******************************************************************************** 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/NC2β.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3R:16338532-16338652 1.0000 120 chr3R:29255265-29255385 1.0000 120 chr2L:20148522-20148642 1.0000 120 chrX:5889105-5889225 1.0000 120 chr3L:7243906-7244026 1.0000 120 chr3R:24057251-24057371 1.0000 120 chr2L:5542322-5542442 1.0000 120 chr2L:3029208-3029328 1.0000 120 chr3L:14969365-14969485 1.0000 120 chrX:17229930-17230050 1.0000 120 chr2R:12174241-12174361 1.0000 120 chr2L:901481-901601 1.0000 120 chrX:7579949-7580069 1.0000 120 chr2R:7167926-7168046 1.0000 120 chr2R:6494348-6494468 1.0000 120 chr3L:15336661-15336781 1.0000 120 chr3R:26056476-26056596 1.0000 120 chr2L:8543311-8543431 1.0000 120 chr3R:11581529-11581649 1.0000 120 chr3R:29265240-29265360 1.0000 120 chr3R:23303368-23303488 1.0000 120 chr3L:27267161-27267281 1.0000 120 chr2L:7388210-7388330 1.0000 120 chr3R:10636204-10636324 1.0000 120 chrX:18517552-18517672 1.0000 120 chr3L:9511325-9511445 1.0000 120 chr3R:20548412-20548532 1.0000 120 chrX:19605194-19605314 1.0000 120 chrX:19348971-19349091 1.0000 120 chr2R:25226523-25226643 1.0000 120 chr2L:10276924-10277044 1.0000 120 chr2R:20572560-20572680 1.0000 120 chr2R:5757572-5757692 1.0000 120 chrX:1349404-1349524 1.0000 120 chr2L:18505639-18505759 1.0000 120 chr3L:3978071-3978191 1.0000 120 chr3R:23157773-23157893 1.0000 120 chr3R:21822676-21822796 1.0000 120 chr2R:20976979-20977099 1.0000 120 chr3R:22491442-22491562 1.0000 120 chrX:4939133-4939253 1.0000 120 chrX:10463202-10463322 1.0000 120 chr2L:488356-488476 1.0000 120 chr3L:18272442-18272562 1.0000 120 chr3L:907779-907899 1.0000 120 chr3L:16129526-16129646 1.0000 120 chr3L:14166482-14166602 1.0000 120 chrX:5665934-5666054 1.0000 120 chrX:12249059-12249179 1.0000 120 chr3L:5753072-5753192 1.0000 120 chr2L:1974170-1974290 1.0000 120 chr2L:11338347-11338467 1.0000 120 chr2R:14803522-14803642 1.0000 120 chr3L:21026546-21026666 1.0000 120 chr2R:9207474-9207594 1.0000 120 chrX:14954001-14954121 1.0000 120 chr2R:18172390-18172510 1.0000 120 chrX:17077924-17078044 1.0000 120 chr2L:12546648-12546768 1.0000 120 chrX:21035306-21035426 1.0000 120 chr3R:29868703-29868823 1.0000 120 chrX:17473415-17473535 1.0000 120 chr4:205929-206049 1.0000 120 chr2L:22247703-22247823 1.0000 120 chr2L:10767924-10768044 1.0000 120 chr3L:8405246-8405366 1.0000 120 chr2L:20944412-20944532 1.0000 120 chr2R:7806365-7806485 1.0000 120 chr3R:24589132-24589252 1.0000 120 chr2R:24881599-24881719 1.0000 120 chr3R:8477538-8477658 1.0000 120 chrX:8409245-8409365 1.0000 120 chr3L:20954264-20954384 1.0000 120 chr2R:10238145-10238265 1.0000 120 chrX:2633858-2633978 1.0000 120 chrX:8601285-8601405 1.0000 120 chrX:12631474-12631594 1.0000 120 chr2L:6467660-6467780 1.0000 120 chr3L:16584213-16584333 1.0000 120 chrX:5564008-5564128 1.0000 120 chr2L:18694844-18694964 1.0000 120 chr3R:18283552-18283672 1.0000 120 chr3L:4614040-4614160 1.0000 120 chr2R:16850354-16850474 1.0000 120 chr2L:15057811-15057931 1.0000 120 chr2L:1710333-1710453 1.0000 120 chr3R:9874617-9874737 1.0000 120 chr3R:30789519-30789639 1.0000 120 chrX:11823176-11823296 1.0000 120 chr3L:15563507-15563627 1.0000 120 chrX:16105850-16105970 1.0000 120 chr3L:21533639-21533759 1.0000 120 chr2R:17514155-17514275 1.0000 120 chr2L:16816072-16816192 1.0000 120 chrX:19643307-19643427 1.0000 120 chr3R:15666136-15666256 1.0000 120 chr2R:11469660-11469780 1.0000 120 chr3L:13032311-13032431 1.0000 120 chr2R:22539999-22540119 1.0000 120 chr2R:12274355-12274475 1.0000 120 chr3R:26010783-26010903 1.0000 120 chr3L:3225404-3225524 1.0000 120 chr3R:26912802-26912922 1.0000 120 chr3R:18988171-18988291 1.0000 120 chr2R:10429777-10429897 1.0000 120 chr3L:12606454-12606574 1.0000 120 chr3R:23300734-23300854 1.0000 120 chr3R:7920315-7920435 1.0000 120 chr3R:28845155-28845275 1.0000 120 chr2R:17699149-17699269 1.0000 120 chr3L:21517017-21517137 1.0000 120 chr3R:14657141-14657261 1.0000 120 chr3R:28634958-28635078 1.0000 120 chr3R:31669360-31669480 1.0000 120 chr3R:19648656-19648776 1.0000 120 chr3L:16544370-16544490 1.0000 120 chr2L:11517170-11517290 1.0000 120 chr2R:5967756-5967876 1.0000 120 chr3R:18663625-18663745 1.0000 120 chrX:3136851-3136971 1.0000 120 chr3R:23872868-23872988 1.0000 120 chr2R:21128493-21128613 1.0000 120 chr3L:871931-872051 1.0000 120 chr3R:7082071-7082191 1.0000 120 chr3L:7359903-7360023 1.0000 120 chr3R:30815015-30815135 1.0000 120 chr3L:14559836-14559956 1.0000 120 chr3L:15729479-15729599 1.0000 120 chr2R:21481000-21481120 1.0000 120 chr3L:5152577-5152697 1.0000 120 chr2R:16202857-16202977 1.0000 120 chr2L:12351081-12351201 1.0000 120 chr2L:7037956-7038076 1.0000 120 chrX:11854833-11854953 1.0000 120 chr2R:24669255-24669375 1.0000 120 chr2R:8242633-8242753 1.0000 120 chr4:406967-407087 1.0000 120 chr2R:21535540-21535660 1.0000 120 chrX:13822221-13822341 1.0000 120 chr3L:20432526-20432646 1.0000 120 chr3R:14625630-14625750 1.0000 120 chr3R:6369016-6369136 