******************************************************************************** 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/CG8944.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:18585088-18585208 1.0000 120 chr3R:28117695-28117815 1.0000 120 chr2R:24292915-24293035 1.0000 120 chr2R:12537625-12537745 1.0000 120 chr2R:7249685-7249805 1.0000 120 chrX:17780405-17780525 1.0000 120 chr3R:21887624-21887744 1.0000 120 chrX:19763582-19763702 1.0000 120 chr2R:8632481-8632601 1.0000 120 chrX:11391674-11391794 1.0000 120 chrX:15739630-15739750 1.0000 120 chr2R:6984052-6984172 1.0000 120 chr2L:1723237-1723357 1.0000 120 chrX:2861080-2861200 1.0000 120 chr3L:3851907-3852027 1.0000 120 chr2L:7332864-7332984 1.0000 120 chr3R:20833889-20834009 1.0000 120 chr3L:779068-779188 1.0000 120 chr3R:13817602-13817722 1.0000 120 chr3R:26010929-26011049 1.0000 120 chr2L:9449043-9449163 1.0000 120 chr3L:19178085-19178205 1.0000 120 chr3R:16309411-16309531 1.0000 120 chrX:15739063-15739183 1.0000 120 chrX:1478393-1478513 1.0000 120 chr2R:21706667-21706787 1.0000 120 chr2R:21910026-21910146 1.0000 120 chr2L:16816090-16816210 1.0000 120 chrX:2166274-2166394 1.0000 120 chr2R:11094301-11094421 1.0000 120 chrX:18837168-18837288 1.0000 120 chrX:20423905-20424025 1.0000 120 chrX:3538879-3538999 1.0000 120 chr2L:15643895-15644015 1.0000 120 chr3R:22886935-22887055 1.0000 120 chr3R:22494709-22494829 1.0000 120 chr3R:26022286-26022406 1.0000 120 chr2L:7266142-7266262 1.0000 120 chrX:618739-618859 1.0000 120 chr2R:18172378-18172498 1.0000 120 chrX:8835306-8835426 1.0000 120 chr3L:1371103-1371223 1.0000 120 chr3L:18622494-18622614 1.0000 120 chrX:21035326-21035446 1.0000 120 chr2L:838169-838289 1.0000 120 chr3L:16149911-16150031 1.0000 120 chr3R:30022662-30022782 1.0000 120 chr2R:17420033-17420153 1.0000 120 chrX:19666015-19666135 1.0000 120 chrX:4498386-4498506 1.0000 120 chr2R:21527401-21527521 1.0000 120 chr3L:21609584-21609704 1.0000 120 chrX:7323793-7323913 1.0000 120 chr2R:22416024-22416144 1.0000 120 chr3R:8524460-8524580 1.0000 120 chr3L:12517748-12517868 1.0000 120 chr3R:17043197-17043317 1.0000 120 chr2R:20590697-20590817 1.0000 120 chr2L:901476-901596 1.0000 120 chrX:8884135-8884255 1.0000 120 chrX:13630446-13630566 1.0000 120 chrX:19839296-19839416 1.0000 120 chrX:9127412-9127532 1.0000 120 chr3L:11304030-11304150 1.0000 120 chr3R:13469387-13469507 1.0000 120 chr2L:17384621-17384741 1.0000 120 chr2L:1071080-1071200 1.0000 120 chr3R:8744406-8744526 1.0000 120 chr2L:20079014-20079134 1.0000 120 chr3R:21408547-21408667 1.0000 120 chrX:6663274-6663394 1.0000 120 chr3R:19491137-19491257 1.0000 120 chr2L:9494870-9494990 1.0000 120 chr2R:25183089-25183209 1.0000 120 chr3L:11358818-11358938 1.0000 120 chr2L:11066121-11066241 1.0000 120 chr3L:3785923-3786043 1.0000 120 chr2L:14123702-14123822 1.0000 120 chrX:6091179-6091299 1.0000 120 chrX:16840021-16840141 1.0000 120 chrX:19495302-19495422 1.0000 120 chr3L:295211-295331 1.0000 120 chr2R:21648220-21648340 1.0000 120 chr3L:8763344-8763464 1.0000 120 chr2R:21535550-21535670 1.0000 120 chr2R:14485264-14485384 1.0000 120 chr3L:17404717-17404837 1.0000 120 chrX:17175911-17176031 1.0000 120 chrX:19009036-19009156 1.0000 120 chr3R:13952450-13952570 1.0000 120 chr2R:9553813-9553933 1.0000 120 chrX:7710888-7711008 1.0000 120 chr3L:14983032-14983152 1.0000 120 chr2R:23668908-23669028 1.0000 120 chr3R:31706354-31706474 1.0000 120 chr2L:1427902-1428022 1.0000 120 chrX:8671531-8671651 1.0000 120 chr2R:14913300-14913420 1.0000 120 chr3L:94181-94301 1.0000 120 chr3L:1464620-1464740 1.0000 120 chr3R:18315374-18315494 1.0000 120 chrX:19348926-19349046 1.0000 120 chr3L:6220389-6220509 1.0000 120 chr3L:16714168-16714288 1.0000 120 chr3L:13845395-13845515 1.0000 120 chr3R:23873017-23873137 1.0000 120 chr2L:5771268-5771388 1.0000 120 chr4:867054-867174 1.0000 120 chr3R:29089747-29089867 1.0000 120 chr3R:12422732-12422852 1.0000 120 chr3R:31053899-31054019 1.0000 120 chr2L:14161010-14161130 1.0000 120 chr2R:23202197-23202317 1.0000 120 chr2R:12274380-12274500 1.0000 120 chr2R:15351255-15351375 1.0000 120 chrX:10600660-10600780 1.0000 120 chr3L:6264573-6264693 1.0000 120 chrX:771799-771919 1.0000 120 chrX:5972181-5972301 1.0000 120 chr2L:12351032-12351152 1.0000 120 chr3R:9055229-9055349 1.0000 120 chr2L:2494650-2494770 1.0000 120 chrX:7901770-7901890 1.0000 120 chr2R:13482382-13482502 1.0000 120 chr3L:5926117-5926237 1.0000 120 chrX:19164976-19165096 1.0000 120 chr2L:11331753-11331873 1.0000 120 chr2R:20906655-20906775 1.0000 120 chrX:6615592-6615712 1.0000 120 chr2L:3587440-3587560 1.0000 120 chr3R:19113987-19114107 1.0000 120 chr2L:1207626-1207746 1.0000 120 chr3R:18366480-18366600 1.0000 120 chr3R:25661568-25661688 1.0000 120 chrX:2720276-2720396 1.0000 120 chr2L:20734272-20734392 1.0000 120 chr2R:22197181-22197301 1.0000 120 chr2R:21514455-21514575 1.0000 120 chr3R:27988934-27989054 1.0000 120 chr2R:9546476-9546596 1.0000 120 chr3R:31060339-31060459 1.0000 120 chr2L:8611009-8611129 1.0000 120 chr3L:13964707-13964827 1.0000 120 chrX:14602695-14602815 1.0000 120 chrX:3714188-3714308 1.0000 120 chrX:18635415-18635535 1.0000 120 chr2R:19968184-19968304 1.0000 120 chr2L:3598644-3598764 