******************************************************************************** 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/her.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3L:12534507-12534627 1.0000 120 chr3R:30807053-30807173 1.0000 120 chrX:15940994-15941114 1.0000 120 chr2L:4794554-4794674 1.0000 120 chr3L:12537257-12537377 1.0000 120 chr2R:18128397-18128517 1.0000 120 chrX:5965615-5965735 1.0000 120 chr3R:31463153-31463273 1.0000 120 chr3L:3417949-3418069 1.0000 120 chrX:2624722-2624842 1.0000 120 chr3R:30459161-30459281 1.0000 120 chr2L:8010770-8010890 1.0000 120 chr2R:11360082-11360202 1.0000 120 chr2L:3867608-3867728 1.0000 120 chr2R:19227248-19227368 1.0000 120 chr3R:7186937-7187057 1.0000 120 chr2L:8415185-8415305 1.0000 120 chrX:1927567-1927687 1.0000 120 chr3R:26964944-26965064 1.0000 120 chr2L:8029368-8029488 1.0000 120 chr3L:3909573-3909693 1.0000 120 chr3L:16711960-16712080 1.0000 120 chr2R:22562345-22562465 1.0000 120 chr3R:14481851-14481971 1.0000 120 chr2R:13507529-13507649 1.0000 120 chr3L:20516541-20516661 1.0000 120 chr3L:10698219-10698339 1.0000 120 chr2R:7823518-7823638 1.0000 120 chr2L:21221176-21221296 1.0000 120 chr2R:11451864-11451984 1.0000 120 chr4:557919-558039 1.0000 120 chrX:15940401-15940521 1.0000 120 chrX:8129683-8129803 1.0000 120 chr3L:343035-343155 1.0000 120 chr2R:16516075-16516195 1.0000 120 chr3L:5794140-5794260 1.0000 120 chr2L:11280188-11280308 1.0000 120 chr3L:9855162-9855282 1.0000 120 chrX:8243428-8243548 1.0000 120 chr4:1053702-1053822 1.0000 120 chr2L:11446224-11446344 1.0000 120 chr4:556570-556690 1.0000 120 chr3L:12507256-12507376 1.0000 120 chr2L:4031363-4031483 1.0000 120 chr3L:10698424-10698544 1.0000 120 chr3R:23191507-23191627 1.0000 120 chr3L:2894833-2894953 1.0000 120 chr3R:28635102-28635222 1.0000 120 chr2R:9131823-9131943 1.0000 120 chr3R:28597625-28597745 1.0000 120 chr2R:16017712-16017832 1.0000 120 chr3R:4197088-4197208 1.0000 120 chr2R:6636131-6636251 1.0000 120 chr3R:24360042-24360162 1.0000 120 chr3R:17718513-17718633 1.0000 120 chrX:7323714-7323834 1.0000 120 chr2L:9711329-9711449 1.0000 120 chr3L:9854938-9855058 1.0000 120 chr4:1230690-1230810 1.0000 120 chr2R:8106282-8106402 1.0000 120 chr2R:6741822-6741942 1.0000 120 chrX:15944904-15945024 1.0000 120 chr2R:22562032-22562152 1.0000 120 chrX:18653030-18653150 1.0000 120 chr3R:25047655-25047775 1.0000 120 chr2L:10366609-10366729 1.0000 120 chr2R:7590135-7590255 1.0000 120 chr3R:25652220-25652340 1.0000 120 chrX:6756508-6756628 1.0000 120 chr2L:13641124-13641244 1.0000 120 chr2L:6343599-6343719 1.0000 120 chr2L:143214-143334 1.0000 120 chr2L:2739946-2740066 1.0000 120 chrX:6533984-6534104 1.0000 120 chr3L:16232012-16232132 1.0000 120 chr3R:16359292-16359412 1.0000 120 chr2R:24033921-24034041 1.0000 120 chr2L:9888037-9888157 1.0000 120 chr2L:4333916-4334036 1.0000 120 chr2L:13203825-13203945 1.0000 120 chr2R:9607215-9607335 1.0000 120 chr3R:11689934-11690054 1.0000 120 chrX:8244299-8244419 1.0000 120 chr2L:2192373-2192493 1.0000 120 chr2R:8122942-8123062 1.0000 120 chr2R:20618056-20618176 1.0000 120 chr2R:13133114-13133234 1.0000 120 chr3L:328051-328171 1.0000 120 chr2R:10192322-10192442 1.0000 120 chr2L:701915-702035 1.0000 120 chr2L:20796899-20797019 1.0000 120 chr3R:31745969-31746089 1.0000 120 chr2R:13546793-13546913 1.0000 120 chr2L:7811434-7811554 1.0000 120 chr2R:17789366-17789486 1.0000 120 chr3R:4775538-4775658 1.0000 120 chr2R:24532037-24532157 1.0000 120 chr2L:2133110-2133230 1.0000 120 chr3L:20393466-20393586 1.0000 120 chr2L:1911707-1911827 1.0000 120 chrX:3739837-3739957 1.0000 120 chr3R:24218693-24218813 1.0000 120 chr3L:12804958-12805078 1.0000 120 chr3L:21335147-21335267 1.0000 120 chrX:5917146-5917266 1.0000 120 chr3R:6660073-6660193 1.0000 120 chrX:1927769-1927889 1.0000 120 chr2R:16834146-16834266 1.0000 120 chr2L:892581-892701 1.0000 120 chr3R:19621090-19621210 1.0000 120 chrX:19494384-19494504 1.0000 120 chrX:11558572-11558692 1.0000 120 chr3L:12530160-12530280 1.0000 120 chr2L:18572200-18572320 1.0000 120 chrX:19605187-19605307 1.0000 120 chrX:13285463-13285583 1.0000 120 chr3L:17055544-17055664 1.0000 120 chr2L:21310028-21310148 1.0000 120 chr2L:7993415-7993535 1.0000 120 chr2L:8009406-8009526 1.0000 120 chrX:6759411-6759531 1.0000 120 chr3L:16310089-16310209 1.0000 120 chr2R:23567365-23567485 1.0000 120 chr2R:16516277-16516397 1.0000 120 chr3L:10860281-10860401 1.0000 120 chr2R:22373035-22373155 1.0000 120 chr3L:3411897-3412017 1.0000 120 chr3R:6406716-6406836 1.0000 120 chr3L:329385-329505 1.0000 120 chr3R:16225844-16225964 1.0000 120 chr3L:7869002-7869122 1.0000 120 chrX:11550190-11550310 1.0000 120 chrX:19623014-19623134 1.0000 120 chrX:10463202-10463322 1.0000 120 chr3L:15689593-15689713 1.0000 120 chr2R:23551147-23551267 1.0000 120 chr3L:3905272-3905392 1.0000 120 chr3L:4170548-4170668 1.0000 120 chr3R:16158070-16158190 1.0000 120 chr3L:20295153-20295273 1.0000 120 chr2L:9705880-9706000 1.0000 120 chr2R:10045539-10045659 1.0000 120 chr2L:14619767-14619887 1.0000 120 chrX:8409236-8409356 1.0000 120 chr3R:29503478-29503598 1.0000 120 chr2L:9699282-9699402 1.0000 120 chr3R:18315377-18315497 1.0000 120 chr3L:6217933-6218053 1.0000 120 chr2L:1650129-1650249 1.0000 120 chrX:940809-940929 1.0000 120 chr2R:7885918-7886038 1.0000 120 chr3R:12401775-12401895 1.0000 120 chr3R:26535126-26535246 1.0000 120 chr2R:15848595-15848715 1.0000 120 