******************************************************************************** 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/CG12942.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3L:5365296-5365416 1.0000 120 chr2R:10899132-10899252 1.0000 120 chr3R:5636895-5637015 1.0000 120 chr2L:3444931-3445051 1.0000 120 chr2L:3507602-3507722 1.0000 120 chr2R:15322285-15322405 1.0000 120 chr3L:5926153-5926273 1.0000 120 chr3L:25115959-25116079 1.0000 120 chr3R:22664406-22664526 1.0000 120 chr2R:14488429-14488549 1.0000 120 chr2L:10239267-10239387 1.0000 120 chr2R:20327022-20327142 1.0000 120 chr2R:1345174-1345294 1.0000 120 chr3R:9701456-9701576 1.0000 120 chr2R:7972231-7972351 1.0000 120 chr2L:23512762-23512882 1.0000 120 chrX:20506068-20506188 1.0000 120 chr3L:11074547-11074667 1.0000 120 chr2L:18484819-18484939 1.0000 120 chr2L:20097247-20097367 1.0000 120 chr2R:5122232-5122352 1.0000 120 chr2L:14094782-14094902 1.0000 120 chr2L:3477378-3477498 1.0000 120 chrX:3109035-3109155 1.0000 120 chr2R:20257435-20257555 1.0000 120 chr2L:16476618-16476738 1.0000 120 chr2L:12063241-12063361 1.0000 120 chr3R:10681748-10681868 1.0000 120 chr2L:8528480-8528600 1.0000 120 chr2R:6656350-6656470 1.0000 120 chr2L:827640-827760 1.0000 120 chrX:8125232-8125352 1.0000 120 chrX:9352854-9352974 1.0000 120 chrX:3968814-3968934 1.0000 120 chr3R:14729327-14729447 1.0000 120 chr3L:18784711-18784831 1.0000 120 chr2R:17870014-17870134 1.0000 120 chr3L:27267134-27267254 1.0000 120 chr2R:17469470-17469590 1.0000 120 chr3L:1534253-1534373 1.0000 120 chrX:5966125-5966245 1.0000 120 chr2R:24132848-24132968 1.0000 120 chr2R:20319537-20319657 1.0000 120 chr3L:15563053-15563173 1.0000 120 chr3L:16544332-16544452 1.0000 120 chr2L:13838816-13838936 1.0000 120 chr3L:7367875-7367995 1.0000 120 chr2R:20906654-20906774 1.0000 120 chrX:17820345-17820465 1.0000 120 chr2R:20126345-20126465 1.0000 120 chr3R:9759548-9759668 1.0000 120 chrX:1370173-1370293 1.0000 120 chrX:5329491-5329611 1.0000 120 chr3L:3814694-3814814 1.0000 120 chr3R:19875676-19875796 1.0000 120 chrX:7968371-7968491 1.0000 120 chr2L:15751128-15751248 1.0000 120 chr2R:23567411-23567531 1.0000 120 chr2R:11738698-11738818 1.0000 120 chr2R:7076990-7077110 1.0000 120 chr3L:22163888-22164008 1.0000 120 chr2L:14499290-14499410 1.0000 120 chr2R:13475066-13475186 1.0000 120 chr3L:2372015-2372135 1.0000 120 chr3L:9838663-9838783 1.0000 120 chr3R:6504545-6504665 1.0000 120 chrX:20507850-20507970 1.0000 120 chr2R:11435222-11435342 1.0000 120 chr3L:6817075-6817195 1.0000 120 chr2L:11331833-11331953 1.0000 120 chr2R:21709662-21709782 1.0000 120 chr3L:18114173-18114293 1.0000 120 chr2L:19517470-19517590 1.0000 120 chrX:9193707-9193827 1.0000 120 chr3R:28857363-28857483 1.0000 120 chr3L:20471114-20471234 1.0000 120 chr2R:24046823-24046943 1.0000 120 chr2R:14971203-14971323 1.0000 120 chr3L:16779744-16779864 1.0000 120 chrX:618741-618861 1.0000 120 chr3R:13644717-13644837 1.0000 120 chr3R:23293482-23293602 1.0000 120 chr3R:22039600-22039720 1.0000 120 chr3R:15837203-15837323 1.0000 120 chr3L:10661124-10661244 1.0000 120 chr3L:11993128-11993248 1.0000 120 chr3R:28590698-28590818 1.0000 120 chr3R:17680850-17680970 1.0000 120 chr2R:16178667-16178787 1.0000 120 chrX:10086333-10086453 1.0000 120 chr4:1051403-1051523 1.0000 120 chr3R:25004887-25005007 1.0000 120 chrX:7617075-7617195 1.0000 120 chr3R:24010964-24011084 1.0000 120 chr2R:14618614-14618734 1.0000 120 chr3L:20771146-20771266 1.0000 120 chr2L:15248768-15248888 1.0000 120 chr2R:5128298-5128418 1.0000 120 chrX:12595827-12595947 1.0000 120 chr3R:18393522-18393642 1.0000 120 chr3L:14031762-14031882 1.0000 120 chr2R:8615333-8615453 1.0000 120 chr2R:9286623-9286743 1.0000 120 chr3L:4313412-4313532 1.0000 120 chr3L:13929237-13929357 1.0000 120 chr3R:25445635-25445755 1.0000 120 chr3R:8563951-8564071 1.0000 120 chr3R:31169086-31169206 1.0000 120 chrX:1880326-1880446 1.0000 120 chr2R:16202872-16202992 1.0000 120 chr3R:18366390-18366510 1.0000 120 chr2L:21149207-21149327 1.0000 120 chr2R:18528515-18528635 1.0000 120 chr2R:18829763-18829883 1.0000 120 chr3R:19031253-19031373 1.0000 120 chr2L:7027194-7027314 1.0000 120 chr3R:17584183-17584303 1.0000 120 chr3R:18906482-18906602 1.0000 120 chr2L:3852322-3852442 1.0000 120 chr3R:15792583-15792703 1.0000 120 chrX:3431762-3431882 1.0000 120 chr2L:21163528-21163648 1.0000 120 chr3R:27273645-27273765 1.0000 120 chr3L:20944302-20944422 1.0000 120 chr3R:9370615-9370735 1.0000 120 chr3R:30305028-30305148 1.0000 120 chr2L:11829356-11829476 1.0000 120 chr4:867063-867183 1.0000 120 chr2L:14519424-14519544 1.0000 120 chr2L:20416814-20416934 1.0000 120 chr2L:12372622-12372742 1.0000 120 chr3L:5554526-5554646 1.0000 120 chr3L:6264607-6264727 1.0000 120 chr2L:5543220-5543340 1.0000 120 chrX:12242477-12242597 1.0000 120 chr3L:9066176-9066296 1.0000 120 chr3L:12336375-12336495 1.0000 120 chr2R:8914031-8914151 1.0000 120 chr2L:5043928-5044048 1.0000 120 chrX:9356387-9356507 1.0000 120 chr3L:16571549-16571669 1.0000 120 chr3L:17016033-17016153 1.0000 120 chr3L:15715886-15716006 1.0000 120 chrX:2536258-2536378 1.0000 120 chr3L:17496966-17497086 1.0000 120 chr2R:15201335-15201455 1.0000 120 chr3R:19023998-19024118 1.0000 120 chr3L:12644490-12644610 1.0000 120 chr3R:22596629-22596749 1.0000 120 chr2L:1462222-1462342 1.0000 120 chr2R:11359194-11359314 