1.0000 120 chrX:618757-618877 1.0000 120 chrX:2166261-2166381 1.0000 120 chr2L:838136-838256 1.0000 120 chr2R:11541236-11541356 1.0000 120 chr2L:2999173-2999293 1.0000 120 chr3L:21175745-21175865 1.0000 120 chr2R:18609029-18609149 1.0000 120 chr3L:19909369-19909489 1.0000 120 chr2R:16011467-16011587 1.0000 120 chr3L:16768395-16768515 1.0000 120 chr3L:1463727-1463847 1.0000 120 chr2L:22536636-22536756 1.0000 120 chr3L:18398334-18398454 1.0000 120 chrX:13744767-13744887 1.0000 120 chr2L:21344381-21344501 1.0000 120 chr3R:25445648-25445768 1.0000 120 chr3L:19910208-19910328 1.0000 120 chr3R:20276150-20276270 1.0000 120 chr2L:6179131-6179251 1.0000 120 chr3L:11552116-11552236 1.0000 120 chr2R:18660574-18660694 1.0000 120 chr3L:3875134-3875254 1.0000 120 chrX:6279217-6279337 1.0000 120 chr2R:24086456-24086576 1.0000 120 chr3R:14300088-14300208 1.0000 120 chr3R:21850262-21850382 1.0000 120 chr2R:15934710-15934830 1.0000 120 chr2R:12742570-12742690 1.0000 120 chr2R:21323383-21323503 1.0000 120 chr3L:1414151-1414271 1.0000 120 chr3R:8563954-8564074 1.0000 120 chr2R:21713370-21713490 1.0000 120 chr3R:8801347-8801467 1.0000 120 chr2R:9103160-9103280 1.0000 120 chr3R:24226912-24227032 1.0000 120 chr2R:11899439-11899559 1.0000 120 chr2R:21323589-21323709 1.0000 120 chr2R:12593516-12593636 1.0000 120 chr2R:24743668-24743788 1.0000 120 chrX:8560336-8560456 1.0000 120 chr3L:6059224-6059344 1.0000 120 chrX:13128052-13128172 1.0000 120 chrX:7936023-7936143 1.0000 120 chr2R:10645433-10645553 1.0000 120 chrX:19009028-19009148 1.0000 120 chrX:13755347-13755467 1.0000 120 chrX:9319219-9319339 1.0000 120 chr3R:24625543-24625663 1.0000 120 chr3R:10100667-10100787 1.0000 120 chr3R:23760510-23760630 1.0000 120 chr3L:5789873-5789993 1.0000 120 chr3R:22133820-22133940 1.0000 120 chrX:20507889-20508009 1.0000 120 chr2R:9285058-9285178 1.0000 120 chr3R:9039635-9039755 1.0000 120 chr3R:28857401-28857521 1.0000 120 chr2L:1614200-1614320 1.0000 120 chrX:8863468-8863588 1.0000 120 chr3R:27559073-27559193 1.0000 120 chr3R:24870815-24870935 1.0000 120 chr3R:31793804-31793924 1.0000 120 chr2L:8364658-8364778 1.0000 120 chr3L:3896806-3896926 1.0000 120 chrX:15498942-15499062 1.0000 120 chrX:16683899-16684019 1.0000 120 chr3R:19164974-19165094 1.0000 120 chr2R:25011431-25011551 1.0000 120 chr3L:5857071-5857191 1.0000 120 chr2L:18688836-18688956 1.0000 120 chr3L:6752364-6752484 1.0000 120 chrX:3367404-3367524 1.0000 120 chr3R:23733071-23733191 1.0000 120 chr3R:20593032-20593152 1.0000 120 chrX:19308108-19308228 1.0000 120 chr2L:3598654-3598774 1.0000 120 chr3R:25888437-25888557 1.0000 120 chr2R:24965058-24965178 1.0000 120 chr2R:14411663-14411783 1.0000 120 chr2R:21183185-21183305 1.0000 120 chr3R:20948124-20948244 1.0000 120 chr3R:29493414-29493534 1.0000 120 chr3R:25054590-25054710 1.0000 120 chr2R:24943209-24943329 1.0000 120 chr3R:31747516-31747636 1.0000 120 chr2R:12025118-12025238 1.0000 120 chr3L:6606019-6606139 1.0000 120 chr3R:6667392-6667512 1.0000 120 chr3R:21856185-21856305 1.0000 120 chr3L:7249304-7249424 1.0000 120 chr3R:17002380-17002500 1.0000 120 chr3R:13030700-13030820 1.0000 120 chr3L:18242198-18242318 1.0000 120 chr2L:21260971-21261091 1.0000 120 chr2L:827663-827783 1.0000 120 chr3L:1795314-1795434 1.0000 120 chr3L:21445764-21445884 1.0000 120 chr3L:8720181-8720301 1.0000 120 chr3R:21580228-21580348 1.0000 120 chr3L:3165010-3165130 1.0000 120 chr3R:30889119-30889239 1.0000 120 chr2L:1462245-1462365 1.0000 120 chr3R:16069437-16069557 1.0000 120 chr2L:15060726-15060846 1.0000 120 chr3R:10350067-10350187 1.0000 120 chr3R:17682491-17682611 1.0000 120 chr2R:9406914-9407034 1.0000 120 chr3L:1177156-1177276 1.0000 120 chr3R:9510301-9510421 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_NC2β/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/NC2β.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 0.289 C 0.208 G 0.207 T 0.297 Background letter frequencies (from file dataset with add-one prior applied): A 0.289 C 0.208 G 0.207 T 0.297 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GGTCACAC MEME-1 width = 8 sites = 15 llr = 163 E-value = 9.5e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::::a:a: pos.-specific C ::1a:a:a probability G aa1::::: matrix T ::7::::: bits 2.3 ** * * * 2.0 ** * * * 1.8 ** ***** 1.6 ** ***** Relative 1.4 ** ***** Entropy 1.1 ** ***** (15.7 bits) 0.9 ** ***** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGTCACAC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:3896806-3896926 88 9.56e-06 GATCTAGTCC GGTCACAC TGGTGGGTGT chrX:9319219-9319339 17 9.56e-06 GCCGTACCAC GGTCACAC TGACCGATAG chr2R:9103160-9103280 83 9.56e-06 GTGTTGCGGT GGTCACAC TGCGTCGGGG chr2R:21323383-21323503 2 9.56e-06 T GGTCACAC CGATTTTTGG chr3L:19910208-19910328 67 9.56e-06 AAAGCGAAAC GGTCACAC TGGCGACATG chr3L:21175745-21175865 33 9.56e-06 GCCCACGTGC GGTCACAC TGTTTGTAAA chr3L:15729479-15729599 82 9.56e-06 CTGGGTTAAA GGTCACAC GGTGTGTTGT chr3R:7082071-7082191 109 9.56e-06 CGTGACCCTT GGTCACAC TGTA chr2R:7806365-7806485 