1.0000 120 chr2L:14094786-14094906 1.0000 120 chrX:11137702-11137822 1.0000 120 chr2L:18899993-18900113 1.0000 120 chrX:3367409-3367529 1.0000 120 chrX:12221708-12221828 1.0000 120 chr3L:772358-772478 1.0000 120 chrX:15749230-15749350 1.0000 120 chrX:20511604-20511724 1.0000 120 chrX:20631341-20631461 1.0000 120 chr4:671001-671121 1.0000 120 chr3R:16769522-16769642 1.0000 120 chr2R:23176777-23176897 1.0000 120 chr3R:26436690-26436810 1.0000 120 chr3L:745658-745778 1.0000 120 chr3R:8171607-8171727 1.0000 120 chrX:11715482-11715602 1.0000 120 chr2R:23940120-23940240 1.0000 120 chr3L:16544436-16544556 1.0000 120 chr2R:5701883-5702003 1.0000 120 chr2L:3444937-3445057 1.0000 120 chr2R:20832477-20832597 1.0000 120 chr3L:13411149-13411269 1.0000 120 chr3L:4353917-4354037 1.0000 120 chr2L:14245616-14245736 1.0000 120 chr2L:7339704-7339824 1.0000 120 chr3L:4553555-4553675 1.0000 120 chr2L:18688834-18688954 1.0000 120 chr3L:1295777-1295897 1.0000 120 chrX:8491685-8491805 1.0000 120 chr3R:6457120-6457240 1.0000 120 chrX:5671788-5671908 1.0000 120 chrX:17751810-17751930 1.0000 120 chrX:2536243-2536363 1.0000 120 chr3R:30501380-30501500 1.0000 120 chr3L:13929286-13929406 1.0000 120 chrX:6110041-6110161 1.0000 120 chr3R:16748701-16748821 1.0000 120 chr2R:7939082-7939202 1.0000 120 chr2L:7376297-7376417 1.0000 120 chr4:406940-407060 1.0000 120 chr3L:9028186-9028306 1.0000 120 chr2L:16690152-16690272 1.0000 120 chr3L:19294438-19294558 1.0000 120 chrX:16103549-16103669 1.0000 120 chrX:6375847-6375967 1.0000 120 chr2L:14631151-14631271 1.0000 120 chrX:5639230-5639350 1.0000 120 chr2R:18125773-18125893 1.0000 120 chrX:10387794-10387914 1.0000 120 chr3L:3305520-3305640 1.0000 120 chr2R:14411737-14411857 1.0000 120 chr3R:22023323-22023443 1.0000 120 chr3L:9899198-9899318 1.0000 120 chr2R:7699116-7699236 1.0000 120 chr3L:8419149-8419269 1.0000 120 chr2L:7494444-7494564 1.0000 120 chr3R:30812606-30812726 1.0000 120 chr3R:10564390-10564510 1.0000 120 chrX:2136503-2136623 1.0000 120 chr3R:31309434-31309554 1.0000 120 chr3L:15235321-15235441 1.0000 120 chr3L:11540420-11540540 1.0000 120 chrX:11854890-11855010 1.0000 120 chr2L:11829405-11829525 1.0000 120 chr2L:3472390-3472510 1.0000 120 chr3R:18663573-18663693 1.0000 120 chr3R:4775445-4775565 1.0000 120 chr2L:1462253-1462373 1.0000 120 chr3L:5834378-5834498 1.0000 120 chr2R:6707792-6707912 1.0000 120 chrX:3068420-3068540 1.0000 120 chr2R:11738649-11738769 1.0000 120 chr2L:5245698-5245818 1.0000 120 chr3R:23028685-23028805 1.0000 120 chr3R:15792616-15792736 1.0000 120 chr2L:13833119-13833239 1.0000 120 chr3L:6189726-6189846 1.0000 120 chr3L:11403642-11403762 1.0000 120 chr2L:17583125-17583245 1.0000 120 chr3L:18791592-18791712 1.0000 120 chr3L:1350583-1350703 1.0000 120 chrX:19208189-19208309 1.0000 120 chr2L:11206995-11207115 1.0000 120 chr3R:30195723-30195843 1.0000 120 chr3L:4292302-4292422 1.0000 120 chr2R:9989026-9989146 1.0000 120 chr3R:16919254-16919374 1.0000 120 chr3L:8110299-8110419 1.0000 120 chrX:1944325-1944445 1.0000 120 chrX:19770222-19770342 1.0000 120 chr2R:20601177-20601297 1.0000 120 chr3R:10161307-10161427 1.0000 120 chr3R:25054678-25054798 1.0000 120 chr2L:6907792-6907912 1.0000 120 chr2L:15751138-15751258 1.0000 120 chr2L:3477360-3477480 1.0000 120 chr2R:11628145-11628265 1.0000 120 chr2L:20881487-20881607 1.0000 120 chr2L:15248769-15248889 1.0000 120 chr3R:5686493-5686613 1.0000 120 chr3R:16355517-16355637 1.0000 120 chr3L:12037836-12037956 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_CG8944/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/CG8944.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 0.304 C 0.204 G 0.193 T 0.299 Background letter frequencies (from file dataset with add-one prior applied): A 0.304 C 0.204 G 0.193 T 0.299 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GATGGCGC MEME-1 width = 8 sites = 18 llr = 189 E-value = 8.5e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif GATGGCGC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :7:::::: pos.-specific C ::1::a:a probability G a21a8:a: matrix T :18:2::: bits 2.4 * * *** 2.1 * * *** 1.9 * * *** 1.7 * ***** Relative 1.4 * ***** Entropy 1.2 * ***** (15.2 bits) 0.9 * ****** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GATGGCGC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGGCGC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:3472390-3472510 74 5.25e-06 TGCCTGTGCA GATGGCGC CACCATGACG chr3R:16748701-16748821 31 5.25e-06 CGAATCCATA GATGGCGC ATGCAACTCA chrX:18635415-18635535 40 5.25e-06 GTCTTGCATA GATGGCGC ATAAGCTGCA chr2R:20906655-20906775 99 5.25e-06 ACCAACGGTA GATGGCGC CAGTGCAACA chr2R:12274380-12274500 27 5.25e-06 ATTGCCGAAA GATGGCGC CCATGGCGCA chr2L:14161010-14161130 29 5.25e-06 CTCACACAGA GATGGCGC CAACACTTAA chrX:7710888-7711008 79 5.25e-06 TTAAGTCATA GATGGCGC TCGCTGTAAC chr3L:19294438-19294558 67 8.58e-06 ACTCCGCATA GGTGGCGC ATGCCTCTCT chrX:6110041-6110161 61 8.58e-06 GCGGACGCCA GGTGGCGC CACACATGTA chrX:2720276-2720396 17 8.58e-06 ACATTGATAA GGTGGCGC ACGCAGGCTC chr2R:21535550-21535670 53 8.58e-06 ATTTACGCTA GGTGGCGC TTGGCAGGAC chr4:406940-407060 95 1.20e-05 ATTTCCCACA GAGGGCGC CTGTAGTGGT chr3L:11358818-11358938 54 1.20e-05 ACGGCCCACA