******************************************************************************** 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/pho.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:6746271-6746391 1.0000 120 chr2L:20079002-20079122 1.0000 120 chr2R:20270923-20271043 1.0000 120 chr3L:9691304-9691424 1.0000 120 chr2L:7412287-7412407 1.0000 120 chr3L:17948874-17948994 1.0000 120 chrX:19348956-19349076 1.0000 120 chr3R:16899882-16900002 1.0000 120 chr2R:22661329-22661449 1.0000 120 chr2R:23551177-23551297 1.0000 120 chr3L:5604093-5604213 1.0000 120 chr2L:2735069-2735189 1.0000 120 chr3R:30802284-30802404 1.0000 120 chr3L:1609785-1609905 1.0000 120 chr2R:14136887-14137007 1.0000 120 chr2R:22648555-22648675 1.0000 120 chrX:20434684-20434804 1.0000 120 chrX:2604094-2604214 1.0000 120 chrX:8493629-8493749 1.0000 120 chr3R:19166486-19166606 1.0000 120 chr3L:6495565-6495685 1.0000 120 chr3L:4413221-4413341 1.0000 120 chr3R:23228829-23228949 1.0000 120 chr3L:16147848-16147968 1.0000 120 chr3L:6086207-6086327 1.0000 120 chrX:15304342-15304462 1.0000 120 chr3L:9762273-9762393 1.0000 120 chr2R:10265401-10265521 1.0000 120 chr2R:13586412-13586532 1.0000 120 chr2L:6956886-6957006 1.0000 120 chr3L:8853152-8853272 1.0000 120 chr2L:7494351-7494471 1.0000 120 chr3L:3544246-3544366 1.0000 120 chrX:16385951-16386071 1.0000 120 chrX:10473631-10473751 1.0000 120 chr3R:17540261-17540381 1.0000 120 chr3L:629835-629955 1.0000 120 chrX:5970480-5970600 1.0000 120 chr2R:6589467-6589587 1.0000 120 chr2R:14769473-14769593 1.0000 120 chr2R:24295068-24295188 1.0000 120 chr3R:7821712-7821832 1.0000 120 chr3L:11258644-11258764 1.0000 120 chr3L:20518255-20518375 1.0000 120 chr3L:19905612-19905732 1.0000 120 chr2L:1158186-1158306 1.0000 120 chr2R:18846604-18846724 1.0000 120 chr3L:8708921-8709041 1.0000 120 chr3R:30489898-30490018 1.0000 120 chrX:6663270-6663390 1.0000 120 chr2L:14588984-14589104 1.0000 120 chr3L:1947658-1947778 1.0000 120 chr2L:19019334-19019454 1.0000 120 chr3L:22276755-22276875 1.0000 120 chr3R:13383098-13383218 1.0000 120 chr3L:20097394-20097514 1.0000 120 chr3R:21612934-21613054 1.0000 120 chr3L:9838662-9838782 1.0000 120 chr2L:1071117-1071237 1.0000 120 chrX:15591764-15591884 1.0000 120 chr2R:24874806-24874926 1.0000 120 chr2R:12247786-12247906 1.0000 120 chr3R:15225476-15225596 1.0000 120 chr2R:22062466-22062586 1.0000 120 chr2L:13082282-13082402 1.0000 120 chr3L:3770989-3771109 1.0000 120 chr2L:16690082-16690202 1.0000 120 chr3R:8784959-8785079 1.0000 120 chr3R:25968683-25968803 1.0000 120 chr2L:18707998-18708118 1.0000 120 chr3R:21161778-21161898 1.0000 120 chrX:2447863-2447983 1.0000 120 chr3L:12350424-12350544 1.0000 120 chr4:979921-980041 1.0000 120 chrX:17856899-17857019 1.0000 120 chr3R:5861448-5861568 1.0000 120 chr2R:9834864-9834984 1.0000 120 chr3R:30325641-30325761 1.0000 120 chrX:18407414-18407534 1.0000 120 chrX:5745117-5745237 1.0000 120 chr3L:21205142-21205262 1.0000 120 chr3R:20908726-20908846 1.0000 120 chr2R:14137100-14137220 1.0000 120 chr2L:19121008-19121128 1.0000 120 chrX:1380483-1380603 1.0000 120 chr3R:14284570-14284690 1.0000 120 chr3L:19618532-19618652 1.0000 120 chr3L:16582863-16582983 1.0000 120 chr3L:3760758-3760878 1.0000 120 chrX:18404945-18405065 1.0000 120 chr2R:20641605-20641725 1.0000 120 chr2L:6527081-6527201 1.0000 120 chr3R:5861658-5861778 1.0000 120 chrX:18494261-18494381 1.0000 120 chrX:1478402-1478522 1.0000 120 chr3R:16948758-16948878 1.0000 120 chrX:10184802-10184922 1.0000 120 chr3R:21118931-21119051 1.0000 120 chr2L:541084-541204 1.0000 120 chrX:13333020-13333140 1.0000 120 chr3R:5302057-5302177 1.0000 120 chr2L:7890850-7890970 1.0000 120 chr2R:25183103-25183223 1.0000 120 chr3R:31060449-31060569 1.0000 120 chr2L:13882124-13882244 1.0000 120 chr3R:17526195-17526315 1.0000 120 chr2L:3042221-3042341 1.0000 120 chrX:14169189-14169309 1.0000 120 chr2L:14358988-14359108 1.0000 120 chrX:6678240-6678360 1.0000 120 chr2R:14170434-14170554 1.0000 120 chr2R:7916591-7916711 1.0000 120 chr2L:18136697-18136817 1.0000 120 chr2L:203660-203780 1.0000 120 chr2L:10516864-10516984 1.0000 120 chr3R:26121211-26121331 1.0000 120 chr3R:28600373-28600493 1.0000 120 chr2L:9775367-9775487 1.0000 120 chr3R:16355554-16355674 1.0000 120 chrX:1270682-1270802 1.0000 120 chr3L:5813186-5813306 1.0000 120 chr2L:19430533-19430653 1.0000 120 chr2L:7027191-7027311 1.0000 120 chrX:15120209-15120329 1.0000 120 chr3L:15235326-15235446 1.0000 120 chr3L:7861165-7861285 1.0000 120 chr2R:17161047-17161167 1.0000 120 chrX:10325930-10326050 1.0000 120 chrX:8606276-8606396 1.0000 120 chr3L:9972621-9972741 1.0000 120 chrX:1476971-1477091 1.0000 120 chrX:5420818-5420938 1.0000 120 chr3L:8763303-8763423 1.0000 120 chr3R:9701383-9701503 1.0000 120 chr2L:16251935-16252055 1.0000 120 chrX:1880318-1880438 1.0000 120 chr2R:6781909-6782029 1.0000 120 chrX:11451108-11451228 1.0000 120 chr3L:17791631-17791751 1.0000 120 chrX:6590745-6590865 1.0000 120 chr3R:25661653-25661773 1.0000 120 chr3L:224320-224440 1.0000 120 chrX:947577-947697 1.0000 120 chr3R:23028651-23028771 1.0000 120 chr2L:19141006-19141126 1.0000 120 chr3L:3450503-3450623 1.0000 120 chr2L:20715186-20715306 1.0000 120 