443-8528563 5.28e-03 120 chr3L:6189696-6189816 3.48e-01 120 chr2L:4971460-4971580 1.15e-01 120 chr2L:6797531-6797651 3.38e-01 120 chrX:18370891-18371011 3.61e-02 35_[+2(4.88e-05)]_77 chr3R:15644883-15645003 4.92e-02 107_[+1(5.95e-05)]_5 chr3R:9038851-9038971 3.59e-01 120 chr3L:21821878-21821998 1.68e-01 120 chr3R:27937881-27938001 6.86e-02 [+2(9.83e-05)]_112 chrX:5084742-5084862 3.16e-01 44_[+2(9.83e-05)]_11_[+2(9.83e-05)]_\ 49 chrX:4610560-4610680 2.86e-01 120 chr3L:3896733-3896853 9.63e-01 120 chr2R:22213111-22213231 8.50e-03 68_[+3(5.69e-06)]_44 chr3R:10390916-10391036 1.04e-01 120 chr2L:12003025-12003145 4.16e-02 120 chr2L:6968302-6968422 5.27e-01 120 chr3L:15825721-15825841 9.37e-01 120 chrX:22837473-22837593 4.60e-03 32_[+3(2.20e-05)]_80 chr2R:23574945-23575065 1.47e-01 92_[+1(5.08e-05)]_20 chr3R:9052429-9052549 1.49e-03 102_[+3(3.93e-05)]_10 chr2R:16170804-16170924 7.68e-02 36_[+1(8.44e-06)]_18_[+1(3.81e-05)]_\ 50 chr3L:14336021-14336141 9.00e-01 120 chr3R:29859893-29860013 1.85e-01 81_[+1(3.81e-05)]_31 chr2L:2037579-2037699 4.84e-02 120 chrX:15076057-15076177 6.87e-01 120 chr3L:8720155-8720275 2.69e-02 120 chr3R:19472381-19472501 2.39e-01 120 chr3R:18366461-18366581 9.99e-01 120 chr3L:10745747-10745867 8.83e-01 120 chr2R:13586383-13586503 2.44e-01 18_[+4(5.75e-05)]_94 chr3R:11244073-11244193 1.89e-02 88_[+2(1.95e-05)]_24 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n04.farnam.hpc.yale.internal ********************************************************************************