106 9.56e-06 TGTGGGCCCT GGTCACAC TGCCCGC chr2L:12546648-12546768 26 9.56e-06 CACATATAGC GGTCACAC TATACTGTTC chr2R:12174241-12174361 98 9.56e-06 GGCTAAGTTT GGTCACAC TAGGTTCAAG chr3L:19909369-19909489 83 2.29e-05 GCTCCAAAAG GGGCACAC TATTTTTCTG chr3R:28845155-28845275 69 2.29e-05 CTTAGCAACT GGCCACAC TGCAACGTAT chr3L:16584213-16584333 86 2.29e-05 CCCGTGCGAC GGCCACAC TAGCGCGAAC chr2L:20148522-20148642 33 2.29e-05 CACAGGAGAC GGGCACAC TAATCCCAGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:3896806-3896926 9.6e-06 87_[+1]_25 chrX:9319219-9319339 9.6e-06 16_[+1]_96 chr2R:9103160-9103280 9.6e-06 82_[+1]_30 chr2R:21323383-21323503 9.6e-06 1_[+1]_111 chr3L:19910208-19910328 9.6e-06 66_[+1]_46 chr3L:21175745-21175865 9.6e-06 32_[+1]_80 chr3L:15729479-15729599 9.6e-06 81_[+1]_31 chr3R:7082071-7082191 9.6e-06 108_[+1]_4 chr2R:7806365-7806485 9.6e-06 105_[+1]_7 chr2L:12546648-12546768 9.6e-06 25_[+1]_87 chr2R:12174241-12174361 9.6e-06 97_[+1]_15 chr3L:19909369-19909489 2.3e-05 82_[+1]_30 chr3R:28845155-28845275 2.3e-05 68_[+1]_44 chr3L:16584213-16584333 2.3e-05 85_[+1]_27 chr2L:20148522-20148642 2.3e-05 32_[+1]_80 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTCACAC width=8 seqs=15 chr3L:3896806-3896926 ( 88) GGTCACAC 1 chrX:9319219-9319339 ( 17) GGTCACAC 1 chr2R:9103160-9103280 ( 83) GGTCACAC 1 chr2R:21323383-21323503 ( 2) GGTCACAC 1 chr3L:19910208-19910328 ( 67) GGTCACAC 1 chr3L:21175745-21175865 ( 33) GGTCACAC 1 chr3L:15729479-15729599 ( 82) GGTCACAC 1 chr3R:7082071-7082191 ( 109) GGTCACAC 1 chr2R:7806365-7806485 ( 106) GGTCACAC 1 chr2L:12546648-12546768 ( 26) GGTCACAC 1 chr2R:12174241-12174361 ( 98) GGTCACAC 1 chr3L:19909369-19909489 ( 83) GGGCACAC 1 chr3R:28845155-28845275 ( 69) GGCCACAC 1 chr3L:16584213-16584333 ( 86) GGCCACAC 1 chr2L:20148522-20148642 ( 33) GGGCACAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.5528 E= 9.5e-004 -1055 -1055 227 -1055 -1055 -1055 227 -1055 -1055 -64 -63 131 -1055 226 -1055 -1055 179 -1055 -1055 -1055 -1055 226 -1055 -1055 179 -1055 -1055 -1055 -1055 226 -1055 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 9.5e-004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.133333 0.133333 0.733333 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-1 regular expression -------------------------------------------------------------------------------- GGTCACAC -------------------------------------------------------------------------------- Time 8.44 secs. ******************************************************************************** ******************************************************************************** MOTIF GTGTGACC MEME-2 width = 8 sites = 24 llr = 229 E-value = 6.6e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 Description -------------------------------------------------------------------------------- Simplified A 11:::9:: pos.-specific C ::::::9a probability G 9:a:9::: matrix T :9:a1:1: bits 2.3 * * 2.0 * * 1.8 * ** 1.6 * *** ** Relative 1.4 ******** Entropy 1.1 ******** (13.8 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GTGTGACC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:20593032-20593152 14 9.78e-06 CGCGTGTTTA GTGTGACC TCAGCTGCTT chr3R:24870815-24870935 50 9.78e-06 GCGGCCTGCA GTGTGACC GTACCGCGGC chr3R:27559073-27559193 64 9.78e-06 GTTCGACTCG GTGTGACC GTTCGCAGAA chr2R:9285058-9285178 22 9.78e-06 GTTACAGCCA GTGTGACC GCGCCAGAGT chr3R:24625543-24625663 22 9.78e-06 ACCGTTTGCA GTGTGACC TTATGATGAC chr3L:21517017-21517137 92 9.78e-06 AACACCTACA GTGTGACC AGCGTCTTTG chr3R:26912802-26912922 43 9.78e-06 TGCATCTTCA GTGTGACC GTGTACGTCG chr3L:21533639-21533759 49 9.78e-06 TTTTTCCGCA GTGTGACC AAAGCCATTG chr2L:1710333-1710453 110 9.78e-06 GCTTGAGCCA GTGTGACC ATG chr3L:16584213-16584333 30 9.78e-06 CTGGTACTCG GTGTGACC ATTTTGGAGC chr2R:20976979-20977099 64 9.78e-06 CAAACCTGCA GTGTGACC GCAGCATTGC chr3R:17682491-17682611 5 3.33e-05 AACA GAGTGACC GTGGCGACAT chr2L:15060726-15060846 57 3.33e-05 GAAGTCAACA GTGTTACC GTATTTTAAT chrX:19308108-19308228 100 3.33e-05 GCATTATTCC GTGTTACC ACTGTATTTG chr2L:15057811-15057931 39 3.33e-05 TGATCAATAA GAGTGACC AGGTGGTGGG chr2L:6467660-6467780 88 3.33e-05 CACGCTTCAA GTGTTACC GTAGAGCGGA chr2R:9103160-9103280 53 6.10e-05 ACTAAATGCA ATGTGACC GTGCTGCTGA chr2R:16202857-16202977 23 6.10e-05 TTTTGGGGAA GTGTGATC GTTGGTGGAT chrX:21035306-21035426 32 6.10e-05 TCTTACATTT ATGTGACC CTATCATCAT chr3L:27267161-27267281 77 6.10e-05 CTTGTTTGTC GTGTGATC CAACTCATTG chr2R:18660574-18660694 14 8.18e-05 TTCTTTGCTG GTGTGCCC GTTGCTGGTC chr2R:16011467-16011587 3 8.18e-05 TA GTGGGACC ATAGTCGTGT chr3R:16338532-16338652 48 8.18e-05 TTGTTTGCCA GTGTGGCC GTGCTGCAAA chr3L:871931-872051 109 9.17e-05 gccccgagac ctgtgacc cCGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:20593032-20593152 9.8e-06 13_[+2]_99 chr3R:24870815-24870935 9.8e-06 49_[+2]_63 chr3R:27559073-27559193 9.8e-06 63_[+2]_49 chr2R:9285058-9285178 9.8e-06 21_[+2]_91 chr3R:24625543-24625663 9.8e-06 21_[+2]_91 chr3L:21517017-21517137 9.8e-06 91_[+2]_21 chr3R:26912802-26912922 9.8e-06 42_[+2]_70 