chr2L:13205387-13205507 1.0000 120 chr3L:627876-627996 1.0000 120 chr2L:10767936-10768056 1.0000 120 chr3L:8526151-8526271 1.0000 120 chr3R:18274473-18274593 1.0000 120 chr3L:27267290-27267410 1.0000 120 chr2L:2858296-2858416 1.0000 120 chr2R:17766944-17767064 1.0000 120 chrX:8720257-8720377 1.0000 120 chr2R:12173427-12173547 1.0000 120 chr3L:5789809-5789929 1.0000 120 chr2R:18277142-18277262 1.0000 120 chr3R:32051857-32051977 1.0000 120 chrX:19166457-19166577 1.0000 120 chr2L:18590752-18590872 1.0000 120 chr3L:12802679-12802799 1.0000 120 chrX:12611768-12611888 1.0000 120 chrX:5285997-5286117 1.0000 120 chr2R:22373512-22373632 1.0000 120 chr2L:21156208-21156328 1.0000 120 chr3L:17597074-17597194 1.0000 120 chr2R:18775201-18775321 1.0000 120 chr3R:9986081-9986201 1.0000 120 chr2R:18451144-18451264 1.0000 120 chr2R:22562038-22562158 1.0000 120 chr3L:16574587-16574707 1.0000 120 chr2R:13008292-13008412 1.0000 120 chr3R:26566932-26567052 1.0000 120 chr2R:24086577-24086697 1.0000 120 chr2L:20881458-20881578 1.0000 120 chr3R:9874646-9874766 1.0000 120 chr3L:8604460-8604580 1.0000 120 chr3L:17912627-17912747 1.0000 120 chr4:1230738-1230858 1.0000 120 chr3L:12803854-12803974 1.0000 120 chr2R:23970073-23970193 1.0000 120 chr3R:23157808-23157928 1.0000 120 chrX:23013332-23013452 1.0000 120 chr3L:17659307-17659427 1.0000 120 chr2L:8692589-8692709 1.0000 120 chrX:2340157-2340277 1.0000 120 chrX:10629064-10629184 1.0000 120 chr2L:283261-283381 1.0000 120 chrX:796458-796578 1.0000 120 chr2L:1628246-1628366 1.0000 120 chr3L:10866697-10866817 1.0000 120 chrX:5892196-5892316 1.0000 120 chr2R:23383394-23383514 1.0000 120 chr2L:6907918-6908038 1.0000 120 chrX:10387833-10387953 1.0000 120 chr2R:18774913-18775033 1.0000 120 chr3R:6791540-6791660 1.0000 120 chr3R:10140419-10140539 1.0000 120 chr2L:7494550-7494670 1.0000 120 chr2L:11203727-11203847 1.0000 120 chr3L:1350591-1350711 1.0000 120 chr2R:21183155-21183275 1.0000 120 chr2R:9388620-9388740 1.0000 120 chr2L:8554342-8554462 1.0000 120 chrX:1370174-1370294 1.0000 120 chr2R:22886364-22886484 1.0000 120 chrX:14839838-14839958 1.0000 120 chrX:18370826-18370946 1.0000 120 chr2L:1710401-1710521 1.0000 120 chr2R:13999260-13999380 1.0000 120 chr2R:23725973-23726093 1.0000 120 chrX:10086379-10086499 1.0000 120 chr2L:12372589-12372709 1.0000 120 chr3R:8563917-8564037 1.0000 120 chr3L:8672646-8672766 1.0000 120 chr2R:5122235-5122355 1.0000 120 chr3R:5588298-5588418 1.0000 120 chr3L:5152520-5152640 1.0000 120 chr2R:21663214-21663334 1.0000 120 chr3L:13929302-13929422 1.0000 120 chr3R:7000941-7001061 1.0000 120 chrX:4610623-4610743 1.0000 120 chr3R:8984671-8984791 1.0000 120 chr3R:25027689-25027809 1.0000 120 chr3L:13486721-13486841 1.0000 120 chr3L:7348072-7348192 1.0000 120 chr3R:10161326-10161446 1.0000 120 chr3R:16764103-16764223 1.0000 120 chr2L:7871964-7872084 1.0000 120 chr2R:9544891-9545011 1.0000 120 chr2L:12003031-12003151 1.0000 120 chr2R:17848919-17849039 1.0000 120 chr2R:17564767-17564887 1.0000 120 chr2R:10811017-10811137 1.0000 120 chrX:15892034-15892154 1.0000 120 chr4:43736-43856 1.0000 120 chr3R:13030712-13030832 1.0000 120 chr3L:16165796-16165916 1.0000 120 chrX:14602697-14602817 1.0000 120 chr3L:21318032-21318152 1.0000 120 chr2R:23940200-23940320 1.0000 120 chrX:13391296-13391416 1.0000 120 chrX:20394215-20394335 1.0000 120 chr3R:9055156-9055276 1.0000 120 chr2R:17683597-17683717 1.0000 120 chr3R:9370563-9370683 1.0000 120 chrX:11694971-11695091 1.0000 120 chr3L:16955375-16955495 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_pho/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/pho.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 0.312 C 0.19 G 0.187 T 0.311 Background letter frequencies (from file dataset with add-one prior applied): A 0.312 C 0.19 G 0.187 T 0.311 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF NGGCRGCR MEME-1 width = 8 sites = 38 llr = 318 E-value = 4.7e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 Description -------------------------------------------------------------------------------- Simplified A 2:::4::5 pos.-specific C 2:2a::a: probability G 388:4a:5 matrix T 32::2::: bits 2.4 * ** 2.2 * ** 1.9 * ** 1.7 ** ** Relative 1.5 *** ** Entropy 1.2 *** ** (12.1 bits) 1.0 *** *** 0.7 *** *** 0.5 ******* 0.2 ******* 0.0 -------- Multilevel GGGCAGCG consensus TT G A sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:14170434-14170554 91 5.69e-06 TCTGGAAAGT CGGCGGCG TCACATATTT chr3R:7000941-7001061 59 8.25e-06 ACAAGATGGA TGGCGGCG CAGGCAgaga chr3R:16948758-16948878 24 8.25e-06 GCAAGAGTAA TGGCGGCG GCATGGCGCC chr3L:5813186-5813306 90 1.08e-05 AATTCCCAAA GGGCGGCA TATTTAAATT chr3L:10866697-10866817 20 1.34e-05 TTTTGTGCCT CGGCAGCG TAATAAAGCT chr2R:17683597-17683717 9 2.03e-05 CTAAGGTA TGGCAGCG CCGTAAGTTC chr3L:224320-224440 47 2.03e-05 TAAGAGGCGC TGGCAGCG ACCTACGCGT chr3R:17526195-17526315 2 2.03e-05 A TGGCAGCG ATACCATATA chr3R:16764103-16764223 20 3.41e-05 GGAGCTGCAG AGGCAGCG ACTGCGCCGC chr2L:13205387-13205507 37 3.41e-05 TTTCGGATGA GGGCTGCG TTTACGTGGC chr3L:8763303-8763423 2 3.41e-05 T CGGCGGCA CATAATACAA chr2L:18136697-18136817 17 3.41e-05 ACGACAAAAG CGGCGGCA AATATTCGTT chrX:18404945-18405065 50 