1.0000 120 chr2L:7426554-7426674 1.0000 120 chr2L:20649973-20650093 1.0000 120 chr2L:10856625-10856745 1.0000 120 chr2R:21507960-21508080 1.0000 120 chr2R:12337708-12337828 1.0000 120 chr2L:21143037-21143157 1.0000 120 chr3L:5185303-5185423 1.0000 120 chr3R:20588534-20588654 1.0000 120 chrX:13335002-13335122 1.0000 120 chr2R:15114529-15114649 1.0000 120 chr3R:8960437-8960557 1.0000 120 chr2L:3003475-3003595 1.0000 120 chr2R:11095308-11095428 1.0000 120 chrX:4930127-4930247 1.0000 120 chr3R:30797438-30797558 1.0000 120 chrX:20394193-20394313 1.0000 120 chr2L:4440991-4441111 1.0000 120 chr3R:16210066-16210186 1.0000 120 chr2R:9686023-9686143 1.0000 120 chrX:7728347-7728467 1.0000 120 chr3R:12433930-12434050 1.0000 120 chr3R:15676356-15676476 1.0000 120 chr3R:26130683-26130803 1.0000 120 chr3R:21151496-21151616 1.0000 120 chr2L:9938695-9938815 1.0000 120 chrX:2149657-2149777 1.0000 120 chr3L:557387-557507 1.0000 120 chr3R:30413916-30414036 1.0000 120 chr3R:24917943-24918063 1.0000 120 chr3R:9555409-9555529 1.0000 120 chrX:17751843-17751963 1.0000 120 chr2R:23898353-23898473 1.0000 120 chr3L:11206053-11206173 1.0000 120 chr2R:18676469-18676589 1.0000 120 chr3R:9791231-9791351 1.0000 120 chrX:21241987-21242107 1.0000 120 chrX:11695002-11695122 1.0000 120 chr2R:9006910-9007030 1.0000 120 chr2R:14910014-14910134 1.0000 120 chrX:8892732-8892852 1.0000 120 chr3L:19834267-19834387 1.0000 120 chr3R:12722646-12722766 1.0000 120 chr2L:10858220-10858340 1.0000 120 chr3R:14609340-14609460 1.0000 120 chr2L:16709761-16709881 1.0000 120 chr2R:12878791-12878911 1.0000 120 chr3L:9859748-9859868 1.0000 120 chr2L:16487714-16487834 1.0000 120 chrX:12909651-12909771 1.0000 120 chr2L:18305229-18305349 1.0000 120 chr3L:3852948-3853068 1.0000 120 chr3R:30532112-30532232 1.0000 120 chr3R:30195725-30195845 1.0000 120 chr2R:7466710-7466830 1.0000 120 chr3R:24830034-24830154 1.0000 120 chr3R:17151761-17151881 1.0000 120 chr2R:15931977-15932097 1.0000 120 chr2R:6017601-6017721 1.0000 120 chr2R:23940167-23940287 1.0000 120 chr3R:15145590-15145710 1.0000 120 chrX:15615528-15615648 1.0000 120 chr2L:13073917-13074037 1.0000 120 chrX:12469877-12469997 1.0000 120 chrX:15599800-15599920 1.0000 120 chr3R:21101991-21102111 1.0000 120 chr3L:7151943-7152063 1.0000 120 chr3L:9435504-9435624 1.0000 120 chr2L:5045225-5045345 1.0000 120 chr3R:16250575-16250695 1.0000 120 chr3L:642621-642741 1.0000 120 chr3L:21418042-21418162 1.0000 120 chr3R:15794509-15794629 1.0000 120 chr2R:18147959-18148079 1.0000 120 chr3L:3665481-3665601 1.0000 120 chrX:9650221-9650341 1.0000 120 chr3R:25039123-25039243 1.0000 120 chrX:3476145-3476265 1.0000 120 chr2R:22670640-22670760 1.0000 120 chr2R:8901317-8901437 1.0000 120 chr3R:11674159-11674279 1.0000 120 chr3L:17476084-17476204 1.0000 120 chr3L:12277484-12277604 1.0000 120 chr2L:16317922-16318042 1.0000 120 chr2R:18440806-18440926 1.0000 120 chr2R:9440431-9440551 1.0000 120 chr2L:3813411-3813531 1.0000 120 chr2L:5238350-5238470 1.0000 120 chr2L:3533292-3533412 1.0000 120 chr2R:14906626-14906746 1.0000 120 chr3L:14708163-14708283 1.0000 120 chr2R:15848059-15848179 1.0000 120 chr2R:13990734-13990854 1.0000 120 chr3R:27209131-27209251 1.0000 120 chr2R:13198349-13198469 1.0000 120 chr2L:3872458-3872578 1.0000 120 chr3R:29997708-29997828 1.0000 120 chrX:6803555-6803675 1.0000 120 chr3R:10675261-10675381 1.0000 120 chrX:1944306-1944426 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_CG12942/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/CG12942.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 0.326 C 0.175 G 0.178 T 0.32 Background letter frequencies (from file dataset with add-one prior applied): A 0.326 C 0.175 G 0.178 T 0.32 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GCMGCSYG MEME-1 width = 8 sites = 36 llr = 311 E-value = 1.8e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::5:::1: pos.-specific C :a3:7342 probability G a::a:518 matrix T ::2:324: bits 2.5 ** * 2.3 ** * 2.0 ** * 1.8 ** * * Relative 1.5 ** * * Entropy 1.3 ** ** * (12.5 bits) 1.0 ** *** * 0.8 ** *** * 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCAGCGTG consensus C TCC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:8901317-8901437 90 9.42e-07 CCGAACTATC GCCGCGCG GCACATCACT chr2R:6656350-6656470 27 9.42e-07 AAATGCCGAT GCCGCGCG CTGTTGTCCA chr2L:7027194-7027314 65 5.34e-06 GTGTGTGGCC GCCGCCCG CGTTTCCCTG chr3R:26130683-26130803 37 1.03e-05 TGGCTCACAC GCAGCCCG ACCATAAAGT chr2L:5543220-5543340 101 1.03e-05 CATTTGTCTT GCAGCGTG AACATGTCGA chr2L:11829356-11829476 80 1.03e-05 TTACCATTGC GCAGCGTG GCCACCTGGT chr2L:21163528-21163648 89 1.03e-05 CCACAATTCA GCAGCGTG GCAGCCCCGT chr3R:17680850-17680970 46 1.03e-05 GCCTTTGAAG GCAGCGTG TTTGAAGTGG chr3R:17151761-17151881 110 1.20e-05 GCTGGAAAGT GCCGCCTG AGT chr2L:14499290-14499410 102 1.20e-05 ATTGGCCAAA GCCGCCTG TTAAGTGTGA chr2R:22670640-22670760 72 1.68e-05 GCCAACACTG GCTGCGCG CTACTATCGA chr3R:28857363-28857483 10 2.13e-05 ACGAGTTGA GCAGCGGG ACACTGTGAG chr2L:8528480-8528600 69 2.45e-05 CGTCGGACAA GCAGTGCG ACTTGGGATG chr3L:12336375-12336495 5 3.03e-05 AAAT GCTGCCCG TACAAAGCTG chr3R:27273645-27273765 50 3.37e-05 CTAAACAACG GCAGCGCC AGCAGCTAGT chrX:1944306-1944426 5 3.78e-05 CCTC GCAGCTCG GACATTCTCG chr2R:18147959-18148079 65 5.34e-05 CCCCCGCCGG GCAGTGTG GTGTAACGGT chr3R:16250575-16250695 