GAGGGCGC CACCGTGGCC chr3R:16919254-16919374 22 2.01e-05 ACCAACACAA GATGTCGC TCTCCGACAG chrX:17175911-17176031 76 2.01e-05 TAGGTGTCTA GATGTCGC TGTTAACTTG chr3R:19491137-19491257 89 2.01e-05 AATGCCTATA GATGTCGC TAAAAGCGAT chr2L:901476-901596 19 2.58e-05 CAGATGTCGG GACGGCGC GAACGCCATT chr2R:20601177-20601297 31 3.10e-05 CACGTTCTTT GTTGGCGC CTAAAAATGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGGCGC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:3472390-3472510 5.2e-06 73_[+1]_39 chr3R:16748701-16748821 5.2e-06 30_[+1]_82 chrX:18635415-18635535 5.2e-06 39_[+1]_73 chr2R:20906655-20906775 5.2e-06 98_[+1]_14 chr2R:12274380-12274500 5.2e-06 26_[+1]_86 chr2L:14161010-14161130 5.2e-06 28_[+1]_84 chrX:7710888-7711008 5.2e-06 78_[+1]_34 chr3L:19294438-19294558 8.6e-06 66_[+1]_46 chrX:6110041-6110161 8.6e-06 60_[+1]_52 chrX:2720276-2720396 8.6e-06 16_[+1]_96 chr2R:21535550-21535670 8.6e-06 52_[+1]_60 chr4:406940-407060 1.2e-05 94_[+1]_18 chr3L:11358818-11358938 1.2e-05 53_[+1]_59 chr3R:16919254-16919374 2e-05 21_[+1]_91 chrX:17175911-17176031 2e-05 75_[+1]_37 chr3R:19491137-19491257 2e-05 88_[+1]_24 chr2L:901476-901596 2.6e-05 18_[+1]_94 chr2R:20601177-20601297 3.1e-05 30_[+1]_82 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGGCGC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GATGGCGC width=8 seqs=18 chr2L:3472390-3472510 ( 74) GATGGCGC 1 chr3R:16748701-16748821 ( 31) GATGGCGC 1 chrX:18635415-18635535 ( 40) GATGGCGC 1 chr2R:20906655-20906775 ( 99) GATGGCGC 1 chr2R:12274380-12274500 ( 27) GATGGCGC 1 chr2L:14161010-14161130 ( 29) GATGGCGC 1 chrX:7710888-7711008 ( 79) GATGGCGC 1 chr3L:19294438-19294558 ( 67) GGTGGCGC 1 chrX:6110041-6110161 ( 61) GGTGGCGC 1 chrX:2720276-2720396 ( 17) GGTGGCGC 1 chr2R:21535550-21535670 ( 53) GGTGGCGC 1 chr4:406940-407060 ( 95) GAGGGCGC 1 chr3L:11358818-11358938 ( 54) GAGGGCGC 1 chr3R:16919254-16919374 ( 22) GATGTCGC 1 chrX:17175911-17176031 ( 76) GATGTCGC 1 chr3R:19491137-19491257 ( 89) GATGTCGC 1 chr2L:901476-901596 ( 19) GACGGCGC 1 chr2R:20601177-20601297 ( 31) GTTGGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGGCGC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.4072 E= 8.5e-005 -1081 -1081 237 -1081 125 -1081 20 -242 -1081 -187 -80 148 -1081 -1081 237 -1081 -1081 -1081 211 -84 -1081 230 -1081 -1081 -1081 -1081 237 -1081 -1081 230 -1081 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGGCGC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 8.5e-005 0.000000 0.000000 1.000000 0.000000 0.722222 0.000000 0.222222 0.055556 0.000000 0.055556 0.111111 0.833333 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.833333 0.166667 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 GATGGCGC MEME-1 regular expression -------------------------------------------------------------------------------- G[AG]TGGCGC -------------------------------------------------------------------------------- Time 7.35 secs. ******************************************************************************** ******************************************************************************** MOTIF GCYCASTG MEME-2 width = 8 sites = 31 llr = 272 E-value = 5.8e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::1:8::: pos.-specific C :94a:4:: probability G 711:26:a matrix T 3:4:::a: bits 2.4 * * 2.1 * * 1.9 * * * 1.7 * * ** Relative 1.4 ** * *** Entropy 1.2 ** ***** (12.7 bits) 0.9 ** ***** 0.7 ** ***** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCCCAGTG consensus T T C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:10564390-10564510 55 5.55e-06 GTGCGAAAAA GCCCAGTG TGACCATGTA chr2L:3444937-3445057 107 1.37e-05 CACTAGTTTT GCTCAGTG TAAAAA chrX:19164976-19165096 87 1.37e-05 CACTTTTTTT GCTCAGTG CACTTAAACG chrX:1478393-1478513 81 1.37e-05 CCCTTCGAGG GCTCAGTG TAAGCACCGT chr3L:15235321-15235441 71 1.95e-05 TTGCTATTCG GCCCACTG TGCACTGTGG chr2R:14485264-14485384 33 1.95e-05 GCTACAAAAG GCCCACTG GGCGCCCAAA chrX:8884135-8884255 79 1.95e-05 TGCCCACGAG GCCCACTG TCCATGGCTT chrX:8835306-8835426 79 1.95e-05 AGCTGCGTGT GCCCACTG TAGCCGCACA chr3L:19178085-19178205 52 1.95e-05 ATTCACAAAA GCCCACTG AGCACTGAGC chr2R:7939082-7939202 71 2.81e-05 AGGGTTGCCA GCTCACTG CAGTTCGATT chr3L:17404717-17404837 70 2.81e-05 CAGCCGCACG GCTCACTG GGTTTCTTTG chr2R:20832477-20832597 86 3.34e-05 CAGCAACAAA GCGCAGTG TTGTAAAGTG chr2L:3598644-3598764 89 3.34e-05 CACTTTTTTC GCGCAGTG CACAATCCCG chr2L:8611009-8611129 98 3.34e-05 GATATTTTTT GCGCAGTG TACTGGTGTG chr3L:5926117-5926237 98 4.55e-05 CTAATTTTTT TCCCAGTG CACGTGCGCT chr3L:11304030-11304150 69 4.55e-05 GCGACATTTT TCCCAGTG TATGATCTGC chr2R:6984052-6984172 79 4.55e-05 AGCGCAAGTT TCCCAGTG CTTGCATATG chr3L:11540420-11540540 55 5.62e-05 CACTCTGTGA GCTCGGTG GCAGAGTGTC chr3R:22886935-22887055 111 5.62e-05 TATAAATTTC GCTCGGTG CA chr2L:5245698-5245818 17 5.99e-05 CAACAAGTTG GCCCGCTG ATTGCAGCTG chrX:2136503-2136623 12 7.25e-05 CTTTTCTTTT TCTCAGTG TAACGACTAA chrX:771799-771919 56 7.25e-05 TAAAACCAAC TCTCAGTG GACTAAACCT chr3R:28117695-28117815 102 7.25e-05 AAATCATTTC TCTCAGTG CTCTCGCGGA chr2L:1207626-1207746 110 8.16e-05 TCATCCTTGG TCCCACTG TGC chr2R:23176777-23176897 13 8.71e-05 AGTGCCTGCC GCTCGCTG CCTCAATTTC chr3R:31060339-31060459 9 9.87e-05 ACTTGAAC GCACAGTG