chr3L:20226290-20226410 1.0000 120 chr2L:16881166-16881286 1.0000 120 chr2L:13882049-13882169 1.0000 120 chr3R:10024142-10024262 1.0000 120 chr2L:20794024-20794144 1.0000 120 chr3L:18618233-18618353 1.0000 120 chrX:5755008-5755128 1.0000 120 chr2R:22640202-22640322 1.0000 120 chr2R:10617621-10617741 1.0000 120 chr3L:15098074-15098194 1.0000 120 chr2L:21051855-21051975 1.0000 120 chr2R:25076809-25076929 1.0000 120 chr2R:7024978-7025098 1.0000 120 chr2L:937016-937136 1.0000 120 chr2R:9836837-9836957 1.0000 120 chr3R:29493458-29493578 1.0000 120 chr2L:7155045-7155165 1.0000 120 chr2R:10122581-10122701 1.0000 120 chr3R:30052565-30052685 1.0000 120 chr3L:10515876-10515996 1.0000 120 chr3L:11358814-11358934 1.0000 120 chrX:4956101-4956221 1.0000 120 chrX:10368038-10368158 1.0000 120 chr2L:6091469-6091589 1.0000 120 chr2L:8610976-8611096 1.0000 120 chr3R:19648717-19648837 1.0000 120 chr3L:2377510-2377630 1.0000 120 chrX:1477007-1477127 1.0000 120 chrX:6663281-6663401 1.0000 120 chr2R:6133466-6133586 1.0000 120 chr3L:21349131-21349251 1.0000 120 chr2L:1724393-1724513 1.0000 120 chrX:17077916-17078036 1.0000 120 chr3R:31985740-31985860 1.0000 120 chr2R:22729210-22729330 1.0000 120 chr3L:224189-224309 1.0000 120 chr2R:20562286-20562406 1.0000 120 chr2L:821336-821456 1.0000 120 chr2R:24292907-24293027 1.0000 120 chr2L:2999182-2999302 1.0000 120 chr2R:17604643-17604763 1.0000 120 chr2R:23964719-23964839 1.0000 120 chr3R:5300704-5300824 1.0000 120 chr3L:10852536-10852656 1.0000 120 chr2R:23202139-23202259 1.0000 120 chrX:8233330-8233450 1.0000 120 chr2R:22066779-22066899 1.0000 120 chr3R:9874621-9874741 1.0000 120 chrX:3719841-3719961 1.0000 120 chr3R:28330857-28330977 1.0000 120 chr3R:23228757-23228877 1.0000 120 chr2R:14769388-14769508 1.0000 120 chr2R:11712239-11712359 1.0000 120 chr2R:22062481-22062601 1.0000 120 chrX:8493584-8493704 1.0000 120 chr3R:30209278-30209398 1.0000 120 chr2L:20840591-20840711 1.0000 120 chr3L:15514564-15514684 1.0000 120 chr2R:15754428-15754548 1.0000 120 chr3R:31805399-31805519 1.0000 120 chr3R:26099400-26099520 1.0000 120 chr3L:15234610-15234730 1.0000 120 chr2R:22546846-22546966 1.0000 120 chr2L:13878927-13879047 1.0000 120 chr3R:26230214-26230334 1.0000 120 chr2R:22312696-22312816 1.0000 120 chr2L:21310798-21310918 1.0000 120 chr3R:13683825-13683945 1.0000 120 chrX:14580498-14580618 1.0000 120 chrX:10764221-10764341 1.0000 120 chr2R:14332344-14332464 1.0000 120 chr3R:16223399-16223519 1.0000 120 chr2R:8751622-8751742 1.0000 120 chrX:8574884-8575004 1.0000 120 chr3R:30134849-30134969 1.0000 120 chr3R:29255208-29255328 1.0000 120 chr3R:15342942-15343062 1.0000 120 chr3L:20389140-20389260 1.0000 120 chr2R:24763088-24763208 1.0000 120 chr3L:5654673-5654793 1.0000 120 chr3R:4429285-4429405 1.0000 120 chrX:2720294-2720414 1.0000 120 chr2L:1837847-1837967 1.0000 120 chr3L:10866721-10866841 1.0000 120 chr2L:3862635-3862755 1.0000 120 chr2R:17586049-17586169 1.0000 120 chr2L:17384105-17384225 1.0000 120 chr3L:5932670-5932790 1.0000 120 chrX:15710421-15710541 1.0000 120 chrX:11325296-11325416 1.0000 120 chr2R:21480973-21481093 1.0000 120 chr2R:18811949-18812069 1.0000 120 chr3R:22447408-22447528 1.0000 120 chrX:6678234-6678354 1.0000 120 chr3L:20816065-20816185 1.0000 120 chr3R:29891348-29891468 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_her/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/her.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 0.272 C 0.229 G 0.223 T 0.276 Background letter frequencies (from file dataset with add-one prior applied): A 0.272 C 0.229 G 0.223 T 0.276 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TATCGATA MEME-1 width = 8 sites = 39 llr = 364 E-value = 1.2e-015 ******************************************************************************** -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 Description -------------------------------------------------------------------------------- Simplified A 2a:::a:7 pos.-specific C 1::a:::: probability G ::::a::: matrix T 8:a:::a3 bits 2.2 ** 1.9 ***** 1.7 ****** 1.5 ****** Relative 1.3 ****** Entropy 1.1 ******* (13.5 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TATCGATA consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:20816065-20816185 4 2.16e-05 TGT TATCGATA AGCAGTGTTG chrX:11325296-11325416 48 2.16e-05 GAACACTCAC TATCGATA GGCCGTGTCT chr2L:17384105-17384225 85 2.16e-05 CTTTGAGTAC TATCGATA AAATACCACA chrX:2720294-2720414 79 2.16e-05 GTTCGATGAT TATCGATA TTGAGTAGTA chr3R:13683825-13683945 99 2.16e-05 TCTGGCCGAG TATCGATA CGCAGATATT chr3R:30209278-30209398 81 2.16e-05 TGAAAATATA TATCGATA GGTTCGTTTA chrX:1477007-1477127 30 2.16e-05 CGCGCAGAGC TATCGATA AGTATCGCGA chr2R:9836837-9836957 68 2.16e-05 TGCAACTACC TATCGATA AGTCTATGGC chrX:19623014-19623134 49 2.16e-05 GATGGCAAGT TATCGATA GCCTGGAAGC chr2R:8122942-8123062 23 2.16e-05 GTTGTTACCC TATCGATA TGCTATCGAA chr3R:25047655-25047775 29 2.16e-05 TTTCGCCGAC TATCGATA GACGGGCTCA chrX:18653030-18653150 83 2.16e-05 TGCTCGATAA TATCGATA TTTAAGCAAT chr2R:6741822-6741942 40 2.16e-05 ATCCACTGCC TATCGATA ATATCTAGCT chr2R:8106282-8106402 78 2.16e-05 CAGCACTGCC TATCGATA TTGGTGTGAA chr2L:9711329-9711449 79 2.16e-05 AGTTTCGATA TATCGATA GGTAACAGCT chr3R:4197088-4197208 103 2.16e-05 ATACTTTCAT TATCGATA TGTATGCGTT chr3R:28635102-28635222 103 2.16e-05 TACTGCGAGC TATCGATA ACCGTTTGCA chr3L:5794140-5794260 88 2.16e-05 GCGTTCACGT TATCGATA ACTATATGTC chr3R:26964944-26965064 