chr3L:21533639-21533759 9.8e-06 48_[+2]_64 chr2L:1710333-1710453 9.8e-06 109_[+2]_3 chr3L:16584213-16584333 9.8e-06 29_[+2]_83 chr2R:20976979-20977099 9.8e-06 63_[+2]_49 chr3R:17682491-17682611 3.3e-05 4_[+2]_108 chr2L:15060726-15060846 3.3e-05 56_[+2]_56 chrX:19308108-19308228 3.3e-05 99_[+2]_13 chr2L:15057811-15057931 3.3e-05 38_[+2]_74 chr2L:6467660-6467780 3.3e-05 87_[+2]_25 chr2R:9103160-9103280 6.1e-05 52_[+2]_60 chr2R:16202857-16202977 6.1e-05 22_[+2]_90 chrX:21035306-21035426 6.1e-05 31_[+2]_81 chr3L:27267161-27267281 6.1e-05 76_[+2]_36 chr2R:18660574-18660694 8.2e-05 13_[+2]_99 chr2R:16011467-16011587 8.2e-05 2_[+2]_110 chr3R:16338532-16338652 8.2e-05 47_[+2]_65 chr3L:871931-872051 9.2e-05 108_[+2]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTGTGACC width=8 seqs=24 chr3R:20593032-20593152 ( 14) GTGTGACC 1 chr3R:24870815-24870935 ( 50) GTGTGACC 1 chr3R:27559073-27559193 ( 64) GTGTGACC 1 chr2R:9285058-9285178 ( 22) GTGTGACC 1 chr3R:24625543-24625663 ( 22) GTGTGACC 1 chr3L:21517017-21517137 ( 92) GTGTGACC 1 chr3R:26912802-26912922 ( 43) GTGTGACC 1 chr3L:21533639-21533759 ( 49) GTGTGACC 1 chr2L:1710333-1710453 ( 110) GTGTGACC 1 chr3L:16584213-16584333 ( 30) GTGTGACC 1 chr2R:20976979-20977099 ( 64) GTGTGACC 1 chr3R:17682491-17682611 ( 5) GAGTGACC 1 chr2L:15060726-15060846 ( 57) GTGTTACC 1 chrX:19308108-19308228 ( 100) GTGTTACC 1 chr2L:15057811-15057931 ( 39) GAGTGACC 1 chr2L:6467660-6467780 ( 88) GTGTTACC 1 chr2R:9103160-9103280 ( 53) ATGTGACC 1 chr2R:16202857-16202977 ( 23) GTGTGATC 1 chrX:21035306-21035426 ( 32) ATGTGACC 1 chr3L:27267161-27267281 ( 77) GTGTGATC 1 chr2R:18660574-18660694 ( 14) GTGTGCCC 1 chr2R:16011467-16011587 ( 3) GTGGGACC 1 chr3R:16338532-16338652 ( 48) GTGTGGCC 1 chr3L:871931-872051 ( 109) CTGTGACC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.3 E= 6.6e-003 -179 -232 208 -1123 -179 -1123 -1123 163 -1123 -1123 227 -1123 -1123 -1123 -231 169 -1123 -1123 208 -125 167 -232 -231 -1123 -1123 214 -1123 -183 -1123 226 -1123 -1123 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 6.6e-003 0.083333 0.041667 0.875000 0.000000 0.083333 0.000000 0.000000 0.916667 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.041667 0.958333 0.000000 0.000000 0.875000 0.125000 0.916667 0.041667 0.041667 0.000000 0.000000 0.916667 0.000000 0.083333 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 regular expression -------------------------------------------------------------------------------- GTGTGACC -------------------------------------------------------------------------------- Time 14.75 secs. ******************************************************************************** ******************************************************************************** MOTIF TATCGATR MEME-3 width = 8 sites = 45 llr = 382 E-value = 2.1e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 Description -------------------------------------------------------------------------------- Simplified A 2a:::a:6 pos.-specific C 3::a:::: probability G ::1:a::3 matrix T 6:9:::a2 bits 2.3 ** 2.0 ** 1.8 * **** 1.6 * **** Relative 1.4 ****** Entropy 1.1 ****** (12.2 bits) 0.9 ****** 0.7 ****** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TATCGATA consensus C G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:29493414-29493534 41 2.72e-05 CGTTTATCGA TATCGATA GGCGGGCGAC chr3R:25888437-25888557 83 2.72e-05 ATACAACAAA TATCGATA GATATATACT chrX:16683899-16684019 28 2.72e-05 ATCAAGCACT TATCGATA ACCGTGTGCA chr3R:24625543-24625663 84 2.72e-05 AGCTAAATGT TATCGATA AGCATTTCAG chr2R:11899439-11899559 28 2.72e-05 GGCCGCCGTC TATCGATA GACGCCAGCG chr2R:24086456-24086576 109 2.72e-05 CCAACatcga tatcgata tctg chr2R:18660574-18660694 92 2.72e-05 ACAGCTTACT TATCGATA AAAGTATTTC chr2R:21128493-21128613 65 2.72e-05 AGCGAACACT TATCGATA CGCGGTGATA chr3R:7920315-7920435 113 2.72e-05 CTTTCTAAAA TATCGATA chr2R:16850354-16850474 11 2.72e-05 GGCAGGGATG TATCGATA ACACAAATCA chrX:12631474-12631594 80 2.72e-05 TGCTAGAAAA TATCGATA AGATTGATAT chr3R:11581529-11581649 27 2.72e-05 CTCTACAAAG TATCGATA ACTTCAGCGA chr2R:6494348-6494468 18 2.72e-05 TATTTGGCAC TATCGATA GTTTTTCAGC chr2L:5542322-5542442 18 2.72e-05 ATCGTTAAGT TATCGATA GTTGTGCACA chr3L:1795314-1795434 49 4.67e-05 TCGCGATTTC TATCGATG TCAATCGATT chr3R:31747516-31747636 79 4.67e-05 ATGACGTGGC TATCGATG GACTATGAGT chr3L:6752364-6752484 77 4.67e-05 GCCGCTGATT TATCGATG TCTGCCTTGT chr2R:5967756-5967876 40 4.67e-05 TGTCGATAGT TATCGATG TTGTAAGCTG chr3L:8405246-8405366 43 4.67e-05 CATTTAAGAC TATCGATG TTTTTAGGTT chr2L:10767924-10768044 82 4.67e-05 CTTAGCGAAC TATCGATG TTCGGCTTCT chr3R:17002380-17002500 10 6.58e-05 TGCCACCGC CATCGATA GTTTTCTTAC chr2R:21183185-21183305 86 6.58e-05 TGTTTTGATG CATCGATA ACAACAAAAA chr2R:25011431-25011551 93 6.58e-05 CATATCGATG CATCGATA TGTCGTAGTT chr2R:24743668-24743788 67 6.58e-05 TAACAGAAAA CATCGATA GCGATTTGTG chr3L:20432526-20432646 78 6.58e-05 ATTAATCGAA CATCGATA GTTCAGCCGG chr3L:16129526-16129646 35 6.58e-05 CCAGCAGATA CATCGATA TGTTGACGCA chr3R:9510301-9510421 35 