67 5.34e-05 TGCAATTTGC GCAGTGTG CTGTCGCTCT chr3L:15563053-15563173 73 5.34e-05 TGCGTTTCAA GCAGTCCG TTTATTTGAG chr3R:22596629-22596749 1 6.70e-05 . GCAGCCCC AAGTGGGCGT chrX:618741-618861 68 6.70e-05 CTGGTCATGT GCCGCTTG CGTCCAAGGT chr2R:10899132-10899252 104 7.28e-05 TTTTAACGCG GCAGCTTG TACCTTGTA chr3R:10681748-10681868 66 7.77e-05 CCAGTTAATT GCCGTCTG TGCGTGGGCC chr2R:12337708-12337828 92 8.66e-05 TATTTAGCGA GCAGTCTG GCAGCCCAAG chr3L:17016033-17016153 33 9.00e-05 ACAGCGAAAC GCCGCGAG GTAGTGATGA chr3R:11674159-11674279 43 1.06e-04 TTTTATGTGT GCAGTGGG AACAAGTTAA chr3R:25039123-25039243 45 1.23e-04 TAATTTAACG GCTGTGTG ATTAAAATGC chr3R:15794509-15794629 67 1.23e-04 CCAAAGCGAC GCTGTGTG TGTGTTGTGT chr3R:31169086-31169206 4 1.23e-04 GCT GCCGCTGG AAAACTAAAC chr3R:6504545-6504665 69 1.23e-04 GGAATACGAT GCTGTGTG CGGGGAAAAG chr2L:13838816-13838936 101 1.23e-04 CAGTTGAAAT GCCGCTGG CGGTAGTGAA chr2R:7466710-7466830 82 1.34e-04 AGATCGTAAA GCCGCCAG TAGTGTTGAA chr2R:13475066-13475186 65 1.34e-04 GACTTTTCTT GCAGTGCC TGTGTTTACA chr3R:9555409-9555529 43 1.49e-04 ACGATGGGTA GCTGCGTC TATCGATATT chr3L:15715886-15716006 94 1.49e-04 TAGACGCTTG GCTGCCCC ACTGTGTGTT chr2R:15114529-15114649 32 1.64e-04 AATTCGGAAA GCAGCTCC AAAATAGTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:8901317-8901437 9.4e-07 89_[+1]_23 chr2R:6656350-6656470 9.4e-07 26_[+1]_86 chr2L:7027194-7027314 5.3e-06 64_[+1]_48 chr3R:26130683-26130803 1e-05 36_[+1]_76 chr2L:5543220-5543340 1e-05 100_[+1]_12 chr2L:11829356-11829476 1e-05 79_[+1]_33 chr2L:21163528-21163648 1e-05 88_[+1]_24 chr3R:17680850-17680970 1e-05 45_[+1]_67 chr3R:17151761-17151881 1.2e-05 109_[+1]_3 chr2L:14499290-14499410 1.2e-05 101_[+1]_11 chr2R:22670640-22670760 1.7e-05 71_[+1]_41 chr3R:28857363-28857483 2.1e-05 9_[+1]_103 chr2L:8528480-8528600 2.5e-05 68_[+1]_44 chr3L:12336375-12336495 3e-05 4_[+1]_108 chr3R:27273645-27273765 3.4e-05 49_[+1]_63 chrX:1944306-1944426 3.8e-05 4_[+1]_108 chr2R:18147959-18148079 5.3e-05 64_[+1]_48 chr3R:16250575-16250695 5.3e-05 66_[+1]_46 chr3L:15563053-15563173 5.3e-05 72_[+1]_40 chr3R:22596629-22596749 6.7e-05 [+1]_112 chrX:618741-618861 6.7e-05 67_[+1]_45 chr2R:10899132-10899252 7.3e-05 103_[+1]_9 chr3R:10681748-10681868 7.8e-05 65_[+1]_47 chr2R:12337708-12337828 8.7e-05 91_[+1]_21 chr3L:17016033-17016153 9e-05 32_[+1]_80 chr3R:11674159-11674279 0.00011 42_[+1]_70 chr3R:25039123-25039243 0.00012 44_[+1]_68 chr3R:15794509-15794629 0.00012 66_[+1]_46 chr3R:31169086-31169206 0.00012 3_[+1]_109 chr3R:6504545-6504665 0.00012 68_[+1]_44 chr2L:13838816-13838936 0.00012 100_[+1]_12 chr2R:7466710-7466830 0.00013 81_[+1]_31 chr2R:13475066-13475186 0.00013 64_[+1]_48 chr3R:9555409-9555529 0.00015 42_[+1]_70 chr3L:15715886-15716006 0.00015 93_[+1]_19 chr2R:15114529-15114649 0.00016 31_[+1]_81 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCMGCSYG width=8 seqs=36 chr2R:8901317-8901437 ( 90) GCCGCGCG 1 chr2R:6656350-6656470 ( 27) GCCGCGCG 1 chr2L:7027194-7027314 ( 65) GCCGCCCG 1 chr3R:26130683-26130803 ( 37) GCAGCCCG 1 chr2L:5543220-5543340 ( 101) GCAGCGTG 1 chr2L:11829356-11829476 ( 80) GCAGCGTG 1 chr2L:21163528-21163648 ( 89) GCAGCGTG 1 chr3R:17680850-17680970 ( 46) GCAGCGTG 1 chr3R:17151761-17151881 ( 110) GCCGCCTG 1 chr2L:14499290-14499410 ( 102) GCCGCCTG 1 chr2R:22670640-22670760 ( 72) GCTGCGCG 1 chr3R:28857363-28857483 ( 10) GCAGCGGG 1 chr2L:8528480-8528600 ( 69) GCAGTGCG 1 chr3L:12336375-12336495 ( 5) GCTGCCCG 1 chr3R:27273645-27273765 ( 50) GCAGCGCC 1 chrX:1944306-1944426 ( 5) GCAGCTCG 1 chr2R:18147959-18148079 ( 65) GCAGTGTG 1 chr3R:16250575-16250695 ( 67) GCAGTGTG 1 chr3L:15563053-15563173 ( 73) GCAGTCCG 1 chr3R:22596629-22596749 ( 1) GCAGCCCC 1 chrX:618741-618861 ( 68) GCCGCTTG 1 chr2R:10899132-10899252 ( 104) GCAGCTTG 1 chr3R:10681748-10681868 ( 66) GCCGTCTG 1 chr2R:12337708-12337828 ( 92) GCAGTCTG 1 chr3L:17016033-17016153 ( 33) GCCGCGAG 1 chr3R:11674159-11674279 ( 43) GCAGTGGG 1 chr3R:25039123-25039243 ( 45) GCTGTGTG 1 chr3R:15794509-15794629 ( 67) GCTGTGTG 1 chr3R:31169086-31169206 ( 4) GCCGCTGG 1 chr3R:6504545-6504665 ( 69) GCTGTGTG 1 chr2L:13838816-13838936 ( 101) GCCGCTGG 1 chr2R:7466710-7466830 ( 82) GCCGCCAG 1 chr2R:13475066-13475186 ( 65) GCAGTGCC 1 chr3R:9555409-9555529 ( 43) GCTGCGTC 1 chr3L:15715886-15716006 ( 94) GCTGCCCC 1 chr2R:15114529-15114649 ( 32) GCAGCTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.648 E= 1.8e-001 -1181 -1181 249 -1181 -1181 251 -1181 -1181 62 80 -1181 -72 -1181 -1181 249 -1181 -1181 199 -1181 -7 -1181 80 157 -94 -255 115 -68 47 -1181 -7 223 -1181 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 36 E= 1.8e-001 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.305556 0.000000 0.194444 0.000000 0.000000 1.000000 0.000000 0.000000 0.694444 0.000000 0.305556 0.000000 0.305556 0.527778 0.166667 0.055556 0.388889 0.111111 0.444444 0.000000 0.166667 0.833333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMGCSYG MEME-1 regular expression -------------------------------------------------------------------------------- GC[AC]G[CT][GC][TC]G -------------------------------------------------------------------------------- Time 7.19 secs. ******************************************************************************** ******************************************************************************** MOTIF BHVCASTG MEME-2 width = 8 sites = 60 llr = 470 E-value = 1.4e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :45:a::: pos.