82 2.16e-05 ATATGAGTCT TATCGATA AGATTTTTTT chr2L:3867608-3867728 99 2.16e-05 CGCCTCCAAT TATCGATA GACGTAGTAT chr3R:30807053-30807173 68 2.16e-05 AGAACAGCGC TATCGATA AGCTATCGTA chr3R:31985740-31985860 69 4.35e-05 GGGATCGATA TATCGATT GCGTTTTTGA chrX:5755008-5755128 15 4.35e-05 TATCGAATAC TATCGATT TACCGCCAAG chr3R:29503478-29503598 53 4.35e-05 GCGGCCCATC TATCGATT GGTGCTGCTG chr3L:20393466-20393586 87 4.35e-05 ACAAATGGTA TATCGATT ATTTCACTCT chr3R:17718513-17718633 73 4.35e-05 TTGGCATCGA TATCGATT TCTCGCTACT chrX:1927567-1927687 63 4.35e-05 GTACGGATGG TATCGATT AAATTCCCAA chr3R:7186937-7187057 93 4.35e-05 CAGTCGCCAT TATCGATT TGTGGCAGAG chr2R:18128397-18128517 10 4.35e-05 GTGGTCTGT TATCGATT CGATATCGAA chr2L:2999182-2999302 45 6.48e-05 GAACACAAAC AATCGATA GTCGACAGCA chr2R:22640202-22640322 1 6.48e-05 . AATCGATA GGTCATTCAA chrX:14580498-14580618 53 8.27e-05 CTTGCTGGCC CATCGATA AGAAGCGGTT chr3L:21335147-21335267 45 8.27e-05 CATCGCCCAA CATCGATA TCAAGAGAAA chrX:8129683-8129803 110 8.27e-05 TTGAAAATTG CATCGATA CCT chr3R:19648717-19648837 11 1.04e-04 CAATACTAAC AATCGATT ACCTCGACTT chr2R:16834146-16834266 4 1.04e-04 GAC AATCGATT CTGTCAGTGG chr3L:343035-343155 63 1.04e-04 AGCGCCGTTC AATCGATT AAGCTTTAGG chr3L:3909573-3909693 34 1.04e-04 TGGCCATATT AATCGATT TATCGCGGCG chr2R:19227248-19227368 86 1.44e-04 CCTGTGCTGT TATCGAAA AATACGATAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:20816065-20816185 2.2e-05 3_[+1]_109 chrX:11325296-11325416 2.2e-05 47_[+1]_65 chr2L:17384105-17384225 2.2e-05 84_[+1]_28 chrX:2720294-2720414 2.2e-05 78_[+1]_34 chr3R:13683825-13683945 2.2e-05 98_[+1]_14 chr3R:30209278-30209398 2.2e-05 80_[+1]_32 chrX:1477007-1477127 2.2e-05 29_[+1]_83 chr2R:9836837-9836957 2.2e-05 67_[+1]_45 chrX:19623014-19623134 2.2e-05 48_[+1]_64 chr2R:8122942-8123062 2.2e-05 22_[+1]_90 chr3R:25047655-25047775 2.2e-05 28_[+1]_84 chrX:18653030-18653150 2.2e-05 82_[+1]_30 chr2R:6741822-6741942 2.2e-05 39_[+1]_73 chr2R:8106282-8106402 2.2e-05 77_[+1]_35 chr2L:9711329-9711449 2.2e-05 78_[+1]_34 chr3R:4197088-4197208 2.2e-05 102_[+1]_10 chr3R:28635102-28635222 2.2e-05 102_[+1]_10 chr3L:5794140-5794260 2.2e-05 87_[+1]_25 chr3R:26964944-26965064 2.2e-05 81_[+1]_31 chr2L:3867608-3867728 2.2e-05 98_[+1]_14 chr3R:30807053-30807173 2.2e-05 67_[+1]_45 chr3R:31985740-31985860 4.4e-05 68_[+1]_44 chrX:5755008-5755128 4.4e-05 14_[+1]_98 chr3R:29503478-29503598 4.4e-05 52_[+1]_60 chr3L:20393466-20393586 4.4e-05 86_[+1]_26 chr3R:17718513-17718633 4.4e-05 72_[+1]_40 chrX:1927567-1927687 4.4e-05 62_[+1]_50 chr3R:7186937-7187057 4.4e-05 92_[+1]_20 chr2R:18128397-18128517 4.4e-05 9_[+1]_103 chr2L:2999182-2999302 6.5e-05 44_[+1]_68 chr2R:22640202-22640322 6.5e-05 [+1]_112 chrX:14580498-14580618 8.3e-05 52_[+1]_60 chr3L:21335147-21335267 8.3e-05 44_[+1]_68 chrX:8129683-8129803 8.3e-05 109_[+1]_3 chr3R:19648717-19648837 0.0001 10_[+1]_102 chr2R:16834146-16834266 0.0001 3_[+1]_109 chr3L:343035-343155 0.0001 62_[+1]_50 chr3L:3909573-3909693 0.0001 33_[+1]_79 chr2R:19227248-19227368 0.00014 85_[+1]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TATCGATA width=8 seqs=39 chr3L:20816065-20816185 ( 4) TATCGATA 1 chrX:11325296-11325416 ( 48) TATCGATA 1 chr2L:17384105-17384225 ( 85) TATCGATA 1 chrX:2720294-2720414 ( 79) TATCGATA 1 chr3R:13683825-13683945 ( 99) TATCGATA 1 chr3R:30209278-30209398 ( 81) TATCGATA 1 chrX:1477007-1477127 ( 30) TATCGATA 1 chr2R:9836837-9836957 ( 68) TATCGATA 1 chrX:19623014-19623134 ( 49) TATCGATA 1 chr2R:8122942-8123062 ( 23) TATCGATA 1 chr3R:25047655-25047775 ( 29) TATCGATA 1 chrX:18653030-18653150 ( 83) TATCGATA 1 chr2R:6741822-6741942 ( 40) TATCGATA 1 chr2R:8106282-8106402 ( 78) TATCGATA 1 chr2L:9711329-9711449 ( 79) TATCGATA 1 chr3R:4197088-4197208 ( 103) TATCGATA 1 chr3R:28635102-28635222 ( 103) TATCGATA 1 chr3L:5794140-5794260 ( 88) TATCGATA 1 chr3R:26964944-26965064 ( 82) TATCGATA 1 chr2L:3867608-3867728 ( 99) TATCGATA 1 chr3R:30807053-30807173 ( 68) TATCGATA 1 chr3R:31985740-31985860 ( 69) TATCGATT 1 chrX:5755008-5755128 ( 15) TATCGATT 1 chr3R:29503478-29503598 ( 53) TATCGATT 1 chr3L:20393466-20393586 ( 87) TATCGATT 1 chr3R:17718513-17718633 ( 73) TATCGATT 1 chrX:1927567-1927687 ( 63) TATCGATT 1 chr3R:7186937-7187057 ( 93) TATCGATT 1 chr2R:18128397-18128517 ( 10) TATCGATT 1 chr2L:2999182-2999302 ( 45) AATCGATA 1 chr2R:22640202-22640322 ( 1) AATCGATA 1 chrX:14580498-14580618 ( 53) CATCGATA 1 chr3L:21335147-21335267 ( 45) CATCGATA 1 chrX:8129683-8129803 ( 110) CATCGATA 1 chr3R:19648717-19648837 ( 11) AATCGATT 1 chr2R:16834146-16834266 ( 4) AATCGATT 1 chr3L:343035-343155 ( 63) AATCGATT 1 chr3L:3909573-3909693 ( 34) AATCGATT 1 chr2R:19227248-19227368 ( 86) TATCGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.4203 E= 1.2e-015 -82 -157 -1193 148 188 -1193 -1193 -1193 -1193 -1193 -1193 185 -1193 213 -1193 -1193 -1193 -1193 217 -1193 188 -1193 -1193 -1193 -340 -1193 -1193 182 135 -1193 -1193 15 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 39 E= 1.2e-015 0.153846 0.076923 0.000000 0.769231 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.025641 0.000000 0.000000 0.974359 0.692308 0.000000 0.000000 0.307692 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-1 regular expression -------------------------------------------------------------------------------- TATCGAT[AT] -------------------------------------------------------------------------------- Time 7.38 secs. ******************************************************************************** ******************************************************************************** MOTIF GTGTGACC MEME-2 width = 8 sites = 12 llr = 129 E-value = 4.5e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::::a:: pos.