3.41e-05 TCTCGTGTTT AGGCAGCG TTTTATTGAC chr2L:12003031-12003151 45 5.42e-05 AGCCCACTGT AGGCGGCA GCTGACGTTT chr2R:18277142-18277262 21 5.42e-05 AAAATAGTGA TGGCAGCA GTATTACCTA chrX:5420818-5420938 45 5.42e-05 TCAAATCGAA TGGCAGCA CATGCACAAA chr3L:11258644-11258764 76 5.42e-05 AGAACAAAAG TGGCAGCA AATAAAAAAA chr2R:22562038-22562158 44 6.09e-05 ATTGCCACCT GGCCGGCG GTGTTGCCAC chrX:15591764-15591884 69 6.09e-05 ACAAATCAAA GGCCGGCG AAAACGAAAA chrX:6678240-6678360 111 7.66e-05 TTATGAACTT AGGCAGCA AT chr3L:22276755-22276875 70 7.66e-05 GTTGGGAACG GGGCTGCA AAATCAATAA chr2L:18590752-18590872 100 8.35e-05 TTCCCTTTTC GGCCAGCG TTGTAATCTA chrX:1380483-1380603 2 8.35e-05 G GGCCAGCG CTGCACAACA chr3L:629835-629955 79 8.35e-05 GTGTTAAAAT GTGCAGCG CCCTTGTGTG chr3L:12350424-12350544 86 8.78e-05 GTCTAAGCCG AGGCTGCG ATATTTGCAC chr2L:7494550-7494670 91 9.20e-05 AATGTAGAAG CTGCGGCG GAATTTACAA chr2R:10265401-10265521 16 1.10e-04 TAGGTGAACA GTGCGGCA AGTGCTTTGG chr2L:1710401-1710521 68 1.24e-04 GGCAACAGTG TGGCTGCA CGCCATCAGC chrX:1270682-1270802 41 1.43e-04 CTGGGCTTTC TTGCAGCG AATATTTGTG chr2L:203660-203780 76 1.43e-04 TGGCAACGCT AGCCGGCG AAATATCGAT chr3L:8604460-8604580 86 1.54e-04 GGCGCCCACC GTGCAGCA AGCAGTGCGC chr3R:26566932-26567052 67 1.54e-04 GCCACACCCA GTGCAGCA ACCAATCGTT chrX:14602697-14602817 22 1.61e-04 CCTGCGACAC AGGCTGCA CTCGCTATGC chrX:1880318-1880438 7 1.61e-04 TTCACA AGGCTGCA TTCCTATTGG chr3L:21318032-21318152 2 1.87e-04 A GTGCTGCG AGGTGCAGAG chr2L:6956886-6957006 58 1.87e-04 TACATCCGTT CTGCGGCA GAGTTCGACA chr2L:9775367-9775487 80 1.98e-04 AGGAAATTGT TTGCGGCA AATATATTAT chr3L:16147848-16147968 91 2.10e-04 TAATGAACAG CGCCAGCA CGTAAAGCCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:14170434-14170554 5.7e-06 90_[+1]_22 chr3R:7000941-7001061 8.3e-06 58_[+1]_54 chr3R:16948758-16948878 8.3e-06 23_[+1]_89 chr3L:5813186-5813306 1.1e-05 89_[+1]_23 chr3L:10866697-10866817 1.3e-05 19_[+1]_93 chr2R:17683597-17683717 2e-05 8_[+1]_104 chr3L:224320-224440 2e-05 46_[+1]_66 chr3R:17526195-17526315 2e-05 1_[+1]_111 chr3R:16764103-16764223 3.4e-05 19_[+1]_93 chr2L:13205387-13205507 3.4e-05 36_[+1]_76 chr3L:8763303-8763423 3.4e-05 1_[+1]_111 chr2L:18136697-18136817 3.4e-05 16_[+1]_96 chrX:18404945-18405065 3.4e-05 49_[+1]_63 chr2L:12003031-12003151 5.4e-05 44_[+1]_68 chr2R:18277142-18277262 5.4e-05 20_[+1]_92 chrX:5420818-5420938 5.4e-05 44_[+1]_68 chr3L:11258644-11258764 5.4e-05 75_[+1]_37 chr2R:22562038-22562158 6.1e-05 43_[+1]_69 chrX:15591764-15591884 6.1e-05 68_[+1]_44 chrX:6678240-6678360 7.7e-05 110_[+1]_2 chr3L:22276755-22276875 7.7e-05 69_[+1]_43 chr2L:18590752-18590872 8.4e-05 99_[+1]_13 chrX:1380483-1380603 8.4e-05 1_[+1]_111 chr3L:629835-629955 8.4e-05 78_[+1]_34 chr3L:12350424-12350544 8.8e-05 85_[+1]_27 chr2L:7494550-7494670 9.2e-05 90_[+1]_22 chr2R:10265401-10265521 0.00011 15_[+1]_97 chr2L:1710401-1710521 0.00012 67_[+1]_45 chrX:1270682-1270802 0.00014 40_[+1]_72 chr2L:203660-203780 0.00014 75_[+1]_37 chr3L:8604460-8604580 0.00015 85_[+1]_27 chr3R:26566932-26567052 0.00015 66_[+1]_46 chrX:14602697-14602817 0.00016 21_[+1]_91 chrX:1880318-1880438 0.00016 6_[+1]_106 chr3L:21318032-21318152 0.00019 1_[+1]_111 chr2L:6956886-6957006 0.00019 57_[+1]_55 chr2L:9775367-9775487 0.0002 79_[+1]_33 chr3L:16147848-16147968 0.00021 90_[+1]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF NGGCRGCR width=8 seqs=38 chr2R:14170434-14170554 ( 91) CGGCGGCG 1 chr3R:7000941-7001061 ( 59) TGGCGGCG 1 chr3R:16948758-16948878 ( 24) TGGCGGCG 1 chr3L:5813186-5813306 ( 90) GGGCGGCA 1 chr3L:10866697-10866817 ( 20) CGGCAGCG 1 chr2R:17683597-17683717 ( 9) TGGCAGCG 1 chr3L:224320-224440 ( 47) TGGCAGCG 1 chr3R:17526195-17526315 ( 2) TGGCAGCG 1 chr3R:16764103-16764223 ( 20) AGGCAGCG 1 chr2L:13205387-13205507 ( 37) GGGCTGCG 1 chr3L:8763303-8763423 ( 2) CGGCGGCA 1 chr2L:18136697-18136817 ( 17) CGGCGGCA 1 chrX:18404945-18405065 ( 50) AGGCAGCG 1 chr2L:12003031-12003151 ( 45) AGGCGGCA 1 chr2R:18277142-18277262 ( 21) TGGCAGCA 1 chrX:5420818-5420938 ( 45) TGGCAGCA 1 chr3L:11258644-11258764 ( 76) TGGCAGCA 1 chr2R:22562038-22562158 ( 44) GGCCGGCG 1 chrX:15591764-15591884 ( 69) GGCCGGCG 1 chrX:6678240-6678360 ( 111) AGGCAGCA 1 chr3L:22276755-22276875 ( 70) GGGCTGCA 1 chr2L:18590752-18590872 ( 100) GGCCAGCG 1 chrX:1380483-1380603 ( 2) GGCCAGCG 1 chr3L:629835-629955 ( 79) GTGCAGCG 1 chr3L:12350424-12350544 ( 86) AGGCTGCG 1 chr2L:7494550-7494670 ( 91) CTGCGGCG 1 chr2R:10265401-10265521 ( 16) GTGCGGCA 1 chr2L:1710401-1710521 ( 68) TGGCTGCA 1 chrX:1270682-1270802 ( 41) TTGCAGCG 1 chr2L:203660-203780 ( 76) AGCCGGCG 1 chr3L:8604460-8604580 ( 86) GTGCAGCA 1 chr3R:26566932-26567052 ( 67) GTGCAGCA 1 chrX:14602697-14602817 ( 22) AGGCTGCA 1 chrX:1880318-1880438 ( 7) AGGCTGCA 1 chr3L:21318032-21318152 ( 2) GTGCTGCG 1 chr2L:6956886-6957006 ( 58) CTGCGGCA 1 chr2L:9775367-9775487 ( 80) TTGCGGCA 1 chr3L:16147848-16147968 ( 91) CGCCAGCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.4344 E= 4.7e+001 -57 -5 76 -10 -1189 -1189 203 -39 -1189 -27 217 -1189 -1189 239 -1189 -1189 52 -1189 98 -76 -1189 -1189 242 -1189 -1189 239 -1189 -1189 60 -1189 150 -1189 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 4.7e+001 0.210526 0.184211 0.315789 