GAACAAATTC chr2L:1427902-1428022 2 9.87e-05 C GCACAGTG GGACGAAAGT chr2R:8632481-8632601 44 1.12e-04 TACTTTTTTT TCTCACTG TACCATCTCG chr3L:8110299-8110419 43 1.31e-04 CACCTGTCTA GGCCAGTG CTGTGAAGCG chr2L:11829405-11829525 60 1.31e-04 ACGATCGGCT GGCCAGTG TTGGTAAACA chr3R:9055229-9055349 59 1.43e-04 CTCAAACGTG GCGCGCTG GGTATCTTTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:10564390-10564510 5.5e-06 54_[+2]_58 chr2L:3444937-3445057 1.4e-05 106_[+2]_6 chrX:19164976-19165096 1.4e-05 86_[+2]_26 chrX:1478393-1478513 1.4e-05 80_[+2]_32 chr3L:15235321-15235441 2e-05 70_[+2]_42 chr2R:14485264-14485384 2e-05 32_[+2]_80 chrX:8884135-8884255 2e-05 78_[+2]_34 chrX:8835306-8835426 2e-05 78_[+2]_34 chr3L:19178085-19178205 2e-05 51_[+2]_61 chr2R:7939082-7939202 2.8e-05 70_[+2]_42 chr3L:17404717-17404837 2.8e-05 69_[+2]_43 chr2R:20832477-20832597 3.3e-05 85_[+2]_27 chr2L:3598644-3598764 3.3e-05 88_[+2]_24 chr2L:8611009-8611129 3.3e-05 97_[+2]_15 chr3L:5926117-5926237 4.6e-05 97_[+2]_15 chr3L:11304030-11304150 4.6e-05 68_[+2]_44 chr2R:6984052-6984172 4.6e-05 78_[+2]_34 chr3L:11540420-11540540 5.6e-05 54_[+2]_58 chr3R:22886935-22887055 5.6e-05 110_[+2]_2 chr2L:5245698-5245818 6e-05 16_[+2]_96 chrX:2136503-2136623 7.3e-05 11_[+2]_101 chrX:771799-771919 7.3e-05 55_[+2]_57 chr3R:28117695-28117815 7.3e-05 101_[+2]_11 chr2L:1207626-1207746 8.2e-05 109_[+2]_3 chr2R:23176777-23176897 8.7e-05 12_[+2]_100 chr3R:31060339-31060459 9.9e-05 8_[+2]_104 chr2L:1427902-1428022 9.9e-05 1_[+2]_111 chr2R:8632481-8632601 0.00011 43_[+2]_69 chr3L:8110299-8110419 0.00013 42_[+2]_70 chr2L:11829405-11829525 0.00013 59_[+2]_53 chr3R:9055229-9055349 0.00014 58_[+2]_54 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCYCASTG width=8 seqs=31 chr3R:10564390-10564510 ( 55) GCCCAGTG 1 chr2L:3444937-3445057 ( 107) GCTCAGTG 1 chrX:19164976-19165096 ( 87) GCTCAGTG 1 chrX:1478393-1478513 ( 81) GCTCAGTG 1 chr3L:15235321-15235441 ( 71) GCCCACTG 1 chr2R:14485264-14485384 ( 33) GCCCACTG 1 chrX:8884135-8884255 ( 79) GCCCACTG 1 chrX:8835306-8835426 ( 79) GCCCACTG 1 chr3L:19178085-19178205 ( 52) GCCCACTG 1 chr2R:7939082-7939202 ( 71) GCTCACTG 1 chr3L:17404717-17404837 ( 70) GCTCACTG 1 chr2R:20832477-20832597 ( 86) GCGCAGTG 1 chr2L:3598644-3598764 ( 89) GCGCAGTG 1 chr2L:8611009-8611129 ( 98) GCGCAGTG 1 chr3L:5926117-5926237 ( 98) TCCCAGTG 1 chr3L:11304030-11304150 ( 69) TCCCAGTG 1 chr2R:6984052-6984172 ( 79) TCCCAGTG 1 chr3L:11540420-11540540 ( 55) GCTCGGTG 1 chr3R:22886935-22887055 ( 111) GCTCGGTG 1 chr2L:5245698-5245818 ( 17) GCCCGCTG 1 chrX:2136503-2136623 ( 12) TCTCAGTG 1 chrX:771799-771919 ( 56) TCTCAGTG 1 chr3R:28117695-28117815 ( 102) TCTCAGTG 1 chr2L:1207626-1207746 ( 110) TCCCACTG 1 chr2R:23176777-23176897 ( 13) GCTCGCTG 1 chr3R:31060339-31060459 ( 9) GCACAGTG 1 chr2L:1427902-1428022 ( 2) GCACAGTG 1 chr2R:8632481-8632601 ( 44) TCTCACTG 1 chr3L:8110299-8110419 ( 43) GGCCAGTG 1 chr2L:11829405-11829525 ( 60) GGCCAGTG 1 chr3R:9055229-9055349 ( 59) GCGCGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5371 E= 5.8e+000 -1160 -1160 194 -21 -1160 220 -158 -1160 -224 104 -58 37 -1160 230 -1160 -1160 146 -1160 -26 -1160 -1160 93 166 -1160 -1160 -1160 -1160 174 -1160 -1160 237 -1160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 5.8e+000 0.000000 0.000000 0.741935 0.258065 0.000000 0.935484 0.064516 0.000000 0.064516 0.419355 0.129032 0.387097 0.000000 1.000000 0.000000 0.000000 0.838710 0.000000 0.161290 0.000000 0.000000 0.387097 0.612903 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYCASTG MEME-2 regular expression -------------------------------------------------------------------------------- [GT]C[CT]CA[GC]TG -------------------------------------------------------------------------------- Time 13.55 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGCCMYC MEME-3 width = 8 sites = 11 llr = 116 E-value = 1.7e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::61: pos.-specific C :a:aa45a probability G a:a:::1: matrix T ::::::4: bits 2.4 ***** * 2.1 ***** * 1.9 ***** * 1.7 ***** * Relative 1.4 ***** * Entropy 1.2 ***** * (15.3 bits) 0.9 ****** * 0.7 ****** * 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGCCACC consensus CT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:7901770-7901890 28 4.00e-06 AATATCGTTT GCGCCACC ATCCCTGGTC chr2R:12274380-12274500 56 4.00e-06 TAAGGTCAGC GCGCCACC TGGCGACGGC chr3R:30022662-30022782 55 4.00e-06 ATCATCCCTG GCGCCACC TGTAGGCCTT chr2L:15643895-15644015 52 4.00e-06 CGATACACTG GCGCCACC TGCACGTCAA chr2L:16816090-16816210 46 4.00e-06 TCAGTCGATT GCGCCACC TTGTGCGCGA chr3L:6264573-6264693 32 1.25e-05 AGATTTACTG GCGCCATC TAGGGCCTTA chr2L:5771268-5771388 77 1.65e-05 TTCTACAGCA GCGCCCTC TCACAGATTT chr3L:13845395-13845515 28 1.65e-05 TGACACCAAT GCGCCCTC TAGCGAGCTA chr3L:19178085-19178205 109 1.65e-05 TGTACTTCTG GCGCCCTC TGTT chr3L:1464620-1464740 54 2.03e-05 CATGAAAAGA GCGCCAGC CAAGGCACGG chr3R:12422732-12422852 89 3.28e-05 TTTCGAAGTT GCGCCCAC AGCCACACCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:7901770-7901890 4e-06 27_[+3]_85 chr2R:12274380-12274500 4e-06 55_[+3]_57 chr3R:30022662-30022782 4e-06 54_[+3]_58 chr2L:15643895-15644015 4e-06 51_[+3]_61 chr2L:16816090-16816210 4e-06 