-specific C ::::::a8 probability G a:a:a::3 matrix T :a:a:::: bits 2.2 * * * * 1.9 ******* 1.7 ******* 1.5 ******* Relative 1.3 ******** Entropy 1.1 ******** (15.5 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GTGTGACC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:4429285-4429405 46 1.20e-05 GGCACAGACA GTGTGACC AGGGGCGCGC chr2R:14769388-14769508 31 1.20e-05 TTAAGAGACA GTGTGACC GTGGAGCAAT chr3R:6660073-6660193 5 1.20e-05 TACA GTGTGACC GTAGGTAGAG chr2L:2192373-2192493 18 1.20e-05 TCCAGTGAGC GTGTGACC AGAGGAGATA chr3L:16232012-16232132 5 1.20e-05 AACA GTGTGACC TTGCTATTCC chrX:18653030-18653150 26 1.20e-05 GCGGGTATGT GTGTGACC GGATGGCGAA chr4:1230690-1230810 11 1.20e-05 GAGAAGAACA GTGTGACC GTGTTAAAAC chr3R:24360042-24360162 83 1.20e-05 GTGATATTAA GTGTGACC GCGGAATGGC chrX:15940401-15940521 31 1.20e-05 GGGTTGAACG GTGTGACC AGTCGACTGA chr3L:5654673-5654793 29 2.38e-05 CGCGGAGTCA GTGTGACG AAGTGCGTCG chr3L:9854938-9855058 80 2.38e-05 CATTGAGCTG GTGTGACG GGAATATGAG chr3R:17718513-17718633 45 2.38e-05 CGATATTTGA GTGTGACG CAAAAATGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:4429285-4429405 1.2e-05 45_[+2]_67 chr2R:14769388-14769508 1.2e-05 30_[+2]_82 chr3R:6660073-6660193 1.2e-05 4_[+2]_108 chr2L:2192373-2192493 1.2e-05 17_[+2]_95 chr3L:16232012-16232132 1.2e-05 4_[+2]_108 chrX:18653030-18653150 1.2e-05 25_[+2]_87 chr4:1230690-1230810 1.2e-05 10_[+2]_102 chr3R:24360042-24360162 1.2e-05 82_[+2]_30 chrX:15940401-15940521 1.2e-05 30_[+2]_82 chr3L:5654673-5654793 2.4e-05 28_[+2]_84 chr3L:9854938-9855058 2.4e-05 79_[+2]_33 chr3R:17718513-17718633 2.4e-05 44_[+2]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTGTGACC width=8 seqs=12 chr3R:4429285-4429405 ( 46) GTGTGACC 1 chr2R:14769388-14769508 ( 31) GTGTGACC 1 chr3R:6660073-6660193 ( 5) GTGTGACC 1 chr2L:2192373-2192493 ( 18) GTGTGACC 1 chr3L:16232012-16232132 ( 5) GTGTGACC 1 chrX:18653030-18653150 ( 26) GTGTGACC 1 chr4:1230690-1230810 ( 11) GTGTGACC 1 chr3R:24360042-24360162 ( 83) GTGTGACC 1 chrX:15940401-15940521 ( 31) GTGTGACC 1 chr3L:5654673-5654793 ( 29) GTGTGACG 1 chr3L:9854938-9855058 ( 80) GTGTGACG 1 chr3R:17718513-17718633 ( 45) GTGTGACG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.648 E= 4.5e+000 -1023 -1023 216 -1023 -1023 -1023 -1023 185 -1023 -1023 216 -1023 -1023 -1023 -1023 185 -1023 -1023 216 -1023 188 -1023 -1023 -1023 -1023 213 -1023 -1023 -1023 171 17 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 4.5e+000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGACC MEME-2 regular expression -------------------------------------------------------------------------------- GTGTGAC[CG] -------------------------------------------------------------------------------- Time 13.59 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTCACAC MEME-3 width = 8 sites = 14 llr = 147 E-value = 6.7e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::::a:a: pos.-specific C :11a:a:a probability G a9:::::: matrix T ::9::::: bits 2.2 * * * * 1.9 * ***** 1.7 * ***** 1.5 ** ***** Relative 1.3 ******** Entropy 1.1 ******** (15.2 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGTCACAC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:24763088-24763208 73 1.22e-05 ATAAGCATAC GGTCACAC TTAGAGTCTC chr2L:821336-821456 97 1.22e-05 AATTAGAACT GGTCACAC TGGCTTGTCT chrX:19623014-19623134 106 1.22e-05 ATGCAGCCGC GGTCACAC TACTAGC chr3L:12530160-12530280 34 1.22e-05 GCGGCCAAGC GGTCACAC TGCGCTGAAA chr3R:4775538-4775658 60 1.22e-05 GGTCAAGTAC GGTCACAC TGCCAAGCGC chr3R:31745969-31746089 56 1.22e-05 ATCGTCAAGT GGTCACAC TGGGCAGCCA chr3L:328051-328171 29 1.22e-05 TATCAAGCAC GGTCACAC TTTATCTTAT chrX:15944904-15945024 87 1.22e-05 TTCAATCAAC GGTCACAC TGTAAGCCTA chr3L:5794140-5794260 16 1.22e-05 TGCGGGCTGC GGTCACAC CTGGGAATTT chrX:2624722-2624842 106 1.22e-05 AATGCGCGCT GGTCACAC TGGCGAA chr2R:23964719-23964839 48 2.23e-05 CACCAGCTCT GGCCACAC TCGCCCGCCT chr3R:30052565-30052685 84 2.23e-05 CTCTTGAGCT GGCCACAC TGTCGATCGA chr2L:143214-143334 91 3.48e-05 TTCTTAAACA GCTCACAC ATTACCGATG chr3R:23191507-23191627 45 3.48e-05 CAAGCAGAAA GCTCACAC TGAGAGAAAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:24763088-24763208 1.2e-05 72_[+3]_40 chr2L:821336-821456 1.2e-05 96_[+3]_16 chrX:19623014-19623134 1.2e-05 105_[+3]_7 chr3L:12530160-12530280 1.2e-05 33_[+3]_79 chr3R:4775538-4775658 1.2e-05 59_[+3]_53 chr3R:31745969-31746089 1.2e-05 55_[+3]_57 chr3L:328051-328171 1.2e-05 28_[+3]_84 chrX:15944904-15945024 1.2e-05 86_[+3]_26 chr3L:5794140-5794260 1.2e-05 15_[+3]_97 chrX:2624722-2624842 1.2e-05 105_[+3]_7 chr2R:23964719-23964839 2.2e-05 47_[+3]_65 chr3R:30052565-30052685 2.2e-05 83_[+3]_29 chr2L:143214-143334 3.5e-05 90_[+3]_22 chr3R:23191507-23191627 3.5e-05 44_[+3]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTCACAC width=8 seqs=14 chr2R:24763088-24763208 ( 73) GGTCACAC 1 chr2L:821336-821456 ( 97) GGTCACAC 1 chrX:19623014-19623134 ( 106) GGTCACAC 1 chr3L:12530160-12530280 ( 34) GGTCACAC 1 chr3R:4775538-4775658 ( 60) GGTCACAC 1 chr3R:31745969-31746089 ( 56) GGTCACAC 1 chr3L:328051-328171 ( 29) GGTCACAC 1 chrX:15944904-15945024 ( 87) GGTCACAC 1 chr3L:5794140-5794260 ( 16) GGTCACAC 1 