0.289474 0.000000 0.000000 0.763158 0.236842 0.000000 0.157895 0.842105 0.000000 0.000000 1.000000 0.000000 0.000000 0.447368 0.000000 0.368421 0.184211 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.473684 0.000000 0.526316 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NGGCRGCR MEME-1 regular expression -------------------------------------------------------------------------------- [GTA][GT]GC[AG]GC[GA] -------------------------------------------------------------------------------- Time 7.45 secs. ******************************************************************************** ******************************************************************************** MOTIF GCACTGYG MEME-2 width = 8 sites = 11 llr = 117 E-value = 6.1e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::a::::: pos.-specific C :a:7::61 probability G a::3:a:9 matrix T ::::a:4: bits 2.4 ** * 2.2 ** * 1.9 ** * * 1.7 *** ** * Relative 1.5 ****** * Entropy 1.2 ******** (15.3 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCACTGCG consensus G T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:5152520-5152640 67 4.35e-06 ACATTTGACA GCACTGCG ACTTCCGCCA chr2L:21156208-21156328 29 4.35e-06 TTCTTCGTGC GCACTGCG CAGTGTGGCA chr3R:23028651-23028771 1 4.35e-06 . GCACTGCG AGAAAAGTAG chr2L:19430533-19430653 104 4.35e-06 TACACATCGC GCACTGCG ATAGTATCG chr3L:1350591-1350711 37 8.64e-06 ATCGGTATTT GCAGTGCG ATACCGAGTG chr3L:8604460-8604580 95 8.64e-06 CGTGCAGCAA GCAGTGCG CACTGCTTCA chr2L:10767936-10768056 112 1.58e-05 GCCTTTTCTA GCACTGTG G chr3L:15235326-15235446 75 1.58e-05 GGCCCACTGT GCACTGTG GGCCATTACG chr3R:16948758-16948878 95 1.58e-05 TGCAGCACAT GCACTGTG CAAAATGGAT chrX:10086379-10086499 112 2.28e-05 ATTTTCGTTA GCAGTGTG G chr3R:21161778-21161898 79 2.72e-05 CATTTTGTTG GCACTGCC TTGCGTTGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:5152520-5152640 4.4e-06 66_[+2]_46 chr2L:21156208-21156328 4.4e-06 28_[+2]_84 chr3R:23028651-23028771 4.4e-06 [+2]_112 chr2L:19430533-19430653 4.4e-06 103_[+2]_9 chr3L:1350591-1350711 8.6e-06 36_[+2]_76 chr3L:8604460-8604580 8.6e-06 94_[+2]_18 chr2L:10767936-10768056 1.6e-05 111_[+2]_1 chr3L:15235326-15235446 1.6e-05 74_[+2]_38 chr3R:16948758-16948878 1.6e-05 94_[+2]_18 chrX:10086379-10086499 2.3e-05 111_[+2]_1 chr3R:21161778-21161898 2.7e-05 78_[+2]_34 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCACTGYG width=8 seqs=11 chr3L:5152520-5152640 ( 67) GCACTGCG 1 chr2L:21156208-21156328 ( 29) GCACTGCG 1 chr3R:23028651-23028771 ( 1) GCACTGCG 1 chr2L:19430533-19430653 ( 104) GCACTGCG 1 chr3L:1350591-1350711 ( 37) GCAGTGCG 1 chr3L:8604460-8604580 ( 95) GCAGTGCG 1 chr2L:10767936-10768056 ( 112) GCACTGTG 1 chr3L:15235326-15235446 ( 75) GCACTGTG 1 chr3R:16948758-16948878 ( 95) GCACTGTG 1 chrX:10086379-10086499 ( 112) GCAGTGTG 1 chr3R:21161778-21161898 ( 79) GCACTGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.3527 E= 6.1e+002 -1010 -1010 242 -1010 -1010 239 -1010 -1010 168 -1010 -1010 -1010 -1010 193 55 -1010 -1010 -1010 -1010 168 -1010 -1010 242 -1010 -1010 174 -1010 22 -1010 -107 228 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 6.1e+002 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.727273 0.272727 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.636364 0.000000 0.363636 0.000000 0.090909 0.909091 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCACTGYG MEME-2 regular expression -------------------------------------------------------------------------------- GCA[CG]TG[CT]G -------------------------------------------------------------------------------- Time 15.45 secs. ******************************************************************************** ******************************************************************************** MOTIF MTATCGAT MEME-3 width = 8 sites = 29 llr = 257 E-value = 3.7e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 Description -------------------------------------------------------------------------------- Simplified A 53a:::a: pos.-specific C 41::a::: probability G :::::a:: matrix T 17:a:::a bits 2.4 ** 2.2 ** 1.9 ** 1.7 ****** Relative 1.5 ****** Entropy 1.2 ****** (12.8 bits) 1.0 ****** 0.7 * ****** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel ATATCGAT consensus CA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:11694971-11695091 108 1.98e-05 AGATATAATG CTATCGAT ATGAC chr2R:24086577-24086697 5 1.98e-05 gtct ctatcgat aCCCGCGTGT chr2R:18277142-18277262 36 1.98e-05 GCAGTATTAC CTATCGAT GATTCTGTTT chr2R:17766944-17767064 58 1.98e-05 GCCGAGACAA CTATCGAT ATGTTTCTGG chr2L:10767936-10768056 69 1.98e-05 CCTTAGCGAA CTATCGAT GTTCGGCTTC chr3R:25661653-25661773 95 1.98e-05 ATTGGCATTG CTATCGAT AGCTTGAAAA chrX:6590745-6590865 89 1.98e-05 GCAGCAGTGT CTATCGAT AGGACCAGCT chrX:1476971-1477091 65 1.98e-05 GCGCGCAGAG CTATCGAT AAGTATCGCG chr2L:203660-203780 110 1.98e-05 AAATATCTGG CTATCGAT AAG chrX:15892034-15892154 57 5.22e-05 ACTATTCGAT ATATCGAT GTATCGCGAG chr3L:13486721-13486841 59 5.22e-05 GGCTGAGCAA ATATCGAT GTGAATACAG chrX:23013332-23013452 85 5.22e-05 TATGAGCAAA ATATCGAT GCATAGCCTA chr3R:23157808-23157928 97 5.22e-05 AAGTCGATTG ATATCGAT AATTTTTGTC chr3L:19618532-19618652 48 5.22e-05 TTTTGCGCAG ATATCGAT