-specific C 332a:5:: probability G 4:3::5:a matrix T 33::::a: bits 2.5 * * 2.3 * * 2.0 * * 1.8 * ** Relative 1.5 ***** Entropy 1.3 ***** (11.3 bits) 1.0 ***** 0.8 * ***** 0.5 * ****** 0.3 ******** 0.0 -------- Multilevel GAACACTG consensus CTG G sequence TCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:6803555-6803675 4 1.21e-05 GTC GCGCAGTG CTGCTAAAAT chr3R:17151761-17151881 93 1.21e-05 GCCAGCTGTT GCGCAGTG CTGGAAAGTG chr2R:20319537-20319657 7 1.21e-05 TATTGT GCACACTG AAAGAATAAC chr2R:14906626-14906746 14 2.11e-05 TCGCCAATGG GCACAGTG AGAAAAATTC chr3R:15676356-15676476 69 2.11e-05 TTTTTCGAGT GCCCACTG TTTGTTTGCC chr2L:14519424-14519544 107 2.11e-05 ATACTCCTTT GCCCACTG ATTACA chr2R:21709662-21709782 2 2.11e-05 G GCACAGTG AACGCTCGCA chr3L:16544332-16544452 68 2.11e-05 ACATGCATGA GCACAGTG AGTAATTAAT chrX:8125232-8125352 29 2.11e-05 GGCCACTGTC GCACAGTG GGCCCAATCG chr2L:3813411-3813531 60 5.88e-05 GTTGCAAGGA GAGCAGTG CTCAAAAGCA chr2R:15931977-15932097 55 5.88e-05 AGATAGTTGT GAGCAGTG GAATCAGACT chr2R:18440806-18440926 15 9.01e-05 ATGCTAATTA GAACAGTG CATATTGTTT chr2R:18676469-18676589 54 9.01e-05 TGTTTTATAA GAACAGTG GCAAAACTTT chr2L:9938695-9938815 77 9.01e-05 ACAGGTGTTT GAACAGTG CTCGAAAGTC chrX:12242477-12242597 1 9.01e-05 . GTGCACTG CAAAATGAGG chr2R:14971203-14971323 18 9.01e-05 TCAATTTTTA GACCACTG CCTTTTGATT chr3L:9838663-9838783 48 9.01e-05 TGGAAAATGG GAACAGTG CTCGCCATAC chrX:17820345-17820465 16 9.01e-05 TCAGAATCGT GTGCACTG GCGCCACCTA chr3R:16250575-16250695 42 1.21e-04 TTGTTGCCTC GTACACTG CGCGACGTGC chrX:13335002-13335122 39 1.21e-04 ACGAGTTTTG CAGCACTG AACTCGAGGG chr2L:21163528-21163648 70 1.21e-04 AACGCATTGG CAGCACTG CCCACAATTC chr3R:18393522-18393642 50 1.21e-04 AAACAAGTCG CAGCACTG AGGGAAATAG chr4:1051403-1051523 106 1.21e-04 TCCGCGGTTA GTGCAGTG TAAACGG chr3R:28590698-28590818 88 1.21e-04 GACAACCGAT GACCAGTG GCGATACGAG chr2R:20257435-20257555 11 1.21e-04 AATAGGCCAT GTACACTG TAATTAGAAA chr2R:15848059-15848179 40 1.54e-04 TGGAGCGTCG CAGCAGTG AGCAGCTCAC chr2R:22670640-22670760 64 1.54e-04 ATACGCTAGC CAACACTG GCTGCGCGCT chr3L:9435504-9435624 9 1.54e-04 GTGTTTTG CAACACTG GCGAGTCAGT chr3L:5185303-5185423 96 1.54e-04 AAAAACCTAG GTACAGTG AAATGGTTAT chr2R:12337708-12337828 50 1.54e-04 CCACATTAGG CAACACTG CATTTCACAG chr3L:4313412-4313532 77 1.54e-04 GTATGCCTTA CAACACTG CCTGCATCAG chr3R:19875676-19875796 49 1.54e-04 ACTGCCAGAT GTACAGTG GCGCGCAAAA chrX:3968814-3968934 71 1.54e-04 CCAAAATACC CAACACTG GTTAACTGCT chr2R:6656350-6656470 43 1.54e-04 CGCTGTTGTC CAACACTG TTTGCTCAAG chr2L:14094782-14094902 79 1.54e-04 TCGTGCTAGC CAACACTG ATATCAGTGC chrX:3476145-3476265 5 1.88e-04 TTTG CTGCACTG TGAGAAAGGA chr2L:5043928-5044048 54 1.88e-04 AAATTTGCAC TCGCACTG TCTGCATGTT chr2R:5128298-5128418 50 1.88e-04 TACCGTACAT CAACAGTG TTGTGACATG chr2R:20126345-20126465 107 1.88e-04 AAGCAAACAG CTGCACTG AGGAAA chr2R:7466710-7466830 14 2.26e-04 AAAAAACGCA CACCAGTG TGACCAACAA chr2L:4440991-4441111 109 2.26e-04 CAGGAATTTC TCGCAGTG TTTT chr3R:18906482-18906602 96 2.26e-04 GAACCACCGG TCACACTG AATGTTTTTT chr2R:18829763-18829883 52 2.26e-04 TTTTAACGCT CTACACTG GATCGATTTT chrX:20507850-20507970 14 2.26e-04 AGCCACGTCC CTACACTG AGAGAAAGGG chr3L:25115959-25116079 39 2.26e-04 TTATTCTTGT TCACACTG TGCCATAATA chr3R:16210066-16210186 99 2.58e-04 AACCACATCG TCCCACTG TCCCCTCTTT chr2R:23567411-23567531 113 2.58e-04 CATTATGAGG CTCCACTG chrX:1370173-1370293 76 2.58e-04 ACAACTTCTT TCACAGTG TATTTAACTG chr2L:18305229-18305349 107 2.80e-04 ATTTCAGATT TCCCAGTG TTTTTT chr3L:5926153-5926273 62 2.80e-04 CTAATTTTTT TCCCAGTG CACGTGCGCT chr2L:21149207-21149327 76 3.10e-04 ttcataaaaa tagcagtg cttgggacct chr3R:9759548-9759668 94 3.50e-04 GTATTTAAAG TAACAGTG GTGGAAACAC chr2L:3533292-3533412 88 3.90e-04 ACACATTTTT TTGCAGTG CAACCGCAAG chr2L:10858220-10858340 104 3.90e-04 AAACCATAGC TACCAGTG CTCAAATCa chrX:2536258-2536378 11 3.90e-04 CAGCTAAGAT TTACACTG GCAAAAACGA chr3L:6264607-6264727 105 3.90e-04 AGACAAGTTA TTGCAGTG AAGCATTA chrX:20394193-20394313 83 4.20e-04 AATAGCCAGC TTCCACTG TACTGGGTTT chr2L:19517470-19517590 72 4.20e-04 CATTGGACAG TTCCACTG TGCGGCGAAG chr3L:15563053-15563173 57 4.20e-04 TTAAATGTGT TTCCACTG CGTTTCAAGC chr2R:10899132-10899252 31 4.20e-04 GTCACTTCTG TTCCACTG TTCAAGTACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:6803555-6803675 1.2e-05 3_[+2]_109 chr3R:17151761-17151881 1.2e-05 92_[+2]_20 chr2R:20319537-20319657 1.2e-05 6_[+2]_106 chr2R:14906626-14906746 2.1e-05 13_[+2]_99 chr3R:15676356-15676476 2.1e-05 68_[+2]_44 chr2L:14519424-14519544 2.1e-05 106_[+2]_6 chr2R:21709662-21709782 2.1e-05 1_[+2]_111 chr3L:16544332-16544452 2.1e-05 67_[+2]_45 chrX:8125232-8125352 2.1e-05 28_[+2]_84 chr2L:3813411-3813531 5.9e-05 59_[+2]_53 chr2R:15931977-15932097 5.9e-05 54_[+2]_58 chr2R:18440806-18440926 9e-05 14_[+2]_98 chr2R:18676469-18676589 9e-05 53_[+2]_59 chr2L:9938695-9938815 9e-05 76_[+2]_36 chrX:12242477-12242597 9e-05 [+2]_112 chr2R:14971203-14971323 9e-05 17_[+2]_95 chr3L:9838663-9838783 9e-05 47_[+2]_65 chrX:17820345-17820465 9e-05 15_[+2]_97 chr3R:16250575-16250695 0.00012 41_[+2]_71 chrX:13335002-13335122 0.00012 38_[+2]_74 chr2L:21163528-21163648 0.00012 69_[+2]_43 chr3R:18393522-18393642 0.00012 49_[+2]_63 chr4:1051403-1051523 0.00012 105_[+2]_7 