chrX:2624722-2624842 ( 106) GGTCACAC 1 chr2R:23964719-23964839 ( 48) GGCCACAC 1 chr3R:30052565-30052685 ( 84) GGCCACAC 1 chr2L:143214-143334 ( 91) GCTCACAC 1 chr3R:23191507-23191627 ( 45) GCTCACAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.5839 E= 6.7e-001 -1045 -1045 216 -1045 -1045 -68 194 -1045 -1045 -68 -1045 163 -1045 213 -1045 -1045 188 -1045 -1045 -1045 -1045 213 -1045 -1045 188 -1045 -1045 -1045 -1045 213 -1045 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 6.7e-001 0.000000 0.000000 1.000000 0.000000 0.000000 0.142857 0.857143 0.000000 0.000000 0.142857 0.000000 0.857143 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTCACAC MEME-3 regular expression -------------------------------------------------------------------------------- GGTCACAC -------------------------------------------------------------------------------- Time 19.81 secs. ******************************************************************************** ******************************************************************************** MOTIF GCTCAAAA MEME-4 width = 8 sites = 12 llr = 126 E-value = 6.3e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::::aaaa pos.-specific C :a:8:::: probability G a::2:::: matrix T ::a::::: bits 2.2 ** 1.9 *** **** 1.7 *** **** 1.5 ******** Relative 1.3 ******** Entropy 1.1 ******** (15.1 bits) 0.9 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCTCAAAA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:31805399-31805519 36 1.77e-05 AGCAGCGGTG GCTCAAAA CCGTGATAAT chr3L:20226290-20226410 45 1.77e-05 GTTGTATGAT GCTCAAAA AACGAATGCG chr2L:701915-702035 31 1.77e-05 GAATGTGAGC GCTCAAAA ATGCGTTAAA chr3R:16359292-16359412 82 1.77e-05 GCACTGGTGT GCTCAAAA TGAGCACAGC chr3L:16232012-16232132 45 1.77e-05 AAATCCGAAT GCTCAAAA TTGCGTTTGA chr2L:6343599-6343719 26 1.77e-05 CAAACTAGCA GCTCAAAA ATGCGTCGTT chr2R:6636131-6636251 109 1.77e-05 ACATTATTCA GCTCAAAA CTGA chr3R:28635102-28635222 62 1.77e-05 ATTCTCCCGA GCTCAAAA TCGCGTTCGC chrX:8129683-8129803 2 1.77e-05 A GCTCAAAA TGTTGGATTT chr3L:3417949-3418069 70 1.77e-05 CGCGCTGTTG GCTCAAAA AGAGCCCGCT chrX:15710421-15710541 62 3.49e-05 cgGAGCAGCT GCTGAAAA GTGCCTGCTG chr2R:17789366-17789486 11 3.49e-05 TGCGAATTTC GCTGAAAA TGGTTCGTTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:31805399-31805519 1.8e-05 35_[+4]_77 chr3L:20226290-20226410 1.8e-05 44_[+4]_68 chr2L:701915-702035 1.8e-05 30_[+4]_82 chr3R:16359292-16359412 1.8e-05 81_[+4]_31 chr3L:16232012-16232132 1.8e-05 44_[+4]_68 chr2L:6343599-6343719 1.8e-05 25_[+4]_87 chr2R:6636131-6636251 1.8e-05 108_[+4]_4 chr3R:28635102-28635222 1.8e-05 61_[+4]_51 chrX:8129683-8129803 1.8e-05 1_[+4]_111 chr3L:3417949-3418069 1.8e-05 69_[+4]_43 chrX:15710421-15710541 3.5e-05 61_[+4]_51 chr2R:17789366-17789486 3.5e-05 10_[+4]_102 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCTCAAAA width=8 seqs=12 chr3R:31805399-31805519 ( 36) GCTCAAAA 1 chr3L:20226290-20226410 ( 45) GCTCAAAA 1 chr2L:701915-702035 ( 31) GCTCAAAA 1 chr3R:16359292-16359412 ( 82) GCTCAAAA 1 chr3L:16232012-16232132 ( 45) GCTCAAAA 1 chr2L:6343599-6343719 ( 26) GCTCAAAA 1 chr2R:6636131-6636251 ( 109) GCTCAAAA 1 chr3R:28635102-28635222 ( 62) GCTCAAAA 1 chrX:8129683-8129803 ( 2) GCTCAAAA 1 chr3L:3417949-3418069 ( 70) GCTCAAAA 1 chrX:15710421-15710541 ( 62) GCTGAAAA 1 chr2R:17789366-17789486 ( 11) GCTGAAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.648 E= 6.3e+001 -1023 -1023 216 -1023 -1023 213 -1023 -1023 -1023 -1023 -1023 185 -1023 187 -42 -1023 188 -1023 -1023 -1023 188 -1023 -1023 -1023 188 -1023 -1023 -1023 188 -1023 -1023 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 6.3e+001 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 0.833333 0.166667 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 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCAAAA MEME-4 regular expression -------------------------------------------------------------------------------- GCTCAAAA -------------------------------------------------------------------------------- Time 26.07 secs. ******************************************************************************** ******************************************************************************** MOTIF GSCARCDS MEME-5 width = 8 sites = 35 llr = 295 E-value = 3.0e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::a4:2: pos.-specific C :4a::a:6 probability G a6::6:44 matrix T ::::::4: bits 2.2 * * * 1.9 * ** * 1.7 * ** * 1.5 * ** * Relative 1.3 * ** * Entropy 1.1 ****** * (12.2 bits) 0.9 ****** * 0.6 ****** * 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGCAGCGC consensus C A TG sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:17384105-17384225 33 8.08e-06 ATGCTACTTG GGCAGCGC TGGAAACGTT chr2R:23964719-23964839 25 8.08e-06 GCTGATTGCG GGCAGCGC ACATTCACCA chrX:10463202-10463322 5 8.08e-06 AGGT GGCAGCGC TGGCTGCGAG chr2L:11446224-11446344 91 8.08e-06 catctcgctc GGCAGCGC AGTTATGAGC chr2L:9699282-9699402 64 1.81e-05 GCCAGCGATA GGCAGCTC GCTCAGCGTG chrX:19494384-19494504 1 2.64e-05 . GCCAGCGC GAAACAGAAC chrX:2624722-2624842 74 2.64e-05 GCACTTCGCA GCCAGCGC CACATTTGCT chr3R:4429285-4429405 30 3.42e-05 CGAGATTCGC GGCAGCGG CACAGACAGT chr3L:10515876-10515996 33 3.42e-05 TAGCGCATCT GGCAGCGG CGCAACAGCG chr3L:20516541-20516661 69 3.42e-05 ACTGTGCGGC GGCAGCGG CTCTAAAAAT chr2L:16881166-16881286 28 4.45e-05 AGTTGCGGTG GCCAGCTC CACCGGCGAG chr2R:22312696-22312816 48 5.42e-05 CCATGTATGC GGCAGCTG