45_[+3]_67 chr3L:6264573-6264693 1.3e-05 31_[+3]_81 chr2L:5771268-5771388 1.6e-05 76_[+3]_36 chr3L:13845395-13845515 1.6e-05 27_[+3]_85 chr3L:19178085-19178205 1.6e-05 108_[+3]_4 chr3L:1464620-1464740 2e-05 53_[+3]_59 chr3R:12422732-12422852 3.3e-05 88_[+3]_24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGCCMYC width=8 seqs=11 chrX:7901770-7901890 ( 28) GCGCCACC 1 chr2R:12274380-12274500 ( 56) GCGCCACC 1 chr3R:30022662-30022782 ( 55) GCGCCACC 1 chr2L:15643895-15644015 ( 52) GCGCCACC 1 chr2L:16816090-16816210 ( 46) GCGCCACC 1 chr3L:6264573-6264693 ( 32) GCGCCATC 1 chr2L:5771268-5771388 ( 77) GCGCCCTC 1 chr3L:13845395-13845515 ( 28) GCGCCCTC 1 chr3L:19178085-19178205 ( 109) GCGCCCTC 1 chr3L:1464620-1464740 ( 54) GCGCCAGC 1 chr3R:12422732-12422852 ( 89) GCGCCCAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.8783 E= 1.7e+003 -1010 -1010 237 -1010 -1010 229 -1010 -1010 -1010 -1010 237 -1010 -1010 229 -1010 -1010 -1010 229 -1010 -1010 106 84 -1010 -1010 -174 116 -109 28 -1010 229 -1010 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 1.7e+003 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 0.000000 1.000000 0.000000 0.000000 0.636364 0.363636 0.000000 0.000000 0.090909 0.454545 0.090909 0.363636 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCMYC MEME-3 regular expression -------------------------------------------------------------------------------- GCGCC[AC][CT]C -------------------------------------------------------------------------------- Time 19.65 secs. ******************************************************************************** ******************************************************************************** MOTIF CAVCACTG MEME-4 width = 8 sites = 28 llr = 252 E-value = 2.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :54:7::: pos.-specific C a:3a3a:: probability G :24::::a matrix T :3::::a: bits 2.4 * * * * 2.1 * * * * 1.9 * * * * 1.7 * * *** Relative 1.4 * * *** Entropy 1.2 * * *** (13.0 bits) 0.9 * ***** 0.7 * ***** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAACACTG consensus TG C sequence GC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:20734272-20734392 2 8.74e-06 T CAGCACTG TAGCAGCGTT chr3L:1295777-1295897 111 1.80e-05 AGCGATGTCC CACCACTG GA chr3L:3785923-3786043 75 1.80e-05 ATTAGGCAAG CACCACTG TCCGAAAACA chrX:19839296-19839416 54 1.80e-05 TAGGTCGCTT CACCACTG CACTCCCAAT chr3L:9899198-9899318 27 3.17e-05 ATCTATTGGC CAACACTG GCAACCCAAG chr2L:14094786-14094906 75 3.17e-05 TCGTGCTAGC CAACACTG ATATCAGTGC chr3L:11304030-11304150 97 3.17e-05 CCTTAACCCA CAACACTG CCAAACCTGC chr3L:3851907-3852027 26 3.17e-05 CATAACTTGT CAACACTG GAATTGTGGG chr3R:6457120-6457240 29 4.31e-05 CGATGCTATG CAGCCCTG GTAAGGAAAA chr3R:18366480-18366600 102 4.31e-05 CTTTTGTTTC CAGCCCTG CCCAATTTAT chrX:7901770-7901890 66 4.31e-05 ATCGAAAAGC CAGCCCTG CGACGTTGCC chr3R:12422732-12422852 44 4.31e-05 TTGCAGCACG CAGCCCTG GCTTCAAGGG chrX:2136503-2136623 94 5.76e-05 CTTGTTTTAA CTGCACTG CCTACGTCGC chrX:5972181-5972301 105 5.76e-05 ACCCCAACTA CGCCACTG TGTTCAGC chr3R:18315374-18315494 2 5.76e-05 T CTGCACTG GAAAAAATCA chr2L:17384621-17384741 72 5.76e-05 GATTGGCGCG CTGCACTG GAGCTGTGCT chr3R:8524460-8524580 98 5.76e-05 TGCGCACCTA CGCCACTG TATACGTGGT chrX:4498386-4498506 6 5.76e-05 TTCCA CTGCACTG AGCAAAATCA chr3L:19178085-19178205 71 5.76e-05 GCACTGAGCA CTGCACTG AGCTCTCCCC chr3R:31309434-31309554 106 7.25e-05 GTGGTAAATA CGACACTG TGACGCC chr2R:5701883-5702003 110 7.25e-05 AGTTTTCAAG CACCCCTG TGT chr2R:21527401-21527521 6 7.25e-05 TACTT CGACACTG TGAGAAATCG chrX:15739630-15739750 41 7.25e-05 CTGTCGCCGA CGACACTG AAGCGCTTCC chr3L:8110299-8110419 81 8.18e-05 CAGAGCTCGG CAACCCTG CAGCCGTGCG chrX:14602695-14602815 10 8.18e-05 ACATTTCTC CAACCCTG CGACACAGGC chr3L:6220389-6220509 91 9.46e-05 AACCAATTTG CTCCACTG TGCCGCCTCT chr2R:15351255-15351375 58 1.08e-04 AATCTGAACT CTACACTG TGGAATTATT chr3R:15792616-15792736 58 1.18e-04 TTCTACTGAA CGCCCCTG GTTTTGCGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:20734272-20734392 8.7e-06 1_[+4]_111 chr3L:1295777-1295897 1.8e-05 110_[+4]_2 chr3L:3785923-3786043 1.8e-05 74_[+4]_38 chrX:19839296-19839416 1.8e-05 53_[+4]_59 chr3L:9899198-9899318 3.2e-05 26_[+4]_86 chr2L:14094786-14094906 3.2e-05 74_[+4]_38 chr3L:11304030-11304150 3.2e-05 96_[+4]_16 chr3L:3851907-3852027 3.2e-05 25_[+4]_87 chr3R:6457120-6457240 4.3e-05 28_[+4]_84 chr3R:18366480-18366600 4.3e-05 101_[+4]_11 chrX:7901770-7901890 4.3e-05 65_[+4]_47 chr3R:12422732-12422852 4.3e-05 43_[+4]_69 chrX:2136503-2136623 5.8e-05 93_[+4]_19 chrX:5972181-5972301 5.8e-05 104_[+4]_8 chr3R:18315374-18315494 5.8e-05 1_[+4]_111 chr2L:17384621-17384741 5.8e-05 71_[+4]_41 chr3R:8524460-8524580 5.8e-05 97_[+4]_15 chrX:4498386-4498506 5.8e-05 5_[+4]_107 chr3L:19178085-19178205 5.8e-05 70_[+4]_42 chr3R:31309434-31309554 7.3e-05 105_[+4]_7 chr2R:5701883-5702003 7.3e-05 109_[+4]_3 chr2R:21527401-21527521 7.3e-05 5_[+4]_107 chrX:15739630-15739750 7.3e-05 40_[+4]_72 chr3L:8110299-8110419 8.2e-05 80_[+4]_32 chrX:14602695-14602815 8.2e-05 9_[+4]_103 chr3L:6220389-6220509 9.5e-05 90_[+4]_22 chr2R:15351255-15351375 0.00011 57_[+4]_55 chr3R:15792616-15792736 0.00012 57_[+4]_55 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAVCACTG width=8 seqs=28 chr2L:20734272-20734392 ( 2) CAGCACTG 1 chr3L:1295777-1295897 ( 111) CACCACTG 1 chr3L:3785923-3786043 ( 75) CACCACTG 1 chrX:19839296-19839416 ( 54) CACCACTG 1 chr3L:9899198-9899318 ( 27) CAACACTG 1 chr2L:14094786-14094906 ( 75) CAACACTG 1 chr3L:11304030-11304150 ( 97) CAACACTG 1 chr3L:3851907-3852027 ( 26) CAACACTG 1 chr3R:6457120-6457240 ( 29) CAGCCCTG 1 chr3R:18366480-18366600 ( 102) CAGCCCTG 1 chrX:7901770-7901890 ( 66) CAGCCCTG 1 chr3R:12422732-12422852 ( 44) CAGCCCTG 1 chrX:2136503-2136623 ( 94) CTGCACTG 1 chrX:5972181-5972301 ( 105) CGCCACTG 1 chr3R:18315374-18315494 ( 2) CTGCACTG 1 chr2L:17384621-17384741 ( 72) CTGCACTG 1 chr3R:8524460-8524580 ( 98) CGCCACTG 1 chrX:4498386-4498506 ( 6) CTGCACTG 1 chr3L:19178085-19178205 ( 71) CTGCACTG 1 chr3R:31309434-31309554 ( 106) CGACACTG 1 chr2R:5701883-5702003 ( 110) CACCCCTG 1 chr2R:21527401-21527521 ( 6) CGACACTG 1 chrX:15739630-15739750 ( 41) CGACACTG 1 chr3L:8110299-8110419 ( 81) CAACCCTG 1 chrX:14602695-14602815 ( 10) CAACCCTG 1 chr3L:6220389-6220509 ( 91) CTCCACTG 1 chr2R:15351255-15351375 ( 58) CTACACTG 1 chr3R:15792616-15792736 ( 58) CGCCCCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5834 E= 2.1e+001 -1145 230 -1145 -1145 82 -1145 15 -26 23 49 89 -1145 -1145 230 -1145 -1145 123 49 -1145 -1145 -1145 230 -1145 -1145 -1145 -1145 -1145 174 -1145 -1145 237 -1145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 2.1e+001 0.000000 1.000000 0.000000 0.000000 0.535714 0.000000 0.214286 0.250000 0.357143 0.285714 0.357143 0.000000 0.000000 1.000000 0.000000 0.000000 0.714286 0.285714 0.000000 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAVCACTG MEME-4 regular expression -------------------------------------------------------------------------------- C[ATG][AGC]C[AC]CTG -------------------------------------------------------------------------------- Time 25.71 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGGCGGC MEME-5 width = 8 sites = 9 llr = 97 E-value = 5.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::1:::: pos.-specific C :a::9::9 probability G a:99:a81 matrix T ::1:1:2: bits 2.4 ** * 2.1 ** * 1.9 **** * * 1.7 ****** * Relative 1.4 ******** Entropy 1.2 ******** (15.6 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGGCGGC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:16714168-16714288 111 2.27e-06 AGCACCTTTG GCGGCGGC AG chrX:6091179-6091299 29 2.27e-06 CGCGATTAAG GCGGCGGC ACTCCCCCTC chr3L:12517748-12517868 79 2.27e-06 ggcggcagcg gcggcggc ggtggAAACG chrX:6110041-6110161 6 5.80e-06 TATCG GCGGCGTC TCTCGCGAGA chrX:11715482-11715602 23 5.80e-06 GCCAGCGACA GCGGCGTC GTGTCATTAT chr3R:8744406-8744526 111 7.95e-06 ACAAGACCTT GCGGCGGG TT chr2R:22416024-22416144 78 1.13e-05 AGGGTCATCC GCGGTGGC CTCTGCGGTG chr2R:12274380-12274500 66 1.84e-05 GCGCCACCTG GCGACGGC GGCTCGCACC chr3R:8524460-8524580 48 1.84e-05 CTGTGCCTGC GCTGCGGC AGGAATGATG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:16714168-16714288 2.3e-06 110_[+5]_2 chrX:6091179-6091299 2.3e-06 28_[+5]_84 chr3L:12517748-12517868 2.3e-06 78_[+5]_34 chrX:6110041-6110161 5.8e-06 5_[+5]_107 chrX:11715482-11715602 5.8e-06 22_[+5]_90 chr3R:8744406-8744526 7.9e-06 110_[+5]_2 chr2R:22416024-22416144 1.1e-05 77_[+5]_35 chr2R:12274380-12274500 1.8e-05 65_[+5]_47 chr3R:8524460-8524580 1.8e-05 47_[+5]_65 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGGCGGC width=8 seqs=9 chr3L:16714168-16714288 ( 111) GCGGCGGC 1 chrX:6091179-6091299 ( 29) GCGGCGGC 1 chr3L:12517748-12517868 ( 79) GCGGCGGC 1 chrX:6110041-6110161 ( 6) GCGGCGTC 1 chrX:11715482-11715602 ( 23) GCGGCGTC 1 chr3R:8744406-8744526 ( 111) GCGGCGGG 1 chr2R:22416024-22416144 ( 78) GCGGTGGC 1 chr2R:12274380-12274500 ( 66) GCGACGGC 1 chr3R:8524460-8524580 ( 48) GCTGCGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.4638 E= 5.4e+003 -982 -982 237 -982 -982 229 -982 -982 -982 -982 220 -142 -145 -982 220 -982 -982 212 -982 -142 -982 -982 237 -982 -982 -982 201 -43 -982 212 -80 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 5.4e+003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.888889 0.111111 0.111111 0.000000 0.888889 0.000000 0.000000 0.888889 0.000000 0.111111 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.777778 0.222222 0.000000 0.888889 0.111111 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGGCGGC MEME-5 regular expression -------------------------------------------------------------------------------- GCGGCG[GT]C -------------------------------------------------------------------------------- Time 32.15 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:18585088-18585208 2.83e-01 120 chr3R:28117695-28117815 1.85e-01 101_[+2(7.25e-05)]_11 chr2R:24292915-24293035 2.53e-01 120 chr2R:12537625-12537745 8.55e-01 120 chr2R:7249685-7249805 3.65e-02 120 chrX:17780405-17780525 8.00e-01 120 chr3R:21887624-21887744 6.76e-01 120 chrX:19763582-19763702 8.22e-01 120 chr2R:8632481-8632601 7.61e-02 120 chrX:11391674-11391794 5.22e-01 120 chrX:15739630-15739750 9.65e-03 40_[+4(7.25e-05)]_72 chr2R:6984052-6984172 2.30e-01 78_[+2(4.55e-05)]_34 chr2L:1723237-1723357 4.73e-01 120 chrX:2861080-2861200 9.03e-01 120 chr3L:3851907-3852027 4.83e-02 25_[+4(3.17e-05)]_87 