7.95e-05 ACAGCACATT CATCGATG GTTTGATATT chr2R:15934710-15934830 29 7.95e-05 GTCAATGTTT CATCGATG AAATACCAAC chr2R:17514155-17514275 81 7.95e-05 TTTGTGTAAA CATCGATG GTATCGCTGT chrX:5665934-5666054 7 7.95e-05 CACGCA CATCGATG GCAACTCCTT chr3L:3165010-3165130 101 1.06e-04 AACGGAATGC AATCGATA CAAGAAAAAT chr2L:2999173-2999293 54 1.06e-04 GAACACAAAC AATCGATA GTCGACAGCA chr3R:18283552-18283672 90 1.06e-04 GCGAAGAACA AATCGATA GAAACGGCTG chr2R:24965058-24965178 86 1.34e-04 CCGATAGAAC TATCGATT ACTCAGCTCG chr2L:12546648-12546768 93 1.34e-04 TAAATACAAC TATCGATT GTTAAGTTCT chr3R:6369016-6369136 60 1.53e-04 CCTCGGCGGA AATCGATG TGGAATCAGC chr3R:23760510-23760630 102 1.72e-04 AGTCAGCTGT CATCGATT TGTTATCGGT chr2L:8364658-8364778 12 1.91e-04 ACGGGATGCT TAGCGATA TTTTTTTTAA chr3R:17682491-17682611 70 2.05e-04 TTTGGACAAC TAGCGATG ACTCAAGCCG chr3R:14625630-14625750 45 2.05e-04 GGGGCGGCGA TAGCGATG GCCGATAGGC chr2L:7037956-7038076 21 2.18e-04 TATCGGTGCA CAGCGATA GTTTCGACTG chr3L:7249304-7249424 22 2.46e-04 CGACCCTGCC AATCGATT GTTTATATGG chr3R:19648656-19648776 72 2.46e-04 CAATACTAAC AATCGATT ACCTCGACTT chrX:5564008-5564128 106 2.46e-04 ATTTTATCTA AATCGATT TTGTTAA chr3L:9511325-9511445 79 2.46e-04 GCGTACCAAC AATCGATT CAGACCTAAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:29493414-29493534 2.7e-05 40_[+3]_72 chr3R:25888437-25888557 2.7e-05 82_[+3]_30 chrX:16683899-16684019 2.7e-05 27_[+3]_85 chr3R:24625543-24625663 2.7e-05 83_[+3]_29 chr2R:11899439-11899559 2.7e-05 27_[+3]_85 chr2R:24086456-24086576 2.7e-05 108_[+3]_4 chr2R:18660574-18660694 2.7e-05 91_[+3]_21 chr2R:21128493-21128613 2.7e-05 64_[+3]_48 chr3R:7920315-7920435 2.7e-05 112_[+3] chr2R:16850354-16850474 2.7e-05 10_[+3]_102 chrX:12631474-12631594 2.7e-05 79_[+3]_33 chr3R:11581529-11581649 2.7e-05 26_[+3]_86 chr2R:6494348-6494468 2.7e-05 17_[+3]_95 chr2L:5542322-5542442 2.7e-05 17_[+3]_95 chr3L:1795314-1795434 4.7e-05 48_[+3]_64 chr3R:31747516-31747636 4.7e-05 78_[+3]_34 chr3L:6752364-6752484 4.7e-05 76_[+3]_36 chr2R:5967756-5967876 4.7e-05 39_[+3]_73 chr3L:8405246-8405366 4.7e-05 42_[+3]_70 chr2L:10767924-10768044 4.7e-05 81_[+3]_31 chr3R:17002380-17002500 6.6e-05 9_[+3]_103 chr2R:21183185-21183305 6.6e-05 85_[+3]_27 chr2R:25011431-25011551 6.6e-05 92_[+3]_20 chr2R:24743668-24743788 6.6e-05 66_[+3]_46 chr3L:20432526-20432646 6.6e-05 77_[+3]_35 chr3L:16129526-16129646 6.6e-05 34_[+3]_78 chr3R:9510301-9510421 7.9e-05 34_[+3]_78 chr2R:15934710-15934830 7.9e-05 28_[+3]_84 chr2R:17514155-17514275 7.9e-05 80_[+3]_32 chrX:5665934-5666054 7.9e-05 6_[+3]_106 chr3L:3165010-3165130 0.00011 100_[+3]_12 chr2L:2999173-2999293 0.00011 53_[+3]_59 chr3R:18283552-18283672 0.00011 89_[+3]_23 chr2R:24965058-24965178 0.00013 85_[+3]_27 chr2L:12546648-12546768 0.00013 92_[+3]_20 chr3R:6369016-6369136 0.00015 59_[+3]_53 chr3R:23760510-23760630 0.00017 101_[+3]_11 chr2L:8364658-8364778 0.00019 11_[+3]_101 chr3R:17682491-17682611 0.00021 69_[+3]_43 chr3R:14625630-14625750 0.00021 44_[+3]_68 chr2L:7037956-7038076 0.00022 20_[+3]_92 chr3L:7249304-7249424 0.00025 21_[+3]_91 chr3R:19648656-19648776 0.00025 71_[+3]_41 chrX:5564008-5564128 0.00025 105_[+3]_7 chr3L:9511325-9511445 0.00025 78_[+3]_34 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TATCGATR width=8 seqs=45 chr3R:29493414-29493534 ( 41) TATCGATA 1 chr3R:25888437-25888557 ( 83) TATCGATA 1 chrX:16683899-16684019 ( 28) TATCGATA 1 chr3R:24625543-24625663 ( 84) TATCGATA 1 chr2R:11899439-11899559 ( 28) TATCGATA 1 chr2R:24086456-24086576 ( 109) TATCGATA 1 chr2R:18660574-18660694 ( 92) TATCGATA 1 chr2R:21128493-21128613 ( 65) TATCGATA 1 chr3R:7920315-7920435 ( 113) TATCGATA 1 chr2R:16850354-16850474 ( 11) TATCGATA 1 chrX:12631474-12631594 ( 80) TATCGATA 1 chr3R:11581529-11581649 ( 27) TATCGATA 1 chr2R:6494348-6494468 ( 18) TATCGATA 1 chr2L:5542322-5542442 ( 18) TATCGATA 1 chr3L:1795314-1795434 ( 49) TATCGATG 1 chr3R:31747516-31747636 ( 79) TATCGATG 1 chr3L:6752364-6752484 ( 77) TATCGATG 1 chr2R:5967756-5967876 ( 40) TATCGATG 1 chr3L:8405246-8405366 ( 43) TATCGATG 1 chr2L:10767924-10768044 ( 82) TATCGATG 1 chr3R:17002380-17002500 ( 10) CATCGATA 1 chr2R:21183185-21183305 ( 86) CATCGATA 1 chr2R:25011431-25011551 ( 93) CATCGATA 1 chr2R:24743668-24743788 ( 67) CATCGATA 1 chr3L:20432526-20432646 ( 78) CATCGATA 1 chr3L:16129526-16129646 ( 35) CATCGATA 1 chr3R:9510301-9510421 ( 35) CATCGATG 1 chr2R:15934710-15934830 ( 29) CATCGATG 1 chr2R:17514155-17514275 ( 81) CATCGATG 1 chrX:5665934-5666054 ( 7) CATCGATG 1 chr3L:3165010-3165130 ( 101) AATCGATA 1 chr2L:2999173-2999293 ( 54) AATCGATA 1 chr3R:18283552-18283672 ( 90) AATCGATA 1 chr2R:24965058-24965178 ( 86) TATCGATT 1 chr2L:12546648-12546768 ( 93) TATCGATT 1 chr3R:6369016-6369136 ( 60) AATCGATG 1 chr3R:23760510-23760630 ( 102) CATCGATT 1 chr2L:8364658-8364778 ( 12) TAGCGATA 1 chr3R:17682491-17682611 ( 70) TAGCGATG 1 chr3R:14625630-14625750 ( 45) TAGCGATG 1 chr2L:7037956-7038076 ( 21) CAGCGATA 1 chr3L:7249304-7249424 ( 22) AATCGATT 1 chr3R:19648656-19648776 ( 72) AATCGATT 1 chrX:5564008-5564128 ( 106) AATCGATT 