AGTGGCAAAA chr2R:11712239-11712359 59 8.20e-05 GTAGATCGCT GCCAGCGG AAGCAACGGA chr2R:22066779-22066899 84 8.20e-05 CCGACTAGGT GGCAACGC CGCGACGTCA chr2R:16834146-16834266 21 8.20e-05 TCTGTCAGTG GCCAGCGG CTGAAATGTT chr3R:16359292-16359412 68 8.20e-05 GTAATCGATG GGCAGCAC TGGTGTGCTC chr2L:2739946-2740066 110 8.20e-05 TCATTGATGT GGCAGCAC TAG chr2R:8106282-8106402 66 8.20e-05 TAGCTCAGCG GGCAGCAC TGCCTATCGA chrX:7323714-7323834 84 8.20e-05 ATTCGAAGAT GGCAACGC TGAAATATCG chr3L:15234610-15234730 76 1.04e-04 TCGGCAAGGT GCCAGCTG TGGGTGTGAA chr3R:26099400-26099520 101 1.04e-04 AAGATGTGCT GGCAACTC TGCTCATTTA chr2R:7590135-7590255 18 1.04e-04 GGCAGCCCTT GGCAACTC ACCACTGGCA chr2R:6741822-6741942 15 1.04e-04 GGTGCCGTCG GCCAGCTG ACAATCCATC chr2R:13507529-13507649 17 1.04e-04 TCCACCATGT GGCAACTC TGGCGCACAG chr2R:22729210-22729330 57 1.24e-04 ATCTTCGACT GCCAACGC GACTCTCGAT chr2L:6343599-6343719 78 1.44e-04 GCTTTTGACT GGCAGCAG TCGCACGGAA chr2R:14769388-14769508 69 1.56e-04 TACTCTCTGT GCCAACTC TAAAACTCCA chr3R:9874621-9874741 71 1.56e-04 GTCTCTGATA GCCAACTC TCGGAAGCAG chr2L:21221176-21221296 76 1.56e-04 TGCATCGACT GCCAACTC GCTTCAATTA chr2R:20562286-20562406 35 1.68e-04 TTAGAGATGG GGCAACTG TGGTCCTCCG chr2R:10192322-10192442 47 2.00e-04 acacgtagcg gccagcag cagcgttggc chr2L:8010770-8010890 102 2.12e-04 TTGACTGATC GCCAACTG TAGAAATTTC chr3L:2377510-2377630 57 2.24e-04 ACCGCTGTTA GCCAACAC TGAAAAGTGG chr3R:31805399-31805519 55 2.36e-04 CGTGATAATA GGCAACAG TGTACACTTT chr3R:14481851-14481971 91 2.48e-04 CTCAAACTGC GCCAACAG CTCAATTCGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:17384105-17384225 8.1e-06 32_[+5]_80 chr2R:23964719-23964839 8.1e-06 24_[+5]_88 chrX:10463202-10463322 8.1e-06 4_[+5]_108 chr2L:11446224-11446344 8.1e-06 90_[+5]_22 chr2L:9699282-9699402 1.8e-05 63_[+5]_49 chrX:19494384-19494504 2.6e-05 [+5]_112 chrX:2624722-2624842 2.6e-05 73_[+5]_39 chr3R:4429285-4429405 3.4e-05 29_[+5]_83 chr3L:10515876-10515996 3.4e-05 32_[+5]_80 chr3L:20516541-20516661 3.4e-05 68_[+5]_44 chr2L:16881166-16881286 4.5e-05 27_[+5]_85 chr2R:22312696-22312816 5.4e-05 47_[+5]_65 chr2R:11712239-11712359 8.2e-05 58_[+5]_54 chr2R:22066779-22066899 8.2e-05 83_[+5]_29 chr2R:16834146-16834266 8.2e-05 20_[+5]_92 chr3R:16359292-16359412 8.2e-05 67_[+5]_45 chr2L:2739946-2740066 8.2e-05 109_[+5]_3 chr2R:8106282-8106402 8.2e-05 65_[+5]_47 chrX:7323714-7323834 8.2e-05 83_[+5]_29 chr3L:15234610-15234730 0.0001 75_[+5]_37 chr3R:26099400-26099520 0.0001 100_[+5]_12 chr2R:7590135-7590255 0.0001 17_[+5]_95 chr2R:6741822-6741942 0.0001 14_[+5]_98 chr2R:13507529-13507649 0.0001 16_[+5]_96 chr2R:22729210-22729330 0.00012 56_[+5]_56 chr2L:6343599-6343719 0.00014 77_[+5]_35 chr2R:14769388-14769508 0.00016 68_[+5]_44 chr3R:9874621-9874741 0.00016 70_[+5]_42 chr2L:21221176-21221296 0.00016 75_[+5]_37 chr2R:20562286-20562406 0.00017 34_[+5]_78 chr2R:10192322-10192442 0.0002 46_[+5]_66 chr2L:8010770-8010890 0.00021 101_[+5]_11 chr3L:2377510-2377630 0.00022 56_[+5]_56 chr3R:31805399-31805519 0.00024 54_[+5]_58 chr3R:14481851-14481971 0.00025 90_[+5]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSCARCDS width=8 seqs=35 chr2L:17384105-17384225 ( 33) GGCAGCGC 1 chr2R:23964719-23964839 ( 25) GGCAGCGC 1 chrX:10463202-10463322 ( 5) GGCAGCGC 1 chr2L:11446224-11446344 ( 91) GGCAGCGC 1 chr2L:9699282-9699402 ( 64) GGCAGCTC 1 chrX:19494384-19494504 ( 1) GCCAGCGC 1 chrX:2624722-2624842 ( 74) GCCAGCGC 1 chr3R:4429285-4429405 ( 30) GGCAGCGG 1 chr3L:10515876-10515996 ( 33) GGCAGCGG 1 chr3L:20516541-20516661 ( 69) GGCAGCGG 1 chr2L:16881166-16881286 ( 28) GCCAGCTC 1 chr2R:22312696-22312816 ( 48) GGCAGCTG 1 chr2R:11712239-11712359 ( 59) GCCAGCGG 1 chr2R:22066779-22066899 ( 84) GGCAACGC 1 chr2R:16834146-16834266 ( 21) GCCAGCGG 1 chr3R:16359292-16359412 ( 68) GGCAGCAC 1 chr2L:2739946-2740066 ( 110) GGCAGCAC 1 chr2R:8106282-8106402 ( 66) GGCAGCAC 1 chrX:7323714-7323834 ( 84) GGCAACGC 1 chr3L:15234610-15234730 ( 76) GCCAGCTG 1 chr3R:26099400-26099520 ( 101) GGCAACTC 1 chr2R:7590135-7590255 ( 18) GGCAACTC 1 chr2R:6741822-6741942 ( 15) GCCAGCTG 1 chr2R:13507529-13507649 ( 17) GGCAACTC 1 chr2R:22729210-22729330 ( 57) GCCAACGC 1 chr2L:6343599-6343719 ( 78) GGCAGCAG 1 chr2R:14769388-14769508 ( 69) GCCAACTC 1 chr3R:9874621-9874741 ( 71) GCCAACTC 1 chr2L:21221176-21221296 ( 76) GCCAACTC 1 chr2R:20562286-20562406 ( 35) GGCAACTG 1 chr2R:10192322-10192442 ( 47) GCCAGCAG 1 chr2L:8010770-8010890 ( 102) GCCAACTG 1 chr3L:2377510-2377630 ( 57) GCCAACAC 1 chr3R:31805399-31805519 ( 55) GGCAACAG 1 chr3R:14481851-14481971 ( 91) GCCAACAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4349 E= 3.0e+003 -1177 -1177 217 -1177 -1177 91 136 -1177 -1177 213 -1177 -1177 188 -1177 -1177 -1177 56 -1177 143 -1177 -1177 213 -1177 -1177 -25 -1177 84 43 -1177 139 84 -1177 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 3.0e+003 0.000000 0.000000 1.000000 0.000000 0.000000 0.428571 0.571429 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.228571 0.000000 0.400000 0.371429 0.000000 0.600000 0.400000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCARCDS MEME-5 regular expression -------------------------------------------------------------------------------- G[GC]CA[GA]C[GTA][CG] -------------------------------------------------------------------------------- Time 32.26 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:12534507-12534627 5.01e-01 120 chr3R:30807053-30807173 7.53e-02 