chr2L:7332864-7332984 4.64e-01 120 chr3R:20833889-20834009 2.87e-01 120 chr3L:779068-779188 3.36e-01 120 chr3R:13817602-13817722 5.06e-02 120 chr3R:26010929-26011049 3.74e-02 51_[+1(8.15e-05)]_61 chr2L:9449043-9449163 2.58e-01 120 chr3L:19178085-19178205 1.81e-05 51_[+2(1.95e-05)]_11_[+4(5.76e-05)]_\ 14_[+2(4.55e-05)]_8_[+3(1.65e-05)]_4 chr3R:16309411-16309531 8.15e-01 120 chrX:15739063-15739183 9.99e-01 120 chrX:1478393-1478513 5.72e-03 80_[+2(1.37e-05)]_32 chr2R:21706667-21706787 7.34e-01 120 chr2R:21910026-21910146 6.18e-01 120 chr2L:16816090-16816210 2.06e-03 45_[+3(4.00e-06)]_67 chrX:2166274-2166394 4.02e-01 120 chr2R:11094301-11094421 2.33e-01 120 chrX:18837168-18837288 6.67e-01 120 chrX:20423905-20424025 5.14e-01 120 chrX:3538879-3538999 2.95e-01 120 chr2L:15643895-15644015 1.05e-02 51_[+3(4.00e-06)]_61 chr3R:22886935-22887055 2.28e-01 110_[+2(5.62e-05)]_2 chr3R:22494709-22494829 8.43e-01 120 chr3R:26022286-26022406 4.68e-02 120 chr2L:7266142-7266262 9.96e-01 120 chrX:618739-618859 5.79e-01 120 chr2R:18172378-18172498 8.00e-01 120 chrX:8835306-8835426 7.78e-04 69_[+5(7.90e-05)]_1_[+2(1.95e-05)]_\ 34 chr3L:1371103-1371223 7.73e-01 120 chr3L:18622494-18622614 9.69e-01 120 chrX:21035326-21035446 3.02e-01 120 chr2L:838169-838289 9.45e-01 120 chr3L:16149911-16150031 7.28e-01 120 chr3R:30022662-30022782 1.18e-03 54_[+3(4.00e-06)]_58 chr2R:17420033-17420153 7.79e-01 120 chrX:19666015-19666135 1.45e-01 120 chrX:4498386-4498506 1.22e-01 5_[+4(5.76e-05)]_107 chr2R:21527401-21527521 2.47e-01 5_[+4(7.25e-05)]_107 chr3L:21609584-21609704 2.62e-02 120 chrX:7323793-7323913 5.82e-02 120 chr2R:22416024-22416144 7.22e-04 77_[+5(1.13e-05)]_4_[+5(1.13e-05)]_\ 7_[+5(4.78e-05)]_8 chr3R:8524460-8524580 3.30e-04 47_[+5(1.84e-05)]_42_[+4(5.76e-05)]_\ 15 chr3L:12517748-12517868 1.78e-04 24_[+5(2.27e-06)]_43_[+5(2.27e-06)]_\ 37 chr3R:17043197-17043317 9.53e-01 120 chr2R:20590697-20590817 9.99e-01 120 chr2L:901476-901596 2.14e-03 18_[+1(2.58e-05)]_94 chrX:8884135-8884255 2.97e-02 56_[+2(8.16e-05)]_14_[+2(1.95e-05)]_\ 34 chrX:13630446-13630566 7.08e-01 120 chrX:19839296-19839416 7.67e-03 53_[+4(1.80e-05)]_59 chrX:9127412-9127532 3.49e-01 120 chr3L:11304030-11304150 5.20e-03 68_[+2(4.55e-05)]_20_[+4(3.17e-05)]_\ 16 chr3R:13469387-13469507 7.51e-01 120 chr2L:17384621-17384741 2.30e-03 71_[+4(5.76e-05)]_41 chr2L:1071080-1071200 3.66e-01 120 chr3R:8744406-8744526 1.93e-02 110_[+5(7.95e-06)]_2 chr2L:20079014-20079134 7.28e-01 120 chr3R:21408547-21408667 5.13e-02 120 chrX:6663274-6663394 2.31e-01 120 chr3R:19491137-19491257 4.03e-02 88_[+1(2.01e-05)]_24 chr2L:9494870-9494990 7.36e-01 120 chr2R:25183089-25183209 3.73e-01 120 chr3L:11358818-11358938 5.75e-06 57_[+3(4.00e-06)]_55 chr2L:11066121-11066241 1.00e+00 120 chr3L:3785923-3786043 5.79e-02 74_[+4(1.80e-05)]_38 chr2L:14123702-14123822 6.81e-01 120 chrX:6091179-6091299 6.43e-04 28_[+5(2.27e-06)]_84 chrX:16840021-16840141 1.94e-01 120 chrX:19495302-19495422 9.94e-02 120 chr3L:295211-295331 4.34e-01 120 chr2R:21648220-21648340 3.57e-01 120 chr3L:8763344-8763464 1.00e+00 120 chr2R:21535550-21535670 2.80e-03 52_[+1(8.58e-06)]_60 chr2R:14485264-14485384 3.86e-03 32_[+2(1.95e-05)]_80 chr3L:17404717-17404837 1.10e-03 69_[+2(2.81e-05)]_43 chrX:17175911-17176031 4.46e-04 75_[+1(2.01e-05)]_37 chrX:19009036-19009156 7.15e-01 120 chr3R:13952450-13952570 9.90e-01 120 chr2R:9553813-9553933 8.31e-01 120 chrX:7710888-7711008 2.67e-04 78_[+1(5.25e-06)]_34 chr3L:14983032-14983152 8.67e-03 120 chr2R:23668908-23669028 8.19e-02 120 chr3R:31706354-31706474 1.96e-02 120 chr2L:1427902-1428022 1.38e-02 1_[+2(9.87e-05)]_111 chrX:8671531-8671651 7.79e-01 120 chr2R:14913300-14913420 3.42e-01 120 chr3L:94181-94301 3.07e-01 120 chr3L:1464620-1464740 1.80e-02 53_[+3(2.03e-05)]_59 chr3R:18315374-18315494 1.87e-02 1_[+4(5.76e-05)]_111 chrX:19348926-19349046 7.73e-01 120 chr3L:6220389-6220509 1.97e-02 90_[+4(9.46e-05)]_22 chr3L:16714168-16714288 8.05e-04 110_[+5(2.27e-06)]_2 chr3L:13845395-13845515 4.01e-03 27_[+3(1.65e-05)]_85 chr3R:23873017-23873137 8.56e-01 120 chr2L:5771268-5771388 2.26e-02 76_[+3(1.65e-05)]_36 chr4:867054-867174 3.14e-01 120 chr3R:29089747-29089867 3.12e-01 120 chr3R:12422732-12422852 6.79e-04 43_[+4(4.31e-05)]_37_[+3(3.28e-05)]_\ 24 chr3R:31053899-31054019 5.08e-01 120 chr2L:14161010-14161130 7.48e-05 28_[+1(5.25e-06)]_84 chr2R:23202197-23202317 9.90e-01 120 chr2R:12274380-12274500 4.30e-07 26_[+1(5.25e-06)]_21_[+3(4.00e-06)]_\ 2_[+5(1.84e-05)]_47 chr2R:15351255-15351375 3.71e-01 120 chrX:10600660-10600780 2.51e-01 120 chr3L:6264573-6264693 8.48e-03 31_[+3(1.25e-05)]_81 chrX:771799-771919 1.22e-01 55_[+2(7.25e-05)]_57 chrX:5972181-5972301 3.10e-03 104_[+4(5.76e-05)]_8 chr2L:12351032-12351152 9.37e-01 120 chr3R:9055229-9055349 1.68e-02 120 chr2L:2494650-2494770 3.08e-01 120 chrX:7901770-7901890 5.82e-05 27_[+3(4.00e-06)]_30_[+4(4.31e-05)]_\ 47 chr2R:13482382-13482502 5.22e-02 120 chr3L:5926117-5926237 1.66e-01 97_[+2(4.55e-05)]_15 chrX:19164976-19165096 8.52e-02 86_[+2(1.37e-05)]_26 chr2L:11331753-11331873 9.35e-01 120 chr2R:20906655-20906775 3.26e-04 98_[+1(5.25e-06)]_14 chrX:6615592-6615712 9.79e-01 120 chr2L:3587440-3587560 1.00e+00 120 chr3R:19113987-19114107 3.18e-01 120 