CGCTCTTCCA chrX:2447863-2447983 54 5.22e-05 AGTACACATG ATATCGAT TGGTATCGAC chr2R:12247786-12247906 8 5.22e-05 tactgta atatcgat agatattggg chr2L:6956886-6957006 86 5.22e-05 TCCCTGGCAG ATATCGAT AGGCCCATCG chr3L:16582863-16582983 106 7.21e-05 GGTAACTTGA CAATCGAT AACTGTT chr2R:23551177-23551297 107 7.21e-05 CGATGGCCAC CAATCGAT GATTAG chr2L:283261-283381 32 1.05e-04 TTTTAAAGCC AAATCGAT ATGATAGCGC chr2L:21156208-21156328 71 1.05e-04 CGACGATAGT AAATCGAT TAATCGATGC chr3R:18274473-18274593 12 1.05e-04 TAGCGGTGGT AAATCGAT TTCTTCCTCT chr3R:8784959-8785079 52 1.05e-04 TGTGACCACC AAATCGAT TGAAAATATT chr3R:17540261-17540381 106 1.05e-04 CTAAAATGTT AAATCGAT AAATATT chr2R:14136887-14137007 110 1.05e-04 GAACAAAGAA AAATCGAT TTT chrX:1270682-1270802 81 1.17e-04 AAACCAAAGC CCATCGAT GATTCTTATT chrX:18370826-18370946 99 1.37e-04 CCGATGTGTG ACATCGAT ATCAAGCAAA chr2R:10811017-10811137 45 1.69e-04 AGATCGCTTG TTATCGAT TCACTTCCAT chr4:979921-980041 26 1.69e-04 TTGTATTATA TTATCGAT TAGAATTGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:11694971-11695091 2e-05 107_[+3]_5 chr2R:24086577-24086697 2e-05 4_[+3]_108 chr2R:18277142-18277262 2e-05 35_[+3]_77 chr2R:17766944-17767064 2e-05 57_[+3]_55 chr2L:10767936-10768056 2e-05 68_[+3]_44 chr3R:25661653-25661773 2e-05 94_[+3]_18 chrX:6590745-6590865 2e-05 88_[+3]_24 chrX:1476971-1477091 2e-05 64_[+3]_48 chr2L:203660-203780 2e-05 109_[+3]_3 chrX:15892034-15892154 5.2e-05 56_[+3]_56 chr3L:13486721-13486841 5.2e-05 58_[+3]_54 chrX:23013332-23013452 5.2e-05 84_[+3]_28 chr3R:23157808-23157928 5.2e-05 96_[+3]_16 chr3L:19618532-19618652 5.2e-05 47_[+3]_65 chrX:2447863-2447983 5.2e-05 53_[+3]_59 chr2R:12247786-12247906 5.2e-05 7_[+3]_105 chr2L:6956886-6957006 5.2e-05 85_[+3]_27 chr3L:16582863-16582983 7.2e-05 105_[+3]_7 chr2R:23551177-23551297 7.2e-05 106_[+3]_6 chr2L:283261-283381 0.0001 31_[+3]_81 chr2L:21156208-21156328 0.0001 70_[+3]_42 chr3R:18274473-18274593 0.0001 11_[+3]_101 chr3R:8784959-8785079 0.0001 51_[+3]_61 chr3R:17540261-17540381 0.0001 105_[+3]_7 chr2R:14136887-14137007 0.0001 109_[+3]_3 chrX:1270682-1270802 0.00012 80_[+3]_32 chrX:18370826-18370946 0.00014 98_[+3]_14 chr2R:10811017-10811137 0.00017 44_[+3]_68 chr4:979921-980041 0.00017 25_[+3]_87 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF MTATCGAT width=8 seqs=29 chrX:11694971-11695091 ( 108) CTATCGAT 1 chr2R:24086577-24086697 ( 5) CTATCGAT 1 chr2R:18277142-18277262 ( 36) CTATCGAT 1 chr2R:17766944-17767064 ( 58) CTATCGAT 1 chr2L:10767936-10768056 ( 69) CTATCGAT 1 chr3R:25661653-25661773 ( 95) CTATCGAT 1 chrX:6590745-6590865 ( 89) CTATCGAT 1 chrX:1476971-1477091 ( 65) CTATCGAT 1 chr2L:203660-203780 ( 110) CTATCGAT 1 chrX:15892034-15892154 ( 57) ATATCGAT 1 chr3L:13486721-13486841 ( 59) ATATCGAT 1 chrX:23013332-23013452 ( 85) ATATCGAT 1 chr3R:23157808-23157928 ( 97) ATATCGAT 1 chr3L:19618532-19618652 ( 48) ATATCGAT 1 chrX:2447863-2447983 ( 54) ATATCGAT 1 chr2R:12247786-12247906 ( 8) ATATCGAT 1 chr2L:6956886-6957006 ( 86) ATATCGAT 1 chr3L:16582863-16582983 ( 106) CAATCGAT 1 chr2R:23551177-23551297 ( 107) CAATCGAT 1 chr2L:283261-283381 ( 32) AAATCGAT 1 chr2L:21156208-21156328 ( 71) AAATCGAT 1 chr3R:18274473-18274593 ( 12) AAATCGAT 1 chr3R:8784959-8785079 ( 52) AAATCGAT 1 chr3R:17540261-17540381 ( 106) AAATCGAT 1 chr2R:14136887-14137007 ( 110) AAATCGAT 1 chrX:1270682-1270802 ( 81) CCATCGAT 1 chrX:18370826-18370946 ( 99) ACATCGAT 1 chr2R:10811017-10811137 ( 45) TTATCGAT 1 chr4:979921-980041 ( 26) TTATCGAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5678 E= 3.7e+002 73 112 -1150 -217 -18 -146 -1150 107 168 -1150 -1150 -1150 -1150 -1150 -1150 168 -1150 239 -1150 -1150 -1150 -1150 242 -1150 168 -1150 -1150 -1150 -1150 -1150 -1150 168 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 29 E= 3.7e+002 0.517241 0.413793 0.000000 0.068966 0.275862 0.068966 0.000000 0.655172 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif MTATCGAT MEME-3 regular expression -------------------------------------------------------------------------------- [AC][TA]ATCGAT -------------------------------------------------------------------------------- Time 21.68 secs. ******************************************************************************** ******************************************************************************** MOTIF CGKGTGCG MEME-4 width = 8 sites = 13 llr = 129 E-value = 1.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C 9::::29: probability G 1a57181a matrix T ::539::: bits 2.4 * * 2.2 * * 1.9 ** ** 1.7 ** *** Relative 1.5 ** **** Entropy 1.2 ** ***** (14.3 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CGTGTGCG consensus GT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:7000941-7001061 105 2.57e-06 ggggcagacg cgggtgcg agcgagaC chrX:10086379-10086499 67 2.57e-06 GTGCGAGTCC CGGGTGCG CACATCTGAC chrX:14839838-14839958 9 6.84e-06 tgtgtatg cgtgtgcg tgtctgtgtg chr2R:24086577-24086697 18 6.84e-06 tcgataCCCG CGTGTGCG TTCGCATTTC chr2R:12173427-12173547 2 1.11e-05 T CGGTTGCG ATAATTAATT chrX:8606276-8606396 35 1.11e-05 ATGGCAGTTG CGGTTGCG CTTTGCCGCC chr3L:16165796-16165916 14 2.08e-05 CAATTTGACC CGTTTGCG ATTTGTTGAT chr2L:10767936-10768056 23 2.08e-05 GCTATCGGTC CGGGTCCG