chr3R:28590698-28590818 0.00012 87_[+2]_25 chr2R:20257435-20257555 0.00012 10_[+2]_102 chr2R:15848059-15848179 0.00015 39_[+2]_73 chr2R:22670640-22670760 0.00015 63_[+2]_49 chr3L:9435504-9435624 0.00015 8_[+2]_104 chr3L:5185303-5185423 0.00015 95_[+2]_17 chr2R:12337708-12337828 0.00015 49_[+2]_63 chr3L:4313412-4313532 0.00015 76_[+2]_36 chr3R:19875676-19875796 0.00015 48_[+2]_64 chrX:3968814-3968934 0.00015 70_[+2]_42 chr2R:6656350-6656470 0.00015 42_[+2]_70 chr2L:14094782-14094902 0.00015 78_[+2]_34 chrX:3476145-3476265 0.00019 4_[+2]_108 chr2L:5043928-5044048 0.00019 53_[+2]_59 chr2R:5128298-5128418 0.00019 49_[+2]_63 chr2R:20126345-20126465 0.00019 106_[+2]_6 chr2R:7466710-7466830 0.00023 13_[+2]_99 chr2L:4440991-4441111 0.00023 108_[+2]_4 chr3R:18906482-18906602 0.00023 95_[+2]_17 chr2R:18829763-18829883 0.00023 51_[+2]_61 chrX:20507850-20507970 0.00023 13_[+2]_99 chr3L:25115959-25116079 0.00023 38_[+2]_74 chr3R:16210066-16210186 0.00026 98_[+2]_14 chr2R:23567411-23567531 0.00026 112_[+2] chrX:1370173-1370293 0.00026 75_[+2]_37 chr2L:18305229-18305349 0.00028 106_[+2]_6 chr3L:5926153-5926273 0.00028 61_[+2]_51 chr2L:21149207-21149327 0.00031 75_[+2]_37 chr3R:9759548-9759668 0.00035 93_[+2]_19 chr2L:3533292-3533412 0.00039 87_[+2]_25 chr2L:10858220-10858340 0.00039 103_[+2]_9 chrX:2536258-2536378 0.00039 10_[+2]_102 chr3L:6264607-6264727 0.00039 104_[+2]_8 chrX:20394193-20394313 0.00042 82_[+2]_30 chr2L:19517470-19517590 0.00042 71_[+2]_41 chr3L:15563053-15563173 0.00042 56_[+2]_56 chr2R:10899132-10899252 0.00042 30_[+2]_82 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF BHVCASTG width=8 seqs=60 chrX:6803555-6803675 ( 4) GCGCAGTG 1 chr3R:17151761-17151881 ( 93) GCGCAGTG 1 chr2R:20319537-20319657 ( 7) GCACACTG 1 chr2R:14906626-14906746 ( 14) GCACAGTG 1 chr3R:15676356-15676476 ( 69) GCCCACTG 1 chr2L:14519424-14519544 ( 107) GCCCACTG 1 chr2R:21709662-21709782 ( 2) GCACAGTG 1 chr3L:16544332-16544452 ( 68) GCACAGTG 1 chrX:8125232-8125352 ( 29) GCACAGTG 1 chr2L:3813411-3813531 ( 60) GAGCAGTG 1 chr2R:15931977-15932097 ( 55) GAGCAGTG 1 chr2R:18440806-18440926 ( 15) GAACAGTG 1 chr2R:18676469-18676589 ( 54) GAACAGTG 1 chr2L:9938695-9938815 ( 77) GAACAGTG 1 chrX:12242477-12242597 ( 1) GTGCACTG 1 chr2R:14971203-14971323 ( 18) GACCACTG 1 chr3L:9838663-9838783 ( 48) GAACAGTG 1 chrX:17820345-17820465 ( 16) GTGCACTG 1 chr3R:16250575-16250695 ( 42) GTACACTG 1 chrX:13335002-13335122 ( 39) CAGCACTG 1 chr2L:21163528-21163648 ( 70) CAGCACTG 1 chr3R:18393522-18393642 ( 50) CAGCACTG 1 chr4:1051403-1051523 ( 106) GTGCAGTG 1 chr3R:28590698-28590818 ( 88) GACCAGTG 1 chr2R:20257435-20257555 ( 11) GTACACTG 1 chr2R:15848059-15848179 ( 40) CAGCAGTG 1 chr2R:22670640-22670760 ( 64) CAACACTG 1 chr3L:9435504-9435624 ( 9) CAACACTG 1 chr3L:5185303-5185423 ( 96) GTACAGTG 1 chr2R:12337708-12337828 ( 50) CAACACTG 1 chr3L:4313412-4313532 ( 77) CAACACTG 1 chr3R:19875676-19875796 ( 49) GTACAGTG 1 chrX:3968814-3968934 ( 71) CAACACTG 1 chr2R:6656350-6656470 ( 43) CAACACTG 1 chr2L:14094782-14094902 ( 79) CAACACTG 1 chrX:3476145-3476265 ( 5) CTGCACTG 1 chr2L:5043928-5044048 ( 54) TCGCACTG 1 chr2R:5128298-5128418 ( 50) CAACAGTG 1 chr2R:20126345-20126465 ( 107) CTGCACTG 1 chr2R:7466710-7466830 ( 14) CACCAGTG 1 chr2L:4440991-4441111 ( 109) TCGCAGTG 1 chr3R:18906482-18906602 ( 96) TCACACTG 1 chr2R:18829763-18829883 ( 52) CTACACTG 1 chrX:20507850-20507970 ( 14) CTACACTG 1 chr3L:25115959-25116079 ( 39) TCACACTG 1 chr3R:16210066-16210186 ( 99) TCCCACTG 1 chr2R:23567411-23567531 ( 113) CTCCACTG 1 chrX:1370173-1370293 ( 76) TCACAGTG 1 chr2L:18305229-18305349 ( 107) TCCCAGTG 1 chr3L:5926153-5926273 ( 62) TCCCAGTG 1 chr2L:21149207-21149327 ( 76) TAGCAGTG 1 chr3R:9759548-9759668 ( 94) TAACAGTG 1 chr2L:3533292-3533412 ( 88) TTGCAGTG 1 chr2L:10858220-10858340 ( 104) TACCAGTG 1 chrX:2536258-2536378 ( 11) TTACACTG 1 chr3L:6264607-6264727 ( 105) TTGCAGTG 1 chrX:20394193-20394313 ( 83) TTCCACTG 1 chr2L:19517470-19517590 ( 72) TTCCACTG 1 chr3L:15563053-15563173 ( 57) TTCCACTG 1 chr2R:10899132-10899252 ( 31) TTCCACTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.1524 E= 1.4e-003 -1255 77 117 -10 29 69 -1255 -2 52 41 75 -1255 -1255 251 -1255 -1255 162 -1255 -1255 -1255 -1255 160 139 -1255 -1255 -1255 -1255 164 -1255 -1255 249 -1255 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 60 E= 1.4e-003 0.000000 0.300000 0.400000 0.300000 0.400000 0.283333 0.000000 0.316667 0.466667 0.233333 0.300000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.533333 0.466667 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BHVCASTG MEME-2 regular expression -------------------------------------------------------------------------------- [GCT][ATC][AGC]CA[CG]TG -------------------------------------------------------------------------------- Time 13.23 secs. ******************************************************************************** ******************************************************************************** MOTIF CCGCCAGC MEME-3 width = 8 sites = 2 llr = 27 E-value = 1.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::a:: pos.