chr2L:1207626-1207746 2.12e-01 109_[+2(8.16e-05)]_3 chr3R:18366480-18366600 2.63e-01 101_[+4(4.31e-05)]_11 chr3R:25661568-25661688 1.00e+00 120 chrX:2720276-2720396 2.03e-03 16_[+1(8.58e-06)]_96 chr2L:20734272-20734392 5.07e-03 1_[+4(8.74e-06)]_111 chr2R:22197181-22197301 7.69e-01 120 chr2R:21514455-21514575 2.44e-01 120 chr3R:27988934-27989054 1.07e-01 120 chr2R:9546476-9546596 1.15e-01 120 chr3R:31060339-31060459 1.73e-02 8_[+2(9.87e-05)]_104 chr2L:8611009-8611129 1.36e-01 97_[+2(3.34e-05)]_15 chr3L:13964707-13964827 3.39e-01 120 chrX:14602695-14602815 1.25e-02 9_[+4(8.18e-05)]_103 chrX:3714188-3714308 9.88e-01 120 chrX:18635415-18635535 9.15e-03 39_[+1(5.25e-06)]_32_[+1(8.58e-06)]_\ 33 chr2R:19968184-19968304 7.33e-03 120 chr2L:3598644-3598764 1.00e-02 88_[+2(3.34e-05)]_24 chr2L:14094786-14094906 8.41e-03 74_[+4(3.17e-05)]_38 chrX:11137702-11137822 5.34e-01 120 chr2L:18899993-18900113 5.37e-01 120 chrX:3367409-3367529 9.86e-01 120 chrX:12221708-12221828 1.32e-01 120 chr3L:772358-772478 8.62e-01 120 chrX:15749230-15749350 1.22e-01 120 chrX:20511604-20511724 4.64e-01 120 chrX:20631341-20631461 9.39e-01 120 chr4:671001-671121 2.23e-01 120 chr3R:16769522-16769642 9.64e-01 120 chr2R:23176777-23176897 1.06e-01 12_[+2(8.71e-05)]_100 chr3R:26436690-26436810 1.00e+00 120 chr3L:745658-745778 9.30e-01 120 chr3R:8171607-8171727 8.87e-01 120 chrX:11715482-11715602 1.69e-03 22_[+5(5.80e-06)]_90 chr2R:23940120-23940240 6.12e-01 120 chr3L:16544436-16544556 6.07e-01 120 chr2R:5701883-5702003 1.48e-01 109_[+4(7.25e-05)]_3 chr2L:3444937-3445057 1.02e-01 106_[+2(1.37e-05)]_6 chr2R:20832477-20832597 1.15e-02 85_[+2(3.34e-05)]_27 chr3L:13411149-13411269 1.07e-01 120 chr3L:4353917-4354037 1.22e-01 120 chr2L:14245616-14245736 9.71e-01 120 chr2L:7339704-7339824 5.17e-01 120 chr3L:4553555-4553675 9.94e-01 120 chr2L:18688834-18688954 3.09e-01 120 chr3L:1295777-1295897 6.59e-04 101_[+5(9.51e-05)]_1_[+4(1.80e-05)]_\ 2 chrX:8491685-8491805 7.04e-01 120 chr3R:6457120-6457240 5.37e-03 28_[+4(4.31e-05)]_12_[+5(9.51e-05)]_\ 64 chrX:5671788-5671908 3.86e-02 120 chrX:17751810-17751930 2.11e-02 120 chrX:2536243-2536363 4.05e-01 120 chr3R:30501380-30501500 4.78e-01 120 chr3L:13929286-13929406 7.35e-01 120 chrX:6110041-6110161 2.36e-06 5_[+5(5.80e-06)]_47_[+1(8.58e-06)]_\ 52 chr3R:16748701-16748821 1.37e-03 30_[+1(5.25e-06)]_82 chr2R:7939082-7939202 4.87e-02 70_[+2(2.81e-05)]_42 chr2L:7376297-7376417 1.00e+00 120 chr4:406940-407060 2.78e-02 37_[+1(2.01e-05)]_49_[+1(1.20e-05)]_\ 18 chr3L:9028186-9028306 9.33e-01 120 chr2L:16690152-16690272 8.74e-01 120 chr3L:19294438-19294558 1.83e-02 66_[+1(8.58e-06)]_46 chrX:16103549-16103669 7.62e-01 120 chrX:6375847-6375967 4.46e-01 120 chr2L:14631151-14631271 1.00e+00 120 chrX:5639230-5639350 5.92e-01 120 chr2R:18125773-18125893 3.36e-02 120 chrX:10387794-10387914 9.47e-01 120 chr3L:3305520-3305640 2.84e-02 91_[+1(8.15e-05)]_21 chr2R:14411737-14411857 4.96e-01 120 chr3R:22023323-22023443 5.87e-01 120 chr3L:9899198-9899318 9.65e-02 26_[+4(3.17e-05)]_86 chr2R:7699116-7699236 6.61e-01 120 chr3L:8419149-8419269 6.71e-01 120 chr2L:7494444-7494564 6.96e-01 120 chr3R:30812606-30812726 9.75e-01 120 chr3R:10564390-10564510 4.58e-02 54_[+2(5.55e-06)]_58 chrX:2136503-2136623 3.91e-04 11_[+2(7.25e-05)]_74_[+4(5.76e-05)]_\ 19 chr3R:31309434-31309554 1.06e-01 105_[+4(7.25e-05)]_7 chr3L:15235321-15235441 1.50e-02 70_[+2(1.95e-05)]_42 chr3L:11540420-11540540 1.90e-03 54_[+2(5.62e-05)]_58 chrX:11854890-11855010 5.57e-02 120 chr2L:11829405-11829525 2.31e-02 120 chr2L:3472390-3472510 9.07e-06 25_[+1(5.25e-06)]_44_[+3(4.00e-06)]_\ 35 chr3R:18663573-18663693 1.00e+00 120 chr3R:4775445-4775565 4.81e-01 120 chr2L:1462253-1462373 1.00e+00 120 chr3L:5834378-5834498 9.46e-01 120 chr2R:6707792-6707912 1.34e-02 120 chrX:3068420-3068540 4.16e-01 120 chr2R:11738649-11738769 9.96e-01 120 chr2L:5245698-5245818 3.92e-02 16_[+2(5.99e-05)]_96 chr3R:23028685-23028805 9.61e-01 120 chr3R:15792616-15792736 1.38e-03 72_[+1(6.39e-05)]_40 chr2L:13833119-13833239 9.65e-01 120 chr3L:6189726-6189846 2.41e-01 120 chr3L:11403642-11403762 2.13e-01 120 chr2L:17583125-17583245 9.95e-01 120 chr3L:18791592-18791712 1.12e-02 120 chr3L:1350583-1350703 3.96e-01 120 chrX:19208189-19208309 7.07e-02 120 chr2L:11206995-11207115 7.31e-01 120 chr3R:30195723-30195843 3.48e-01 120 chr3L:4292302-4292422 9.94e-01 120 chr2R:9989026-9989146 3.15e-01 120 chr3R:16919254-16919374 1.31e-02 21_[+1(2.01e-05)]_91 chr3L:8110299-8110419 8.88e-03 80_[+4(8.18e-05)]_32 chrX:1944325-1944445 3.49e-01 120 chrX:19770222-19770342 9.57e-01 120 chr2R:20601177-20601297 3.33e-02 30_[+1(3.10e-05)]_82 chr3R:10161307-10161427 1.62e-01 120 chr3R:25054678-25054798 7.98e-01 120 chr2L:6907792-6907912 6.75e-01 120 chr2L:15751138-15751258 7.11e-01 120 chr2L:3477360-3477480 9.85e-01 120 chr2R:11628145-11628265 2.03e-03 33_[+1(9.04e-05)]_79 chr2L:20881487-20881607 9.64e-01 120 chr2L:15248769-15248889 4.87e-01 120 chr3R:5686493-5686613 9.35e-01 120 chr3R:16355517-16355637 4.38e-02 120 chr3L:12037836-12037956 7.14e-03 14_[+1(4.70e-05)]_98 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n05.farnam.hpc.yale.internal ********************************************************************************