TCTCTAGGTG chr3L:15235326-15235446 100 2.08e-05 ACGTGCAATG CGTTTGCG TTCGGATTGC chr2L:2858296-2858416 80 2.67e-05 AACTTATCTA CGTGTCCG CAAATAAATA chr2R:12247786-12247906 94 2.93e-05 agggcgttag cgtgggcg tggcacaaag chr3R:30802284-30802404 69 3.43e-05 ATATGGATCC CGGGTGGG TAAACATCTC chr3R:16355554-16355674 103 4.27e-05 GTATGGCGTA GGTGTGCG AACGCCTTGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:7000941-7001061 2.6e-06 104_[+4]_8 chrX:10086379-10086499 2.6e-06 66_[+4]_46 chrX:14839838-14839958 6.8e-06 8_[+4]_104 chr2R:24086577-24086697 6.8e-06 17_[+4]_95 chr2R:12173427-12173547 1.1e-05 1_[+4]_111 chrX:8606276-8606396 1.1e-05 34_[+4]_78 chr3L:16165796-16165916 2.1e-05 13_[+4]_99 chr2L:10767936-10768056 2.1e-05 22_[+4]_90 chr3L:15235326-15235446 2.1e-05 99_[+4]_13 chr2L:2858296-2858416 2.7e-05 79_[+4]_33 chr2R:12247786-12247906 2.9e-05 93_[+4]_19 chr3R:30802284-30802404 3.4e-05 68_[+4]_44 chr3R:16355554-16355674 4.3e-05 102_[+4]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGKGTGCG width=8 seqs=13 chr3R:7000941-7001061 ( 105) CGGGTGCG 1 chrX:10086379-10086499 ( 67) CGGGTGCG 1 chrX:14839838-14839958 ( 9) CGTGTGCG 1 chr2R:24086577-24086697 ( 18) CGTGTGCG 1 chr2R:12173427-12173547 ( 2) CGGTTGCG 1 chrX:8606276-8606396 ( 35) CGGTTGCG 1 chr3L:16165796-16165916 ( 14) CGTTTGCG 1 chr2L:10767936-10768056 ( 23) CGGGTCCG 1 chr3L:15235326-15235446 ( 100) CGTTTGCG 1 chr2L:2858296-2858416 ( 80) CGTGTCCG 1 chr2R:12247786-12247906 ( 94) CGTGGGCG 1 chr3R:30802284-30802404 ( 69) CGGGTGGG 1 chr3R:16355554-16355674 ( 103) GGTGTGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.6156 E= 1.1e+004 -1035 228 -128 -1035 -1035 -1035 242 -1035 -1035 -1035 131 79 -1035 -1035 189 -2 -1035 -1035 -128 157 -1035 -31 218 -1035 -1035 228 -128 -1035 -1035 -1035 242 -1035 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 1.1e+004 0.000000 0.923077 0.076923 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.461538 0.538462 0.000000 0.000000 0.692308 0.307692 0.000000 0.000000 0.076923 0.923077 0.000000 0.153846 0.846154 0.000000 0.000000 0.923077 0.076923 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGKGTGCG MEME-4 regular expression -------------------------------------------------------------------------------- CG[TG][GT]TGCG -------------------------------------------------------------------------------- Time 27.77 secs. ******************************************************************************** ******************************************************************************** MOTIF GCCCRCCG MEME-5 width = 8 sites = 7 llr = 77 E-value = 3.5e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::6::: pos.-specific C 19aa:a9: probability G 91::4::a matrix T ::::::1: bits 2.4 ** * * 2.2 ** * * 1.9 * ** * * 1.7 **** *** Relative 1.5 **** *** Entropy 1.2 **** *** (15.9 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCCCACCG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:13205387-13205507 72 1.62e-06 GACTGTGGCT GCCCGCCG GTCGTCCGTC chrX:10325930-10326050 12 1.62e-06 TCCACAATGT GCCCGCCG CTTTTTCCAC chr2L:8692589-8692709 100 4.32e-06 CATCTCTCTC GCCCACCG CAGCCGTTTC chr3L:15235326-15235446 37 4.32e-06 AATTCTACCT GCCCACCG AGTGCAATTC chr2L:7027191-7027311 64 7.56e-06 AGAAGTGTGT GGCCGCCG CCCGCGTTTC chr2L:1071117-1071237 81 1.30e-05 CCTGATCTTA CCCCACCG CCTACGCCAC chr2L:12003031-12003151 36 2.00e-05 GCTTAAAGCA GCCCACTG TAGGCGGCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:13205387-13205507 1.6e-06 71_[+5]_41 chrX:10325930-10326050 1.6e-06 11_[+5]_101 chr2L:8692589-8692709 4.3e-06 99_[+5]_13 chr3L:15235326-15235446 4.3e-06 36_[+5]_76 chr2L:7027191-7027311 7.6e-06 63_[+5]_49 chr2L:1071117-1071237 1.3e-05 80_[+5]_32 chr2L:12003031-12003151 2e-05 35_[+5]_77 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCCCRCCG width=8 seqs=7 chr2L:13205387-13205507 ( 72) GCCCGCCG 1 chrX:10325930-10326050 ( 12) GCCCGCCG 1 chr2L:8692589-8692709 ( 100) GCCCACCG 1 chr3L:15235326-15235446 ( 37) GCCCACCG 1 chr2L:7027191-7027311 ( 64) GGCCGCCG 1 chr2L:1071117-1071237 ( 81) CCCCACCG 1 chr2L:12003031-12003151 ( 36) GCCCACTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.5841 E= 3.5e+004 -945 -41 220 -945 -945 217 -38 -945 -945 239 -945 -945 -945 239 -945 -945 87 -945 120 -945 -945 239 -945 -945 -945 217 -945 -112 -945 -945 242 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 3.5e+004 0.000000 0.142857 0.857143 0.000000 0.000000 0.857143 0.142857 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.571429 0.000000 0.428571 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.857143 0.000000 0.142857 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCCRCCG MEME-5 regular expression -------------------------------------------------------------------------------- GCCC[AG]CCG -------------------------------------------------------------------------------- Time 33.79 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:6746271-6746391 8.22e-02 120 chr2L:20079002-20079122 6.65e-01 120 chr2R:20270923-20271043 9.48e-01 120 chr3L:9691304-9691424 9.98e-01 120 chr2L:7412287-7412407 7.01e-01 120 chr3L:17948874-17948994 9.82e-01 120 chrX:19348956-19349076 9.66e-01 120 chr3R:16899882-16900002 6.53e-02 120 