67_[+1(2.16e-05)]_45 chrX:15940994-15941114 8.68e-01 120 chr2L:4794554-4794674 5.98e-01 120 chr3L:12537257-12537377 8.92e-01 120 chr2R:18128397-18128517 5.05e-02 9_[+1(4.35e-05)]_103 chrX:5965615-5965735 1.60e-01 120 chr3R:31463153-31463273 9.97e-01 120 chr3L:3417949-3418069 4.98e-03 69_[+4(1.77e-05)]_43 chrX:2624722-2624842 2.05e-03 73_[+5(2.64e-05)]_24_[+3(1.22e-05)]_\ 7 chr3R:30459161-30459281 1.87e-01 120 chr2L:8010770-8010890 4.30e-02 120 chr2R:11360082-11360202 5.64e-01 120 chr2L:3867608-3867728 6.29e-02 34_[+1(6.48e-05)]_56_[+1(2.16e-05)]_\ 14 chr2R:19227248-19227368 2.71e-01 120 chr3R:7186937-7187057 1.16e-02 92_[+1(4.35e-05)]_20 chr2L:8415185-8415305 6.31e-01 120 chrX:1927567-1927687 1.32e-03 62_[+1(4.35e-05)]_50 chr3R:26964944-26965064 1.49e-01 81_[+1(2.16e-05)]_31 chr2L:8029368-8029488 6.29e-01 120 chr3L:3909573-3909693 1.33e-01 120 chr3L:16711960-16712080 4.77e-01 120 chr2R:22562345-22562465 7.64e-01 120 chr3R:14481851-14481971 6.54e-03 120 chr2R:13507529-13507649 2.66e-01 120 chr3L:20516541-20516661 1.14e-02 68_[+5(3.42e-05)]_44 chr3L:10698219-10698339 8.12e-01 120 chr2R:7823518-7823638 7.41e-01 120 chr2L:21221176-21221296 2.30e-01 120 chr2R:11451864-11451984 1.56e-01 120 chr4:557919-558039 4.83e-01 120 chrX:15940401-15940521 6.93e-03 30_[+2(1.20e-05)]_82 chrX:8129683-8129803 4.05e-03 1_[+4(1.77e-05)]_100_[+1(8.27e-05)]_\ 3 chr3L:343035-343155 1.19e-01 120 chr2R:16516075-16516195 6.14e-01 120 chr3L:5794140-5794260 8.73e-04 15_[+3(1.22e-05)]_64_[+1(2.16e-05)]_\ 25 chr2L:11280188-11280308 4.88e-01 120 chr3L:9855162-9855282 6.61e-01 120 chrX:8243428-8243548 5.75e-01 120 chr4:1053702-1053822 1.70e-01 120 chr2L:11446224-11446344 1.23e-02 90_[+5(8.08e-06)]_22 chr4:556570-556690 4.32e-01 120 chr3L:12507256-12507376 4.75e-01 120 chr2L:4031363-4031483 5.37e-01 120 chr3L:10698424-10698544 6.30e-01 120 chr3R:23191507-23191627 7.27e-02 44_[+3(3.48e-05)]_68 chr3L:2894833-2894953 5.26e-01 120 chr3R:28635102-28635222 9.56e-04 61_[+4(1.77e-05)]_33_[+1(2.16e-05)]_\ 10 chr2R:9131823-9131943 1.18e-01 120 chr3R:28597625-28597745 6.65e-01 120 chr2R:16017712-16017832 4.92e-01 120 chr3R:4197088-4197208 3.21e-02 102_[+1(2.16e-05)]_10 chr2R:6636131-6636251 9.99e-02 108_[+4(1.77e-05)]_4 chr3R:24360042-24360162 4.86e-03 82_[+2(1.20e-05)]_30 chr3R:17718513-17718633 2.68e-03 44_[+2(2.38e-05)]_20_[+1(4.35e-05)]_\ 40 chrX:7323714-7323834 3.58e-02 83_[+5(8.20e-05)]_29 chr2L:9711329-9711449 1.41e-02 78_[+1(2.16e-05)]_34 chr3L:9854938-9855058 2.59e-02 79_[+2(2.38e-05)]_33 chr4:1230690-1230810 3.99e-03 10_[+2(1.20e-05)]_102 chr2R:8106282-8106402 1.53e-03 49_[+1(6.48e-05)]_8_[+5(8.20e-05)]_\ 4_[+1(2.16e-05)]_35 chr2R:6741822-6741942 1.54e-04 39_[+1(2.16e-05)]_73 chrX:15944904-15945024 1.15e-02 86_[+3(1.22e-05)]_26 chr2R:22562032-22562152 2.96e-01 120 chrX:18653030-18653150 9.25e-04 25_[+2(1.20e-05)]_49_[+1(2.16e-05)]_\ 30 chr3R:25047655-25047775 2.65e-02 28_[+1(2.16e-05)]_84 chr2L:10366609-10366729 2.95e-01 120 chr2R:7590135-7590255 2.16e-01 120 chr3R:25652220-25652340 2.50e-01 120 chrX:6756508-6756628 3.40e-01 120 chr2L:13641124-13641244 7.10e-01 120 chr2L:6343599-6343719 4.31e-03 25_[+4(1.77e-05)]_87 chr2L:143214-143334 7.76e-02 90_[+3(3.48e-05)]_22 chr2L:2739946-2740066 9.95e-02 73_[+5(8.20e-05)]_28_[+5(8.20e-05)]_\ 3 chrX:6533984-6534104 4.58e-01 120 chr3L:16232012-16232132 1.65e-03 4_[+2(1.20e-05)]_32_[+4(1.77e-05)]_\ 68 chr3R:16359292-16359412 7.70e-04 67_[+5(8.20e-05)]_6_[+4(1.77e-05)]_\ 31 chr2R:24033921-24034041 3.29e-01 120 chr2L:9888037-9888157 4.78e-02 120 chr2L:4333916-4334036 7.76e-01 120 chr2L:13203825-13203945 1.67e-01 120 chr2R:9607215-9607335 9.45e-02 120 chr3R:11689934-11690054 7.48e-01 120 chrX:8244299-8244419 4.84e-01 120 chr2L:2192373-2192493 6.84e-03 17_[+2(1.20e-05)]_95 chr2R:8122942-8123062 3.00e-02 22_[+1(2.16e-05)]_90 chr2R:20618056-20618176 6.30e-01 120 chr2R:13133114-13133234 8.33e-01 120 chr3L:328051-328171 2.15e-03 28_[+3(1.22e-05)]_84 chr2R:10192322-10192442 1.33e-01 120 chr2L:701915-702035 3.48e-02 30_[+4(1.77e-05)]_82 chr2L:20796899-20797019 1.76e-01 100_[+4(8.12e-05)]_12 chr3R:31745969-31746089 2.22e-02 55_[+3(1.22e-05)]_57 chr2R:13546793-13546913 6.09e-01 120 chr2L:7811434-7811554 8.36e-01 120 chr2R:17789366-17789486 8.67e-02 10_[+4(3.49e-05)]_102 chr3R:4775538-4775658 1.15e-01 59_[+3(1.22e-05)]_53 chr2R:24532037-24532157 8.46e-02 120 chr2L:2133110-2133230 5.14e-01 120 chr3L:20393466-20393586 1.65e-02 86_[+1(4.35e-05)]_26 chr2L:1911707-1911827 9.97e-01 120 chrX:3739837-3739957 5.68e-01 120 chr3R:24218693-24218813 6.14e-02 120 chr3L:12804958-12805078 2.85e-01 120 chr3L:21335147-21335267 1.76e-01 44_[+1(8.27e-05)]_68 chrX:5917146-5917266 6.54e-01 120 chr3R:6660073-6660193 2.71e-02 4_[+2(1.20e-05)]_108 chrX:1927769-1927889 9.39e-01 120 chr2R:16834146-16834266 6.43e-03 20_[+5(8.20e-05)]_92 chr2L:892581-892701 6.70e-01 120 chr3R:19621090-19621210 5.98e-01 120 chrX:19494384-19494504 1.35e-02 [+5(2.64e-05)]_112 chrX:11558572-11558692 1.35e-01 120 chr3L:12530160-12530280 3.19e-02 33_[+3(1.22e-05)]_79 chr2L:18572200-18572320 6.66e-01 120 chrX:19605187-19605307 5.79e-01 120 chrX:13285463-13285583 1.93e-01 120 chr3L:17055544-17055664 4.85e-02 120 chr2L:21310028-21310148 5.62e-01 120 chr2L:7993415-7993535 9.41e-01 120 chr2L:8009406-8009526 9.56e-01 120 chrX:6759411-6759531 5.28e-01 120 chr3L:16310089-16310209 8.44e-01 120 chr2R:23567365-23567485 3.47e-01 120 chr2R:16516277-16516397 8.74e-01 120 