1 chr3L:9511325-9511445 ( 79) AATCGATT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.3386 E= 2.1e-006 -70 36 -1214 91 179 -1214 -1214 -1214 -1214 -1214 -122 162 -1214 226 -1214 -1214 -1214 -1214 227 -1214 179 -1214 -1214 -1214 -1214 -1214 -1214 175 94 -1214 48 -93 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 2.1e-006 0.177778 0.266667 0.000000 0.555556 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.088889 0.911111 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 0.555556 0.000000 0.288889 0.155556 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATR MEME-3 regular expression -------------------------------------------------------------------------------- [TC]ATCGAT[AG] -------------------------------------------------------------------------------- Time 21.09 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTGGCGC MEME-4 width = 8 sites = 4 llr = 49 E-value = 9.8e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :::::a:a probability G aa:aa:a: matrix T ::a::::: bits 2.3 ** ***** 2.0 ** ***** 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.1 ******** (17.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGTGGCGC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:10100667-10100787 84 4.88e-06 TTGGCCAGAA GGTGGCGC TCGATGCGAC chr2R:21535540-21535660 63 4.88e-06 ATTTACGCTA GGTGGCGC TTGGCAGGAC chrX:17077924-17078044 65 4.88e-06 GTGGACTCTA GGTGGCGC CCCGTTTGTG chrX:14954001-14954121 86 4.88e-06 ACAACATCCA GGTGGCGC TGTTTTTGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:10100667-10100787 4.9e-06 83_[+4]_29 chr2R:21535540-21535660 4.9e-06 62_[+4]_50 chrX:17077924-17078044 4.9e-06 64_[+4]_48 chrX:14954001-14954121 4.9e-06 85_[+4]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTGGCGC width=8 seqs=4 chr3R:10100667-10100787 ( 84) GGTGGCGC 1 chr2R:21535540-21535660 ( 63) GGTGGCGC 1 chrX:17077924-17078044 ( 65) GGTGGCGC 1 chrX:14954001-14954121 ( 86) GGTGGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.7858 E= 9.8e+003 -865 -865 227 -865 -865 -865 227 -865 -865 -865 -865 175 -865 -865 227 -865 -865 -865 227 -865 -865 226 -865 -865 -865 -865 227 -865 -865 226 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 9.8e+003 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-4 regular expression -------------------------------------------------------------------------------- GGTGGCGC -------------------------------------------------------------------------------- Time 27.23 secs. ******************************************************************************** ******************************************************************************** MOTIF GCAGCAGC MEME-5 width = 8 sites = 4 llr = 48 E-value = 4.5e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::a::a:: pos.-specific C :a::a::a probability G a::a::a: matrix T :::::::: bits 2.3 ** ** ** 2.0 ** ** ** 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.1 ******** (17.2 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCAGCAGC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:7936023-7936143 6 6.67e-06 CAGAG GCAGCAGC TAAAGGGCCA chr2L:7037956-7038076 64 6.67e-06 CATGTGTTGG GCAGCAGC CAATCGAAAT chr3R:23157773-23157893 40 6.67e-06 TGCGAGGAAA GCAGCAGC TTGTTCGTTT chrX:7579949-7580069 107 6.67e-06 TGCCAGCGAA GCAGCAGC GTCAGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:7936023-7936143 6.7e-06 5_[+5]_107 chr2L:7037956-7038076 6.7e-06 63_[+5]_49 chr3R:23157773-23157893 6.7e-06 39_[+5]_73 chrX:7579949-7580069 6.7e-06 106_[+5]_6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCAGCAGC width=8 seqs=4 chrX:7936023-7936143 ( 6) GCAGCAGC 1 chr2L:7037956-7038076 ( 64) GCAGCAGC 1 chr3R:23157773-23157893 ( 40) GCAGCAGC 1 chrX:7579949-7580069 ( 107) GCAGCAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.7858 E= 4.5e+004 -865 -865 227 -865 -865 226 -865 -865 179 -865 -865 -865 -865 -865 227 -865 -865 226 -865 -865 179 -865 -865 -865 -865 -865 227 -865 -865 226 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 4.5e+004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAGCAGC MEME-5 regular expression -------------------------------------------------------------------------------- GCAGCAGC -------------------------------------------------------------------------------- Time 33.54 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:16338532-16338652 1.79e-01 47_[+2(8.18e-05)]_65 chr3R:29255265-29255385 8.00e-01 120 chr2L:20148522-20148642 1.03e-02 32_[+1(2.29e-05)]_80 chrX:5889105-5889225 8.22e-02 120 chr3L:7243906-7244026 3.92e-01 120 chr3R:24057251-24057371 8.74e-01 120 chr2L:5542322-5542442 4.93e-02 17_[+3(2.72e-05)]_95 chr2L:3029208-3029328 7.41e-01 120 chr3L:14969365-14969485 5.25e-01 120 chrX:17229930-17230050 2.90e-01 120 chr2R:12174241-12174361 8.64e-02 97_[+1(9.56e-06)]_15 chr2L:901481-901601 4.62e-01 120 chrX:7579949-7580069 1.53e-02 106_[+5(6.67e-06)]_6 chr2R:7167926-7168046 6.73e-01 120 chr2R:6494348-6494468 9.18e-03 1_[+3(6.58e-05)]_8_[+3(2.72e-05)]_\ 95 chr3L:15336661-15336781 9.45e-02 120 