chr2R:22661329-22661449 3.51e-01 120 chr2R:23551177-23551297 1.67e-02 106_[+3(7.21e-05)]_6 chr3L:5604093-5604213 1.81e-01 120 chr2L:2735069-2735189 1.16e-01 120 chr3R:30802284-30802404 9.44e-03 68_[+4(3.43e-05)]_44 chr3L:1609785-1609905 2.87e-01 120 chr2R:14136887-14137007 5.13e-01 120 chr2R:22648555-22648675 6.60e-01 120 chrX:20434684-20434804 9.19e-01 120 chrX:2604094-2604214 2.12e-01 120 chrX:8493629-8493749 5.59e-01 120 chr3R:19166486-19166606 9.99e-01 120 chr3L:6495565-6495685 3.46e-01 120 chr3L:4413221-4413341 1.51e-01 120 chr3R:23228829-23228949 7.40e-01 120 chr3L:16147848-16147968 2.05e-01 120 chr3L:6086207-6086327 2.61e-01 120 chrX:15304342-15304462 8.23e-01 120 chr3L:9762273-9762393 7.27e-01 120 chr2R:10265401-10265521 4.14e-02 120 chr2R:13586412-13586532 9.71e-01 120 chr2L:6956886-6957006 6.94e-04 85_[+3(5.22e-05)]_27 chr3L:8853152-8853272 8.88e-02 120 chr2L:7494351-7494471 7.26e-01 120 chr3L:3544246-3544366 7.72e-01 120 chrX:16385951-16386071 4.05e-01 120 chrX:10473631-10473751 7.68e-03 28_[+5(6.49e-05)]_84 chr3R:17540261-17540381 4.20e-01 120 chr3L:629835-629955 3.76e-02 78_[+1(8.35e-05)]_34 chrX:5970480-5970600 7.37e-01 120 chr2R:6589467-6589587 6.08e-01 120 chr2R:14769473-14769593 9.78e-01 120 chr2R:24295068-24295188 8.44e-01 120 chr3R:7821712-7821832 8.64e-01 120 chr3L:11258644-11258764 9.46e-02 75_[+1(5.42e-05)]_37 chr3L:20518255-20518375 9.71e-01 120 chr3L:19905612-19905732 7.40e-01 120 chr2L:1158186-1158306 4.39e-01 120 chr2R:18846604-18846724 1.30e-01 120 chr3L:8708921-8709041 6.90e-01 120 chr3R:30489898-30490018 5.15e-01 120 chrX:6663270-6663390 4.84e-01 120 chr2L:14588984-14589104 2.50e-01 120 chr3L:1947658-1947778 3.21e-02 120 chr2L:19019334-19019454 1.83e-01 120 chr3L:22276755-22276875 5.46e-02 69_[+1(7.66e-05)]_43 chr3R:13383098-13383218 8.17e-01 120 chr3L:20097394-20097514 7.93e-01 120 chr3R:21612934-21613054 9.68e-01 120 chr3L:9838662-9838782 3.53e-01 120 chr2L:1071117-1071237 2.33e-03 80_[+5(1.30e-05)]_4_[+5(4.56e-05)]_\ 20 chrX:15591764-15591884 4.43e-02 68_[+1(6.09e-05)]_44 chr2R:24874806-24874926 6.23e-01 120 chr2R:12247786-12247906 1.14e-03 7_[+3(5.22e-05)]_78_[+4(2.93e-05)]_\ 19 chr3R:15225476-15225596 6.18e-02 52_[+2(4.59e-05)]_60 chr2R:22062466-22062586 1.31e-01 120 chr2L:13082282-13082402 9.75e-01 120 chr3L:3770989-3771109 3.17e-01 120 chr2L:16690082-16690202 8.64e-01 120 chr3R:8784959-8785079 2.17e-01 120 chr3R:25968683-25968803 7.53e-01 120 chr2L:18707998-18708118 4.50e-02 120 chr3R:21161778-21161898 1.75e-01 78_[+2(2.72e-05)]_34 chrX:2447863-2447983 3.65e-02 53_[+3(5.22e-05)]_59 chr3L:12350424-12350544 1.02e-01 85_[+1(8.78e-05)]_27 chr4:979921-980041 1.66e-01 120 chrX:17856899-17857019 6.44e-02 120 chr3R:5861448-5861568 4.78e-01 120 chr2R:9834864-9834984 9.76e-01 120 chr3R:30325641-30325761 2.09e-01 120 chrX:18407414-18407534 6.79e-01 120 chrX:5745117-5745237 7.32e-04 21_[+5(4.56e-05)]_91 chr3L:21205142-21205262 4.75e-01 120 chr3R:20908726-20908846 2.82e-01 120 chr2R:14137100-14137220 7.74e-03 53_[+5(3.85e-05)]_59 chr2L:19121008-19121128 1.03e-01 120 chrX:1380483-1380603 7.97e-03 1_[+1(8.35e-05)]_111 chr3R:14284570-14284690 6.94e-01 120 chr3L:19618532-19618652 6.18e-02 47_[+3(5.22e-05)]_65 chr3L:16582863-16582983 2.71e-02 105_[+3(7.21e-05)]_7 chr3L:3760758-3760878 9.99e-01 120 chrX:18404945-18405065 3.98e-02 49_[+1(3.41e-05)]_63 chr2R:20641605-20641725 6.43e-01 120 chr2L:6527081-6527201 1.47e-01 120 chr3R:5861658-5861778 9.99e-01 120 chrX:18494261-18494381 6.38e-01 120 chrX:1478402-1478522 1.82e-01 120 chr3R:16948758-16948878 1.71e-05 23_[+1(8.25e-06)]_18_[+2(2.72e-05)]_\ 37_[+2(1.58e-05)]_18 chrX:10184802-10184922 9.97e-01 120 chr3R:21118931-21119051 2.31e-02 120 chr2L:541084-541204 7.28e-01 120 chrX:13333020-13333140 2.68e-01 120 chr3R:5302057-5302177 5.74e-01 120 chr2L:7890850-7890970 1.09e-01 120 chr2R:25183103-25183223 9.82e-01 120 chr3R:31060449-31060569 7.14e-01 120 chr2L:13882124-13882244 5.89e-01 120 chr3R:17526195-17526315 9.73e-02 1_[+1(2.03e-05)]_111 chr2L:3042221-3042341 5.45e-01 120 chrX:14169189-14169309 6.39e-01 120 chr2L:14358988-14359108 8.62e-01 120 chrX:6678240-6678360 3.44e-01 110_[+1(7.66e-05)]_2 chr2R:14170434-14170554 1.27e-03 90_[+1(5.69e-06)]_22 chr2R:7916591-7916711 2.86e-01 120 chr2L:18136697-18136817 4.76e-03 16_[+1(3.41e-05)]_96 chr2L:203660-203780 5.29e-03 85_[+3(5.22e-05)]_16_[+3(1.98e-05)]_\ 3 chr2L:10516864-10516984 4.60e-02 120 chr3R:26121211-26121331 7.56e-01 120 chr3R:28600373-28600493 7.34e-01 120 chr2L:9775367-9775487 3.30e-02 120 chr3R:16355554-16355674 1.07e-01 102_[+4(4.27e-05)]_10 chrX:1270682-1270802 1.53e-04 27_[+2(7.66e-05)]_85 chr3L:5813186-5813306 4.92e-03 89_[+1(1.08e-05)]_23 chr2L:19430533-19430653 1.17e-03 103_[+2(4.35e-06)]_9 chr2L:7027191-7027311 3.60e-04 63_[+5(7.56e-06)]_49 chrX:15120209-15120329 8.55e-01 120 chr3L:15235326-15235446 8.29e-06 36_[+5(4.32e-06)]_21_[+5(2.00e-05)]_\ 1_[+2(1.58e-05)]_17_[+4(2.08e-05)]_13 chr3L:7861165-7861285 9.84e-01 120 chr2R:17161047-17161167 7.01e-01 120 chrX:10325930-10326050 6.71e-04 11_[+5(1.62e-06)]_101 chrX:8606276-8606396 1.10e-03 34_[+4(1.11e-05)]_78 chr3L:9972621-9972741 9.79e-01 120 chrX:1476971-1477091 1.56e-03 64_[+3(1.98e-05)]_48 chrX:5420818-5420938 