-specific C aa:aa::a probability G ::a:::a: matrix T :::::::: bits 2.5 ***** ** 2.3 ***** ** 2.0 ***** ** 1.8 ***** ** Relative 1.5 ******** Entropy 1.3 ******** (19.2 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCGCCAGC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:17151761-17151881 81 1.70e-06 CTCACCGTGA CCGCCAGC TGTTGCGCAG chr2R:16202872-16202992 38 1.70e-06 TAGGAAAATA CCGCCAGC GATCAGTGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:17151761-17151881 1.7e-06 80_[+3]_32 chr2R:16202872-16202992 1.7e-06 37_[+3]_75 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCGCCAGC width=8 seqs=2 chr3R:17151761-17151881 ( 81) CCGCCAGC 1 chr2R:16202872-16202992 ( 38) CCGCCAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.9378 E= 1.3e+004 -765 251 -765 -765 -765 251 -765 -765 -765 -765 249 -765 -765 251 -765 -765 -765 251 -765 -765 161 -765 -765 -765 -765 -765 249 -765 -765 251 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.3e+004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGCCAGC MEME-3 regular expression -------------------------------------------------------------------------------- CCGCCAGC -------------------------------------------------------------------------------- Time 19.20 secs. ******************************************************************************** ******************************************************************************** MOTIF GCAKCCCC MEME-4 width = 8 sites = 8 llr = 87 E-value = 3.9e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::9::::: pos.-specific C 381:aaaa probability G 83:4:::: matrix T :::6:::: bits 2.5 **** 2.3 **** 2.0 **** 1.8 ** **** Relative 1.5 ** **** Entropy 1.3 *** **** (15.6 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCATCCCC consensus CG G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:21163528-21163648 97 1.70e-06 CAGCAGCGTG GCAGCCCC GTTGAACAGC chr2R:6017601-6017721 16 4.74e-06 AATTTGTTGT GCATCCCC ACAGGAAAAG chr3L:19834267-19834387 41 4.74e-06 TTCGCATTTT GCATCCCC AACAAAGCAA chrX:618741-618861 1 4.74e-06 . GCATCCCC AGAACGCCAG chrX:21241987-21242107 80 9.41e-06 TTGTTGGCTG CCATCCCC AACCGCCttt chr2L:15248768-15248888 56 9.41e-06 TCTTGAAATA CCATCCCC AAGATTAACG chr2R:10899132-10899252 86 1.11e-05 AACCTTGTAT GGAGCCCC TTTTAACGCG chr3R:18366390-18366510 24 2.49e-05 TTGAAAAATT GGCGCCCC ACATTTTGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:21163528-21163648 1.7e-06 96_[+4]_16 chr2R:6017601-6017721 4.7e-06 15_[+4]_97 chr3L:19834267-19834387 4.7e-06 40_[+4]_72 chrX:618741-618861 4.7e-06 [+4]_112 chrX:21241987-21242107 9.4e-06 79_[+4]_33 chr2L:15248768-15248888 9.4e-06 55_[+4]_57 chr2R:10899132-10899252 1.1e-05 85_[+4]_27 chr3R:18366390-18366510 2.5e-05 23_[+4]_89 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCAKCCCC width=8 seqs=8 chr2L:21163528-21163648 ( 97) GCAGCCCC 1 chr2R:6017601-6017721 ( 16) GCATCCCC 1 chr3L:19834267-19834387 ( 41) GCATCCCC 1 chrX:618741-618861 ( 1) GCATCCCC 1 chrX:21241987-21242107 ( 80) CCATCCCC 1 chr2L:15248768-15248888 ( 56) CCATCCCC 1 chr2R:10899132-10899252 ( 86) GGAGCCCC 1 chr3R:18366390-18366510 ( 24) GGCGCCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.7856 E= 3.9e+004 -965 51 207 -965 -965 210 49 -965 142 -49 -965 -965 -965 -965 108 96 -965 251 -965 -965 -965 251 -965 -965 -965 251 -965 -965 -965 251 -965 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 3.9e+004 0.000000 0.250000 0.750000 0.000000 0.000000 0.750000 0.250000 0.000000 0.875000 0.125000 0.000000 0.000000 0.000000 0.000000 0.375000 0.625000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAKCCCC MEME-4 regular expression -------------------------------------------------------------------------------- [GC][CG]A[TG]CCCC -------------------------------------------------------------------------------- Time 25.09 secs. ******************************************************************************** ******************************************************************************** MOTIF GGCGGCCA MEME-5 width = 8 sites = 4 llr = 49 E-value = 1.6e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::a pos.-specific C :3a3:aa: probability G a8:8a::: matrix T :::::::: bits 2.5 * * *** 2.3 * * *** 2.0 * * *** 1.8 ******* Relative 1.5 ******** Entropy 1.3 ******** (17.5 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GGCGGCCA consensus C C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:18784711-18784831 51 1.75e-06 ttttcatacg ggcggcca ccccttttct chr2R:14488429-14488549 32 1.75e-06 TCAAATGTGC GGCGGCCA CAAAGATTTG chr2R:7466710-7466830 46 5.20e-06 AGTTGCCTGT GCCGGCCA GTGTGTACAC chr2R:6656350-6656470 7 5.20e-06 TGTAAT GGCCGCCA AAAAATGCCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:18784711-18784831 1.8e-06 50_[+5]_62 chr2R:14488429-14488549 1.8e-06 31_[+5]_81 chr2R:7466710-7466830 5.2e-06 45_[+5]_67 chr2R:6656350-6656470 5.2e-06 6_[+5]_106 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGCGGCCA width=8 seqs=4 chr3L:18784711-18784831 ( 51) GGCGGCCA 1 chr2R:14488429-14488549 ( 32) GGCGGCCA 1 chr2R:7466710-7466830 ( 46) GCCGGCCA 1 chr2R:6656350-6656470 ( 7) GGCCGCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.0197 E= 1.6e+004 -865 -865 249 -865 -865 51 207 -865 -865 251 -865 -865 -865 51 207 -865 -865 -865 249 -865 -865 251 -865 -865 -865 251 -865 -865 161 -865 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 1.6e+004 0.000000 0.000000 1.000000 0.000000 0.000000 0.250000 0.750000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.250000 0.750000 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCGGCCA MEME-5 regular expression -------------------------------------------------------------------------------- G[GC]C[GC]GCCA -------------------------------------------------------------------------------- Time 30.95 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:5365296-5365416 4.54e-01 120 chr2R:10899132-10899252 6.51e-05 85_[+4(1.11e-05)]_10_[+1(7.28e-05)]_\ 9 chr3R:5636895-5637015 9.81e-01 120 chr2L:3444931-3445051 5.31e-02 120 chr2L:3507602-3507722 9.96e-01 120 chr2R:15322285-15322405 8.76e-01 120 chr3L:5926153-5926273 2.25e-01 120 chr3L:25115959-25116079 2.01e-01 120 chr3R:22664406-22664526 1.01e-01 120 chr2R:14488429-14488549 6.71e-04 31_[+5(1.75e-06)]_81 chr2L:10239267-10239387 7.76e-01 120 chr2R:20327022-20327142 7.91e-01 120 chr2R:1345174-1345294 3.73e-01 120 chr3R:9701456-9701576 2.85e-02 120 chr2R:7972231-7972351 9.75e-01 120 chr2L:23512762-23512882 8.41e-01 120 chrX:20506068-20506188 4.96e-01 120 chr3L:11074547-11074667 3.30e-01 120 chr2L:18484819-18484939 4.56e-01 120 chr2L:20097247-20097367 7.11e-01 120 chr2R:5122232-5122352 6.90e-01 120 chr2L:14094782-14094902 4.40e-03 120 chr2L:3477378-3477498 7.18e-01 120 chrX:3109035-3109155 9.87e-01 120 chr2R:20257435-20257555 4.39e-01 120 chr2L:16476618-16476738 2.39e-01 120 chr2L:12063241-12063361 9.98e-01 120 chr3R:10681748-10681868 8.29e-05 65_[+1(7.77e-05)]_27_[+3(6.07e-05)]_\ 12 chr2L:8528480-8528600 3.15e-03 68_[+1(2.45e-05)]_44 chr2R:6656350-6656470 8.29e-08 6_[+5(5.20e-06)]_12_[+1(9.42e-07)]_\ 86 chr2L:827640-827760 8.17e-01 120 chrX:8125232-8125352 2.78e-03 28_[+2(2.11e-05)]_84 chrX:9352854-9352974 7.71e-01 120 chrX:3968814-3968934 4.16e-03 120 chr3R:14729327-14729447 8.07e-02 120 chr3L:18784711-18784831 2.88e-04 50_[+5(1.75e-06)]_62 chr2R:17870014-17870134 6.75e-01 120 chr3L:27267134-27267254 5.82e-01 120 chr2R:17469470-17469590 8.60e-01 120 chr3L:1534253-1534373 6.44e-01 120 chrX:5966125-5966245 9.97e-01 120 chr2R:24132848-24132968 1.08e-01 120 chr2R:20319537-20319657 1.28e-01 6_[+2(1.21e-05)]_106 chr3L:15563053-15563173 2.45e-02 72_[+1(5.34e-05)]_40 chr3L:16544332-16544452 8.33e-02 67_[+2(2.11e-05)]_45 chr2L:13838816-13838936 3.59e-03 120 chr3L:7367875-7367995 1.57e-02 120 chr2R:20906654-20906774 7.36e-03 120 chrX:17820345-17820465 7.41e-03 15_[+2(9.01e-05)]_97 chr2R:20126345-20126465 6.01e-02 120 chr3R:9759548-9759668 2.43e-01 120 chrX:1370173-1370293 5.49e-01 120 chrX:5329491-5329611 7.70e-03 120 chr3L:3814694-3814814 4.63e-01 120 chr3R:19875676-19875796 2.13e-02 120 chrX:7968371-7968491 2.41e-01 99_[+5(6.42e-05)]_13 chr2L:15751128-15751248 3.16e-01 120 chr2R:23567411-23567531 6.32e-02 120 chr2R:11738698-11738818 9.76e-01 120 chr2R:7076990-7077110 9.08e-01 120 chr3L:22163888-22164008 2.57e-02 120 chr2L:14499290-14499410 7.67e-04 101_[+1(1.20e-05)]_11 chr2R:13475066-13475186 5.32e-02 120 chr3L:2372015-2372135 9.96e-01 120 chr3L:9838663-9838783 2.88e-02 47_[+2(9.01e-05)]_65 chr3R:6504545-6504665 4.60e-03 120 chrX:20507850-20507970 1.33e-02 120 chr2R:11435222-11435342 8.83e-01 120 chr3L:6817075-6817195 6.39e-01 120 chr2L:11331833-11331953 4.70e-01 120 chr2R:21709662-21709782 1.24e-02 1_[+2(2.11e-05)]_111 chr3L:18114173-18114293 9.63e-01 120 chr2L:19517470-19517590 1.78e-01 120 chrX:9193707-9193827 8.98e-01 120 chr3R:28857363-28857483 1.83e-02 9_[+1(2.13e-05)]_103 chr3L:20471114-20471234 7.10e-01 120 chr2R:24046823-24046943 5.70e-01 120 chr2R:14971203-14971323 3.10e-01 17_[+2(9.01e-05)]_95 chr3L:16779744-16779864 9.97e-01 120 chrX:618741-618861 4.63e-05 [+4(4.74e-06)]_59_[+1(6.70e-05)]_45 chr3R:13644717-13644837 9.20e-01 120 chr3R:23293482-23293602 2.61e-01 120 chr3R:22039600-22039720 9.94e-01 120 chr3R:15837203-15837323 8.95e-01 120 chr3L:10661124-10661244 1.00e+00 120 chr3L:11993128-11993248 5.46e-01 120 chr3R:28590698-28590818 7.81e-04 101_[+4(1.85e-05)]_11 chr3R:17680850-17680970 1.55e-03 45_[+1(1.03e-05)]_67 chr2R:16178667-16178787 9.97e-01 120 chrX:10086333-10086453 8.79e-02 120 chr4:1051403-1051523 4.58e-02 120 chr3R:25004887-25005007 8.83e-01 120 chrX:7617075-7617195 3.84e-01 120 chr3R:24010964-24011084 9.66e-01 120 chr2R:14618614-14618734 5.71e-02 120 chr3L:20771146-20771266 7.25e-01 120 chr2L:15248768-15248888 8.44e-02 55_[+4(9.41e-06)]_57 chr2R:5128298-5128418 4.95e-01 120 chrX:12595827-12595947 9.80e-01 120 chr3R:18393522-18393642 9.37e-02 120 chr3L:14031762-14031882 9.94e-01 120 chr2R:8615333-8615453 6.26e-01 120 chr2R:9286623-9286743 5.92e-01 120 chr3L:4313412-4313532 3.19e-03 120 chr3L:13929237-13929357 8.17e-01 120 chr3R:25445635-25445755 7.68e-01 120 chr3R:8563951-8564071 9.98e-01 120 chr3R:31169086-31169206 2.79e-02 120 chrX:1880326-1880446 1.49e-01 120 chr2R:16202872-16202992 6.72e-04 37_[+3(1.70e-06)]_75 chr3R:18366390-18366510 1.70e-03 23_[+4(2.49e-05)]_89 chr2L:21149207-21149327 2.39e-01 120 chr2R:18528515-18528635 9.90e-01 120 chr2R:18829763-18829883 8.86e-02 120 chr3R:19031253-19031373 3.20e-02 33_[+5(6.42e-05)]_79 chr2L:7027194-7027314 6.67e-07 65_[+3(5.20e-06)]_47 chr3R:17584183-17584303 9.35e-01 120 chr3R:18906482-18906602 7.43e-02 120 chr2L:3852322-3852442 9.99e-01 120 chr3R:15792583-15792703 3.60e-01 120 chrX:3431762-3431882 8.08e-01 120 chr2L:21163528-21163648 3.61e-07 88_[+1(1.03e-05)]_[+4(1.70e-06)]_16 chr3R:27273645-27273765 6.72e-05 49_[+1(3.37e-05)]_63 chr3L:20944302-20944422 2.97e-02 120 chr3R:9370615-9370735 6.47e-01 120 chr3R:30305028-30305148 