chr3R:26056476-26056596 4.72e-01 120 chr2L:8543311-8543431 4.21e-02 85_[+5(3.95e-05)]_27 chr3R:11581529-11581649 1.31e-01 26_[+3(2.72e-05)]_86 chr3R:29265240-29265360 6.27e-01 120 chr3R:23303368-23303488 9.95e-01 120 chr3L:27267161-27267281 3.86e-01 76_[+2(6.10e-05)]_36 chr2L:7388210-7388330 7.95e-01 120 chr3R:10636204-10636324 6.16e-01 120 chrX:18517552-18517672 1.53e-01 120 chr3L:9511325-9511445 2.92e-01 120 chr3R:20548412-20548532 4.61e-01 120 chrX:19605194-19605314 3.49e-01 120 chrX:19348971-19349091 9.13e-01 120 chr2R:25226523-25226643 7.65e-01 120 chr2L:10276924-10277044 7.65e-01 120 chr2R:20572560-20572680 9.71e-01 120 chr2R:5757572-5757692 7.16e-01 120 chrX:1349404-1349524 9.96e-01 120 chr2L:18505639-18505759 5.22e-01 120 chr3L:3978071-3978191 8.13e-01 120 chr3R:23157773-23157893 2.56e-02 39_[+5(6.67e-06)]_73 chr3R:21822676-21822796 3.53e-01 120 chr2R:20976979-20977099 3.07e-04 63_[+2(9.78e-06)]_49 chr3R:22491442-22491562 1.51e-01 120 chrX:4939133-4939253 8.75e-01 120 chrX:10463202-10463322 3.77e-02 120 chr2L:488356-488476 2.38e-01 120 chr3L:18272442-18272562 9.91e-01 120 chr3L:907779-907899 7.81e-01 120 chr3L:16129526-16129646 2.42e-02 34_[+3(6.58e-05)]_78 chr3L:14166482-14166602 8.88e-01 120 chrX:5665934-5666054 7.08e-02 6_[+3(7.95e-05)]_106 chrX:12249059-12249179 9.63e-01 120 chr3L:5753072-5753192 6.16e-02 120 chr2L:1974170-1974290 3.14e-02 120 chr2L:11338347-11338467 9.83e-01 120 chr2R:14803522-14803642 6.92e-01 120 chr3L:21026546-21026666 5.99e-01 120 chr2R:9207474-9207594 7.80e-01 120 chrX:14954001-14954121 3.21e-02 85_[+4(4.88e-06)]_27 chr2R:18172390-18172510 9.82e-01 120 chrX:17077924-17078044 2.58e-02 64_[+4(4.88e-06)]_48 chr2L:12546648-12546768 1.06e-02 25_[+1(9.56e-06)]_87 chrX:21035306-21035426 6.04e-02 31_[+2(6.10e-05)]_81 chr3R:29868703-29868823 8.85e-01 120 chrX:17473415-17473535 4.23e-01 120 chr4:205929-206049 3.74e-01 120 chr2L:22247703-22247823 9.92e-01 120 chr2L:10767924-10768044 9.39e-02 81_[+3(4.67e-05)]_31 chr3L:8405246-8405366 3.12e-02 42_[+3(4.67e-05)]_70 chr2L:20944412-20944532 7.78e-01 120 chr2R:7806365-7806485 1.27e-02 105_[+1(9.56e-06)]_7 chr3R:24589132-24589252 6.42e-02 120 chr2R:24881599-24881719 3.22e-01 120 chr3R:8477538-8477658 3.31e-01 120 chrX:8409245-8409365 1.39e-02 17_[+1(7.94e-05)]_95 chr3L:20954264-20954384 8.77e-01 120 chr2R:10238145-10238265 3.62e-01 120 chrX:2633858-2633978 7.41e-01 120 chrX:8601285-8601405 6.00e-01 120 chrX:12631474-12631594 1.23e-02 61_[+1(7.94e-05)]_10_[+3(2.72e-05)]_\ 7_[+3(2.72e-05)]_18 chr2L:6467660-6467780 7.34e-02 87_[+2(3.33e-05)]_25 chr3L:16584213-16584333 9.16e-04 29_[+2(9.78e-06)]_48_[+1(2.29e-05)]_\ 27 chrX:5564008-5564128 7.44e-02 120 chr2L:18694844-18694964 7.62e-01 120 chr3R:18283552-18283672 9.40e-03 120 chr3L:4614040-4614160 1.92e-01 120 chr2R:16850354-16850474 4.19e-02 10_[+3(2.72e-05)]_59_[+3(6.58e-05)]_\ 35 chr2L:15057811-15057931 8.64e-03 38_[+2(3.33e-05)]_74 chr2L:1710333-1710453 1.94e-02 109_[+2(9.78e-06)]_3 chr3R:9874617-9874737 7.94e-01 120 chr3R:30789519-30789639 9.30e-01 120 chrX:11823176-11823296 6.94e-01 120 chr3L:15563507-15563627 9.96e-01 120 chrX:16105850-16105970 8.08e-01 120 chr3L:21533639-21533759 5.22e-02 48_[+2(9.78e-06)]_64 chr2R:17514155-17514275 4.99e-02 80_[+3(7.95e-05)]_32 chr2L:16816072-16816192 4.69e-01 120 chrX:19643307-19643427 3.19e-01 120 chr3R:15666136-15666256 1.01e-01 120 chr2R:11469660-11469780 7.48e-01 120 chr3L:13032311-13032431 6.98e-01 120 chr2R:22539999-22540119 7.75e-01 120 chr2R:12274355-12274475 2.03e-03 20_[+5(6.67e-06)]_92 chr3R:26010783-26010903 8.09e-01 120 chr3L:3225404-3225524 4.00e-01 120 chr3R:26912802-26912922 3.61e-02 42_[+2(9.78e-06)]_70 chr3R:18988171-18988291 3.86e-01 120 chr2R:10429777-10429897 6.42e-01 120 chr3L:12606454-12606574 5.37e-01 120 chr3R:23300734-23300854 2.99e-01 120 chr3R:7920315-7920435 1.60e-03 112_[+3(2.72e-05)] chr3R:28845155-28845275 1.06e-01 68_[+1(2.29e-05)]_44 chr2R:17699149-17699269 9.96e-01 120 chr3L:21517017-21517137 1.26e-01 91_[+2(9.78e-06)]_21 chr3R:14657141-14657261 9.98e-01 120 chr3R:28634958-28635078 5.74e-02 120 chr3R:31669360-31669480 1.77e-01 120 chr3R:19648656-19648776 3.78e-01 120 chr3L:16544370-16544490 8.02e-01 120 chr2L:11517170-11517290 2.90e-01 120 chr2R:5967756-5967876 8.67e-02 39_[+3(4.67e-05)]_73 chr3R:18663625-18663745 7.77e-01 120 chrX:3136851-3136971 7.11e-01 120 chr3R:23872868-23872988 4.54e-01 120 chr2R:21128493-21128613 9.38e-02 1_[+3(2.72e-05)]_55_[+3(2.72e-05)]_\ 48 chr3L:871931-872051 1.22e-01 108_[+2(9.17e-05)]_4 chr3R:7082071-7082191 5.12e-03 108_[+1(9.56e-06)]_4 chr3L:7359903-7360023 3.08e-01 120 chr3R:30815015-30815135 9.70e-01 120 chr3L:14559836-14559956 9.79e-01 120 chr3L:15729479-15729599 1.78e-03 81_[+1(9.56e-06)]_31 chr2R:21481000-21481120 8.39e-01 120 chr3L:5152577-5152697 2.61e-01 120 chr2R:16202857-16202977 8.96e-02 22_[+2(6.10e-05)]_90 chr2L:12351081-12351201 8.34e-01 120 chr2L:7037956-7038076 6.48e-03 63_[+5(6.67e-06)]_49 chrX:11854833-11854953 8.40e-01 120 chr2R:24669255-24669375 4.65e-01 120 chr2R:8242633-8242753 