5.39e-04 44_[+1(5.42e-05)]_68 chr3L:8763303-8763423 8.52e-02 1_[+1(3.41e-05)]_111 chr3R:9701383-9701503 5.10e-02 120 chr2L:16251935-16252055 7.89e-01 120 chrX:1880318-1880438 7.32e-02 120 chr2R:6781909-6782029 7.41e-01 120 chrX:11451108-11451228 9.25e-01 120 chr3L:17791631-17791751 1.00e+00 120 chrX:6590745-6590865 1.36e-04 88_[+3(1.98e-05)]_24 chr3R:25661653-25661773 7.73e-02 94_[+3(1.98e-05)]_18 chr3L:224320-224440 2.38e-02 46_[+1(2.03e-05)]_66 chrX:947577-947697 8.70e-01 120 chr3R:23028651-23028771 3.26e-03 [+2(4.35e-06)]_112 chr2L:19141006-19141126 6.32e-01 120 chr3L:3450503-3450623 9.86e-01 120 chr2L:20715186-20715306 9.09e-01 120 chr2L:13205387-13205507 4.50e-05 36_[+1(3.41e-05)]_27_[+5(1.62e-06)]_\ 41 chr3L:627876-627996 8.53e-02 120 chr2L:10767936-10768056 1.48e-06 22_[+4(2.08e-05)]_38_[+3(1.98e-05)]_\ 35_[+2(1.58e-05)]_1 chr3L:8526151-8526271 2.28e-01 120 chr3R:18274473-18274593 3.65e-01 120 chr3L:27267290-27267410 9.77e-01 120 chr2L:2858296-2858416 1.31e-01 79_[+4(2.67e-05)]_33 chr2R:17766944-17767064 1.13e-02 57_[+3(1.98e-05)]_55 chrX:8720257-8720377 5.34e-01 120 chr2R:12173427-12173547 1.67e-02 1_[+4(1.11e-05)]_111 chr3L:5789809-5789929 1.00e+00 120 chr2R:18277142-18277262 4.93e-04 20_[+1(5.42e-05)]_7_[+3(1.98e-05)]_\ 77 chr3R:32051857-32051977 3.49e-02 120 chrX:19166457-19166577 9.95e-01 120 chr2L:18590752-18590872 2.34e-02 99_[+1(8.35e-05)]_13 chr3L:12802679-12802799 8.55e-01 120 chrX:12611768-12611888 2.49e-01 120 chrX:5285997-5286117 9.50e-01 120 chr2R:22373512-22373632 1.26e-01 120 chr2L:21156208-21156328 1.81e-04 28_[+2(4.35e-06)]_84 chr3L:17597074-17597194 3.46e-01 120 chr2R:18775201-18775321 9.13e-01 120 chr3R:9986081-9986201 3.33e-01 120 chr2R:18451144-18451264 5.53e-01 120 chr2R:22562038-22562158 5.26e-04 43_[+1(6.09e-05)]_69 chr3L:16574587-16574707 5.40e-01 120 chr2R:13008292-13008412 9.30e-01 120 chr3R:26566932-26567052 7.74e-03 120 chr2R:24086577-24086697 4.88e-04 4_[+3(1.98e-05)]_5_[+4(6.84e-06)]_\ 95 chr2L:20881458-20881578 7.33e-01 120 chr3R:9874646-9874766 1.05e-01 120 chr3L:8604460-8604580 2.77e-05 78_[+5(4.32e-06)]_8_[+2(8.64e-06)]_\ 18 chr3L:17912627-17912747 6.35e-01 120 chr4:1230738-1230858 8.61e-01 120 chr3L:12803854-12803974 9.92e-01 120 chr2R:23970073-23970193 3.27e-01 120 chr3R:23157808-23157928 3.38e-02 96_[+3(5.22e-05)]_16 chrX:23013332-23013452 4.76e-02 84_[+3(5.22e-05)]_28 chr3L:17659307-17659427 1.35e-01 120 chr2L:8692589-8692709 1.44e-02 99_[+5(4.32e-06)]_13 chrX:2340157-2340277 6.78e-01 120 chrX:10629064-10629184 9.66e-01 120 chr2L:283261-283381 9.06e-02 120 chrX:796458-796578 3.13e-01 120 chr2L:1628246-1628366 7.93e-01 120 chr3L:10866697-10866817 3.04e-03 19_[+1(1.34e-05)]_93 chrX:5892196-5892316 9.77e-01 120 chr2R:23383394-23383514 1.93e-03 120 chr2L:6907918-6908038 9.64e-01 120 chrX:10387833-10387953 4.05e-01 120 chr2R:18774913-18775033 6.00e-01 120 chr3R:6791540-6791660 3.41e-01 120 chr3R:10140419-10140539 1.72e-01 120 chr2L:7494550-7494670 1.44e-01 90_[+1(9.20e-05)]_22 chr2L:11203727-11203847 7.88e-01 120 chr3L:1350591-1350711 5.97e-03 36_[+2(8.64e-06)]_76 chr2R:21183155-21183275 1.69e-01 120 chr2R:9388620-9388740 9.30e-01 120 chr2L:8554342-8554462 3.54e-01 120 chrX:1370174-1370294 4.07e-01 120 chr2R:22886364-22886484 9.99e-01 120 chrX:14839838-14839958 2.04e-02 8_[+4(6.84e-06)]_104 chrX:18370826-18370946 6.63e-02 120 chr2L:1710401-1710521 2.23e-02 120 chr2R:13999260-13999380 5.81e-01 120 chr2R:23725973-23726093 1.77e-02 120 chrX:10086379-10086499 2.09e-06 66_[+4(2.57e-06)]_37_[+2(2.28e-05)]_\ 1 chr2L:12372589-12372709 7.49e-01 120 chr3R:8563917-8564037 5.24e-01 120 chr3L:8672646-8672766 9.63e-01 120 chr2R:5122235-5122355 4.61e-01 120 chr3R:5588298-5588418 7.37e-02 120 chr3L:5152520-5152640 8.26e-03 66_[+2(4.35e-06)]_46 chr2R:21663214-21663334 4.51e-02 120 chr3L:13929302-13929422 1.59e-01 120 chr3R:7000941-7001061 6.76e-05 58_[+1(8.25e-06)]_38_[+4(2.57e-06)]_\ 8 chrX:4610623-4610743 8.63e-01 120 chr3R:8984671-8984791 5.09e-01 120 chr3R:25027689-25027809 8.90e-01 120 chr3L:13486721-13486841 2.40e-02 58_[+3(5.22e-05)]_54 chr3L:7348072-7348192 9.96e-01 120 chr3R:10161326-10161446 8.88e-02 120 chr3R:16764103-16764223 3.65e-03 19_[+1(3.41e-05)]_93 chr2L:7871964-7872084 8.93e-01 120 chr2R:9544891-9545011 2.06e-01 120 chr2L:12003031-12003151 1.49e-04 35_[+5(2.00e-05)]_1_[+1(5.42e-05)]_\ 27_[+4(9.28e-05)]_33 chr2R:17848919-17849039 7.65e-01 120 chr2R:17564767-17564887 4.57e-01 120 chr2R:10811017-10811137 4.21e-01 120 chrX:15892034-15892154 1.07e-01 56_[+3(5.22e-05)]_56 chr4:43736-43856 1.72e-01 120 chr3R:13030712-13030832 9.78e-01 120 chr3L:16165796-16165916 2.20e-01 13_[+4(2.08e-05)]_99 chrX:14602697-14602817 7.52e-03 120 chr3L:21318032-21318152 5.12e-02 120 chr2R:23940200-23940320 9.45e-01 120 chrX:13391296-13391416 1.36e-01 120 chrX:20394215-20394335 5.45e-01 120 chr3R:9055156-9055276 8.80e-01 120 chr2R:17683597-17683717 2.63e-02 8_[+1(2.03e-05)]_104 chr3R:9370563-9370683 8.56e-01 120 chrX:11694971-11695091 2.08e-02 107_[+3(1.98e-05)]_5 chr3L:16955375-16955495 1.68e-02 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n06.farnam.hpc.yale.internal ********************************************************************************