7.27e-01 120 chr2L:11829356-11829476 1.86e-04 3_[+5(6.42e-05)]_68_[+1(1.03e-05)]_\ 33 chr4:867063-867183 1.73e-01 120 chr2L:14519424-14519544 1.49e-01 106_[+2(2.11e-05)]_6 chr2L:20416814-20416934 9.70e-01 120 chr2L:12372622-12372742 3.39e-01 120 chr3L:5554526-5554646 2.67e-01 120 chr3L:6264607-6264727 2.13e-02 120 chr2L:5543220-5543340 3.74e-02 100_[+1(1.03e-05)]_12 chrX:12242477-12242597 4.01e-01 [+2(9.01e-05)]_112 chr3L:9066176-9066296 8.96e-01 120 chr3L:12336375-12336495 1.79e-02 4_[+1(3.03e-05)]_108 chr2R:8914031-8914151 2.71e-02 120 chr2L:5043928-5044048 2.04e-01 120 chrX:9356387-9356507 6.75e-01 120 chr3L:16571549-16571669 9.77e-01 120 chr3L:17016033-17016153 2.74e-02 32_[+1(9.00e-05)]_80 chr3L:15715886-15716006 6.69e-05 93_[+4(3.65e-05)]_19 chrX:2536258-2536378 2.22e-01 120 chr3L:17496966-17497086 9.80e-01 120 chr2R:15201335-15201455 9.86e-01 120 chr3R:19023998-19024118 7.14e-01 120 chr3L:12644490-12644610 1.87e-01 120 chr3R:22596629-22596749 4.60e-04 [+4(1.70e-06)]_112 chr2L:1462222-1462342 9.56e-01 120 chr2R:11359194-11359314 1.02e-01 120 chr2L:7426554-7426674 2.41e-01 120 chr2L:20649973-20650093 9.79e-01 120 chr2L:10856625-10856745 6.89e-01 120 chr2R:21507960-21508080 3.63e-01 120 chr2R:12337708-12337828 3.83e-05 91_[+1(8.66e-05)]_21 chr2L:21143037-21143157 9.98e-01 120 chr3L:5185303-5185423 2.66e-01 120 chr3R:20588534-20588654 1.00e+00 120 chrX:13335002-13335122 3.50e-03 120 chr2R:15114529-15114649 2.06e-02 120 chr3R:8960437-8960557 9.93e-01 120 chr2L:3003475-3003595 9.08e-01 120 chr2R:11095308-11095428 6.14e-01 120 chrX:4930127-4930247 1.18e-01 120 chr3R:30797438-30797558 1.00e+00 120 chrX:20394193-20394313 5.72e-02 120 chr2L:4440991-4441111 1.91e-01 120 chr3R:16210066-16210186 5.74e-02 120 chr2R:9686023-9686143 3.38e-01 120 chrX:7728347-7728467 5.57e-01 120 chr3R:12433930-12434050 3.92e-01 120 chr3R:15676356-15676476 5.95e-02 68_[+2(2.11e-05)]_44 chr3R:26130683-26130803 1.41e-03 36_[+1(1.03e-05)]_76 chr3R:21151496-21151616 1.10e-01 120 chr2L:9938695-9938815 2.26e-03 6_[+5(6.42e-05)]_62_[+2(9.01e-05)]_\ 36 chrX:2149657-2149777 1.21e-01 120 chr3L:557387-557507 4.87e-04 102_[+3(6.07e-05)]_10 chr3R:30413916-30414036 6.78e-01 120 chr3R:24917943-24918063 8.87e-01 120 chr3R:9555409-9555529 2.03e-01 120 chrX:17751843-17751963 2.53e-02 120 chr2R:23898353-23898473 7.82e-01 120 chr3L:11206053-11206173 8.36e-01 120 chr2R:18676469-18676589 3.23e-01 53_[+2(9.01e-05)]_59 chr3R:9791231-9791351 9.89e-01 120 chrX:21241987-21242107 3.26e-05 79_[+4(9.41e-06)]_33 chrX:11695002-11695122 2.54e-01 120 chr2R:9006910-9007030 1.08e-01 120 chr2R:14910014-14910134 1.00e+00 120 chrX:8892732-8892852 4.53e-01 120 chr3L:19834267-19834387 2.29e-04 40_[+4(4.74e-06)]_72 chr3R:12722646-12722766 9.98e-01 120 chr2L:10858220-10858340 3.66e-01 120 chr3R:14609340-14609460 1.00e+00 120 chr2L:16709761-16709881 9.72e-01 120 chr2R:12878791-12878911 1.29e-01 120 chr3L:9859748-9859868 9.62e-01 120 chr2L:16487714-16487834 3.59e-01 120 chrX:12909651-12909771 2.43e-01 120 chr2L:18305229-18305349 5.62e-01 120 chr3L:3852948-3853068 3.51e-01 120 chr3R:30532112-30532232 9.70e-01 120 chr3R:30195725-30195845 2.92e-02 120 chr2R:7466710-7466830 7.17e-06 45_[+5(5.20e-06)]_29_[+3(6.07e-05)]_\ 22_[+3(6.07e-05)] chr3R:24830034-24830154 9.12e-01 120 chr3R:17151761-17151881 9.09e-09 80_[+3(1.70e-06)]_4_[+2(1.21e-05)]_\ 9_[+1(1.20e-05)]_3 chr2R:15931977-15932097 1.34e-01 54_[+2(5.88e-05)]_58 chr2R:6017601-6017721 2.54e-03 15_[+4(4.74e-06)]_97 chr2R:23940167-23940287 9.33e-01 120 chr3R:15145590-15145710 9.39e-01 120 chrX:15615528-15615648 8.78e-01 120 chr2L:13073917-13074037 5.37e-01 120 chrX:12469877-12469997 1.00e+00 120 chrX:15599800-15599920 1.49e-01 120 chr3R:21101991-21102111 9.78e-01 120 chr3L:7151943-7152063 9.63e-01 120 chr3L:9435504-9435624 8.08e-02 120 chr2L:5045225-5045345 4.83e-05 92_[+3(5.20e-06)]_20 chr3R:16250575-16250695 4.56e-03 64_[+2(1.21e-05)]_48 chr3L:642621-642741 6.13e-01 120 chr3L:21418042-21418162 9.99e-01 120 chr3R:15794509-15794629 4.49e-02 120 chr2R:18147959-18148079 4.68e-05 64_[+1(5.34e-05)]_48 chr3L:3665481-3665601 2.60e-01 120 chrX:9650221-9650341 9.51e-01 120 chr3R:25039123-25039243 2.43e-01 120 chrX:3476145-3476265 1.60e-01 120 chr2R:22670640-22670760 1.49e-05 16_[+5(6.42e-05)]_47_[+1(1.68e-05)]_\ 41 chr2R:8901317-8901437 2.99e-03 89_[+1(9.42e-07)]_23 chr3R:11674159-11674279 1.27e-02 120 chr3L:17476084-17476204 2.93e-01 120 chr3L:12277484-12277604 1.47e-01 120 chr2L:16317922-16318042 5.19e-01 120 chr2R:18440806-18440926 2.61e-02 14_[+2(9.01e-05)]_98 chr2R:9440431-9440551 9.83e-01 120 chr2L:3813411-3813531 6.67e-03 16_[+2(9.01e-05)]_35_[+2(5.88e-05)]_\ 53 chr2L:5238350-5238470 1.00e+00 120 chr2L:3533292-3533412 3.87e-03 98_[+3(6.07e-05)]_14 chr2R:14906626-14906746 1.28e-01 13_[+2(2.11e-05)]_99 chr3L:14708163-14708283 2.17e-01 120 chr2R:15848059-15848179 5.95e-03 120 chr2R:13990734-13990854 4.95e-01 120 chr3R:27209131-27209251 5.84e-03 120 chr2R:13198349-13198469 5.24e-02 120 chr2L:3872458-3872578 2.60e-01 120 chr3R:29997708-29997828 9.97e-01 120 chrX:6803555-6803675 8.25e-04 3_[+2(1.21e-05)]_109 chr3R:10675261-10675381 1.44e-01 120 chrX:1944306-1944426 8.67e-02 4_[+1(3.78e-05)]_108 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n01.farnam.hpc.yale.internal ********************************************************************************