7.42e-01 120 chr4:406967-407087 6.80e-01 120 chr2R:21535540-21535660 4.09e-02 62_[+4(4.88e-06)]_50 chrX:13822221-13822341 9.66e-01 120 chr3L:20432526-20432646 1.54e-01 77_[+3(6.58e-05)]_35 chr3R:14625630-14625750 5.70e-02 120 chr3R:6369016-6369136 1.25e-01 120 chrX:618757-618877 2.40e-01 120 chrX:2166261-2166381 8.04e-01 120 chr2L:838136-838256 1.00e+00 120 chr2R:11541236-11541356 8.77e-01 120 chr2L:2999173-2999293 2.60e-01 120 chr3L:21175745-21175865 9.17e-03 32_[+1(9.56e-06)]_80 chr2R:18609029-18609149 8.04e-01 120 chr3L:19909369-19909489 1.80e-02 82_[+1(2.29e-05)]_30 chr2R:16011467-16011587 3.75e-01 2_[+2(8.18e-05)]_110 chr3L:16768395-16768515 9.08e-01 120 chr3L:1463727-1463847 6.82e-01 120 chr2L:22536636-22536756 8.44e-01 120 chr3L:18398334-18398454 2.64e-02 120 chrX:13744767-13744887 9.84e-01 120 chr2L:21344381-21344501 8.15e-01 120 chr3R:25445648-25445768 9.87e-01 120 chr3L:19910208-19910328 1.35e-02 66_[+1(9.56e-06)]_46 chr3R:20276150-20276270 7.74e-01 120 chr2L:6179131-6179251 3.36e-01 120 chr3L:11552116-11552236 3.50e-01 120 chr2R:18660574-18660694 7.09e-03 13_[+2(8.18e-05)]_70_[+3(2.72e-05)]_\ 21 chr3L:3875134-3875254 8.49e-01 120 chrX:6279217-6279337 5.66e-01 120 chr2R:24086456-24086576 2.34e-01 108_[+3(2.72e-05)]_4 chr3R:14300088-14300208 9.31e-01 120 chr3R:21850262-21850382 5.05e-01 120 chr2R:15934710-15934830 1.70e-01 28_[+3(7.95e-05)]_84 chr2R:12742570-12742690 3.36e-01 120 chr2R:21323383-21323503 5.08e-02 1_[+1(9.56e-06)]_111 chr3L:1414151-1414271 1.00e+00 120 chr3R:8563954-8564074 9.60e-01 120 chr2R:21713370-21713490 6.49e-01 120 chr3R:8801347-8801467 6.97e-01 120 chr2R:9103160-9103280 1.08e-03 52_[+2(6.10e-05)]_22_[+1(9.56e-06)]_\ 30 chr3R:24226912-24227032 4.79e-01 120 chr2R:11899439-11899559 1.16e-03 27_[+3(2.72e-05)]_85 chr2R:21323589-21323709 8.21e-01 120 chr2R:12593516-12593636 2.34e-02 80_[+5(3.95e-05)]_32 chr2R:24743668-24743788 3.16e-02 66_[+3(6.58e-05)]_46 chrX:8560336-8560456 9.31e-01 120 chr3L:6059224-6059344 8.27e-01 120 chrX:13128052-13128172 9.02e-01 120 chrX:7936023-7936143 3.59e-03 5_[+5(6.67e-06)]_107 chr2R:10645433-10645553 4.25e-01 120 chrX:19009028-19009148 6.98e-01 120 chrX:13755347-13755467 7.55e-01 120 chrX:9319219-9319339 5.90e-03 16_[+1(9.56e-06)]_96 chr3R:24625543-24625663 4.09e-03 21_[+2(9.78e-06)]_54_[+3(2.72e-05)]_\ 29 chr3R:10100667-10100787 1.51e-02 83_[+4(4.88e-06)]_29 chr3R:23760510-23760630 3.38e-01 120 chr3L:5789873-5789993 5.40e-01 120 chr3R:22133820-22133940 6.81e-01 120 chrX:20507889-20508009 9.29e-01 120 chr2R:9285058-9285178 5.97e-02 21_[+2(9.78e-06)]_91 chr3R:9039635-9039755 6.44e-01 120 chr3R:28857401-28857521 6.69e-01 120 chr2L:1614200-1614320 3.48e-01 120 chrX:8863468-8863588 8.43e-01 120 chr3R:27559073-27559193 3.49e-02 63_[+2(9.78e-06)]_49 chr3R:24870815-24870935 1.21e-02 49_[+2(9.78e-06)]_63 chr3R:31793804-31793924 8.70e-01 120 chr2L:8364658-8364778 4.74e-01 120 chr3L:3896806-3896926 1.77e-02 87_[+1(9.56e-06)]_25 chrX:15498942-15499062 3.61e-01 120 chrX:16683899-16684019 1.42e-01 27_[+3(2.72e-05)]_85 chr3R:19164974-19165094 3.96e-01 120 chr2R:25011431-25011551 3.02e-02 84_[+3(4.67e-05)]_[+3(6.58e-05)]_20 chr3L:5857071-5857191 7.59e-01 120 chr2L:18688836-18688956 6.64e-01 120 chr3L:6752364-6752484 4.18e-02 76_[+3(4.67e-05)]_36 chrX:3367404-3367524 9.92e-01 120 chr3R:23733071-23733191 1.00e+00 120 chr3R:20593032-20593152 1.42e-02 13_[+2(9.78e-06)]_99 chrX:19308108-19308228 1.15e-01 99_[+2(3.33e-05)]_13 chr2L:3598654-3598774 6.21e-01 120 chr3R:25888437-25888557 4.29e-02 67_[+3(6.58e-05)]_7_[+3(2.72e-05)]_\ 30 chr2R:24965058-24965178 4.33e-02 120 chr2R:14411663-14411783 9.98e-01 120 chr2R:21183185-21183305 3.80e-01 85_[+3(6.58e-05)]_27 chr3R:20948124-20948244 9.83e-01 120 chr3R:29493414-29493534 4.70e-03 34_[+3(2.72e-05)]_78 chr3R:25054590-25054710 7.57e-01 120 chr2R:24943209-24943329 9.06e-01 120 chr3R:31747516-31747636 2.57e-04 78_[+3(4.67e-05)]_34 chr2R:12025118-12025238 3.59e-01 120 chr3L:6606019-6606139 3.07e-01 120 chr3R:6667392-6667512 1.30e-01 120 chr3R:21856185-21856305 2.37e-01 120 chr3L:7249304-7249424 1.91e-01 120 chr3R:17002380-17002500 3.76e-02 9_[+3(6.58e-05)]_103 chr3R:13030700-13030820 2.76e-01 120 chr3L:18242198-18242318 9.04e-01 120 chr2L:21260971-21261091 2.19e-01 120 chr2L:827663-827783 9.32e-01 120 chr3L:1795314-1795434 1.06e-01 48_[+3(4.67e-05)]_64 chr3L:21445764-21445884 9.10e-01 120 chr3L:8720181-8720301 5.95e-01 120 chr3R:21580228-21580348 4.30e-01 120 chr3L:3165010-3165130 5.64e-02 120 chr3R:30889119-30889239 1.90e-01 120 chr2L:1462245-1462365 9.98e-01 120 chr3R:16069437-16069557 7.04e-01 120 chr2L:15060726-15060846 5.01e-02 56_[+2(3.33e-05)]_56 chr3R:10350067-10350187 1.69e-01 91_[+1(7.94e-05)]_21 chr3R:17682491-17682611 2.96e-03 4_[+2(3.33e-05)]_108 chr2R:9406914-9407034 3.96e-01 120 chr3L:1177156-1177276 8.69e-02 120 chr3R:9510301-9510421 3.24e-01 34_[+3(7.95e-05)]_78 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n03.farnam.hpc.yale.internal ********************************************************************************