chr3L:10860281-10860401 4.56e-01 120 chr2R:22373035-22373155 7.20e-01 120 chr3L:3411897-3412017 8.53e-01 120 chr3R:6406716-6406836 2.35e-01 120 chr3L:329385-329505 6.79e-01 120 chr3R:16225844-16225964 3.75e-01 120 chr3L:7869002-7869122 4.37e-01 120 chrX:11550190-11550310 6.78e-01 120 chrX:19623014-19623134 1.78e-03 48_[+1(2.16e-05)]_49_[+3(1.22e-05)]_\ 7 chrX:10463202-10463322 1.63e-02 4_[+5(8.08e-06)]_108 chr3L:15689593-15689713 4.82e-01 120 chr2R:23551147-23551267 9.40e-01 120 chr3L:3905272-3905392 1.96e-02 120 chr3L:4170548-4170668 7.84e-02 23_[+4(8.12e-05)]_89 chr3R:16158070-16158190 3.84e-01 120 chr3L:20295153-20295273 5.58e-01 120 chr2L:9705880-9706000 3.42e-01 120 chr2R:10045539-10045659 6.23e-01 120 chr2L:14619767-14619887 7.48e-01 120 chrX:8409236-8409356 3.65e-02 120 chr3R:29503478-29503598 1.12e-01 52_[+1(4.35e-05)]_60 chr2L:9699282-9699402 1.55e-02 63_[+5(1.81e-05)]_49 chr3R:18315377-18315497 5.75e-01 120 chr3L:6217933-6218053 5.03e-01 120 chr2L:1650129-1650249 6.33e-01 120 chrX:940809-940929 5.45e-01 120 chr2R:7885918-7886038 5.31e-01 120 chr3R:12401775-12401895 8.00e-01 120 chr3R:26535126-26535246 6.88e-01 120 chr2R:15848595-15848715 3.46e-02 120 chr3L:20226290-20226410 5.89e-03 44_[+4(1.77e-05)]_68 chr2L:16881166-16881286 1.21e-01 27_[+5(4.45e-05)]_85 chr2L:13882049-13882169 7.90e-01 120 chr3R:10024142-10024262 4.61e-01 120 chr2L:20794024-20794144 2.63e-01 120 chr3L:18618233-18618353 1.10e-02 120 chrX:5755008-5755128 5.95e-02 14_[+1(4.35e-05)]_98 chr2R:22640202-22640322 1.33e-01 [+1(6.48e-05)]_112 chr2R:10617621-10617741 5.58e-01 120 chr3L:15098074-15098194 2.09e-01 120 chr2L:21051855-21051975 3.13e-01 120 chr2R:25076809-25076929 6.83e-01 120 chr2R:7024978-7025098 5.00e-01 120 chr2L:937016-937136 5.85e-01 120 chr2R:9836837-9836957 6.25e-02 67_[+1(2.16e-05)]_45 chr3R:29493458-29493578 3.39e-01 120 chr2L:7155045-7155165 4.85e-01 120 chr2R:10122581-10122701 3.35e-01 120 chr3R:30052565-30052685 4.32e-02 83_[+3(2.23e-05)]_29 chr3L:10515876-10515996 5.64e-02 32_[+5(3.42e-05)]_80 chr3L:11358814-11358934 9.46e-02 120 chrX:4956101-4956221 4.10e-01 120 chrX:10368038-10368158 3.63e-01 120 chr2L:6091469-6091589 2.26e-01 120 chr2L:8610976-8611096 2.04e-01 120 chr3R:19648717-19648837 2.07e-02 120 chr3L:2377510-2377630 4.70e-02 120 chrX:1477007-1477127 5.13e-02 29_[+1(2.16e-05)]_83 chrX:6663281-6663401 3.10e-01 120 chr2R:6133466-6133586 8.97e-01 120 chr3L:21349131-21349251 5.30e-01 120 chr2L:1724393-1724513 8.72e-01 120 chrX:17077916-17078036 9.28e-01 120 chr3R:31985740-31985860 3.09e-01 68_[+1(4.35e-05)]_44 chr2R:22729210-22729330 2.40e-01 120 chr3L:224189-224309 7.28e-02 120 chr2R:20562286-20562406 1.11e-01 120 chr2L:821336-821456 1.08e-01 96_[+3(1.22e-05)]_16 chr2R:24292907-24293027 8.01e-01 120 chr2L:2999182-2999302 3.51e-02 44_[+1(6.48e-05)]_68 chr2R:17604643-17604763 8.72e-01 120 chr2R:23964719-23964839 2.55e-03 24_[+5(8.08e-06)]_15_[+3(2.23e-05)]_\ 65 chr3R:5300704-5300824 5.87e-01 120 chr3L:10852536-10852656 9.98e-01 120 chr2R:23202139-23202259 8.16e-01 120 chrX:8233330-8233450 4.81e-01 120 chr2R:22066779-22066899 8.73e-02 83_[+5(8.20e-05)]_29 chr3R:9874621-9874741 2.21e-01 120 chrX:3719841-3719961 3.63e-01 120 chr3R:28330857-28330977 7.88e-01 120 chr3R:23228757-23228877 2.92e-01 120 chr2R:14769388-14769508 2.94e-03 30_[+2(1.20e-05)]_82 chr2R:11712239-11712359 6.76e-02 58_[+5(8.20e-05)]_54 chr2R:22062481-22062601 2.02e-01 120 chrX:8493584-8493704 7.41e-01 120 chr3R:30209278-30209398 1.22e-01 80_[+1(2.16e-05)]_32 chr2L:20840591-20840711 1.98e-01 120 chr3L:15514564-15514684 4.51e-01 120 chr2R:15754428-15754548 9.34e-01 120 chr3R:31805399-31805519 7.97e-03 35_[+4(1.77e-05)]_77 chr3R:26099400-26099520 2.17e-01 120 chr3L:15234610-15234730 1.74e-02 120 chr2R:22546846-22546966 8.75e-03 16_[+3(4.52e-05)]_96 chr2L:13878927-13879047 6.53e-01 120 chr3R:26230214-26230334 6.00e-01 120 chr2R:22312696-22312816 4.30e-02 47_[+5(5.42e-05)]_65 chr2L:21310798-21310918 2.43e-01 120 chr3R:13683825-13683945 1.67e-02 40_[+1(2.16e-05)]_50_[+1(2.16e-05)]_\ 14 chrX:14580498-14580618 1.18e-01 52_[+1(8.27e-05)]_60 chrX:10764221-10764341 1.50e-01 120 chr2R:14332344-14332464 1.43e-01 120 chr3R:16223399-16223519 5.75e-01 120 chr2R:8751622-8751742 6.92e-01 120 chrX:8574884-8575004 6.36e-01 120 chr3R:30134849-30134969 8.31e-01 120 chr3R:29255208-29255328 5.52e-01 120 chr3R:15342942-15343062 5.23e-01 120 chr3L:20389140-20389260 6.91e-01 120 chr2R:24763088-24763208 2.78e-02 72_[+3(1.22e-05)]_40 chr3L:5654673-5654793 8.16e-03 28_[+2(2.38e-05)]_84 chr3R:4429285-4429405 2.61e-03 29_[+5(3.42e-05)]_8_[+2(1.20e-05)]_\ 67 chrX:2720294-2720414 4.89e-02 78_[+1(2.16e-05)]_34 chr2L:1837847-1837967 4.24e-01 120 chr3L:10866721-10866841 7.06e-01 120 chr2L:3862635-3862755 1.48e-01 120 chr2R:17586049-17586169 6.83e-01 120 chr2L:17384105-17384225 2.12e-04 32_[+5(8.08e-06)]_44_[+1(2.16e-05)]_\ 28 chr3L:5932670-5932790 6.36e-01 120 chrX:15710421-15710541 7.16e-03 61_[+4(3.49e-05)]_51 chrX:11325296-11325416 7.67e-02 47_[+1(2.16e-05)]_65 chr2R:21480973-21481093 9.70e-01 120 chr2R:18811949-18812069 2.52e-01 120 chr3R:22447408-22447528 9.56e-01 120 chrX:6678234-6678354 8.59e-01 120 chr3L:20816065-20816185 9.02e-04 3_[+1(2.16e-05)]_24_[+1(2.16e-05)]_\ 37_[+4(8.12e-05)]_32 chr3R:29891348-29891468 4.77e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n04.farnam.hpc.yale.internal ********************************************************************************