******************************************************************************** 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/zfh2.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3L:16310162-16310282 1.0000 120 chr2R:20270989-20271109 1.0000 120 chr2L:20079000-20079120 1.0000 120 chr3R:8524422-8524542 1.0000 120 chr2L:2735078-2735198 1.0000 120 chrX:7323744-7323864 1.0000 120 chrX:8906906-8907026 1.0000 120 chr2L:9779235-9779355 1.0000 120 chrX:3950286-3950406 1.0000 120 chr3R:21852777-21852897 1.0000 120 chr2R:20641608-20641728 1.0000 120 chrX:19292394-19292514 1.0000 120 chr3R:23337340-23337460 1.0000 120 chr2L:2133109-2133229 1.0000 120 chrX:13333075-13333195 1.0000 120 chr2R:10013375-10013495 1.0000 120 chr2R:20281278-20281398 1.0000 120 chr2L:1071068-1071188 1.0000 120 chr2R:6938652-6938772 1.0000 120 chr3R:27289760-27289880 1.0000 120 chr3L:1534264-1534384 1.0000 120 chr3R:8930246-8930366 1.0000 120 chr3R:23228813-23228933 1.0000 120 chr3L:20827324-20827444 1.0000 120 chrX:948268-948388 1.0000 120 chr2L:1043695-1043815 1.0000 120 chrX:16581861-16581981 1.0000 120 chr2L:3058864-3058984 1.0000 120 chr3R:12083683-12083803 1.0000 120 chr2R:22737930-22738050 1.0000 120 chr3L:16160130-16160250 1.0000 120 chrX:18101893-18102013 1.0000 120 chrX:16671195-16671315 1.0000 120 chr2R:16660172-16660292 1.0000 120 chr3R:15547903-15548023 1.0000 120 chrX:13676642-13676762 1.0000 120 chr2R:22450434-22450554 1.0000 120 chr2L:14499171-14499291 1.0000 120 chr2R:14771533-14771653 1.0000 120 chr3L:4446026-4446146 1.0000 120 chr3R:21118932-21119052 1.0000 120 chr2L:4335256-4335376 1.0000 120 chr2R:24197701-24197821 1.0000 120 chrX:15120279-15120399 1.0000 120 chr2R:23869709-23869829 1.0000 120 chrX:1260472-1260592 1.0000 120 chr2R:17420047-17420167 1.0000 120 chr3R:15330594-15330714 1.0000 120 chrX:18494289-18494409 1.0000 120 chr3R:21140593-21140713 1.0000 120 chr2L:7443066-7443186 1.0000 120 chr3R:10699247-10699367 1.0000 120 chr3L:627878-627998 1.0000 120 chr3R:18243703-18243823 1.0000 120 chr3R:8784941-8785061 1.0000 120 chr3L:3411783-3411903 1.0000 120 chr3L:8655374-8655494 1.0000 120 chrX:10474646-10474766 1.0000 120 chrX:618670-618790 1.0000 120 chr2L:8461983-8462103 1.0000 120 chr2R:17161015-17161135 1.0000 120 chr3L:3772677-3772797 1.0000 120 chr2L:10321122-10321242 1.0000 120 chrX:19495405-19495525 1.0000 120 chr3L:5819429-5819549 1.0000 120 chr2L:937082-937202 1.0000 120 chr3R:3846628-3846748 1.0000 120 chr2L:9938113-9938233 1.0000 120 chr2L:6089022-6089142 1.0000 120 chr2R:24132865-24132985 1.0000 120 chr3R:30056071-30056191 1.0000 120 chrX:3403531-3403651 1.0000 120 chr2L:19069714-19069834 1.0000 120 chr3R:24626251-24626371 1.0000 120 chr2R:23942343-23942463 1.0000 120 chr2L:8732855-8732975 1.0000 120 chr3R:30134770-30134890 1.0000 120 chrX:6220472-6220592 1.0000 120 chr3L:11119521-11119641 1.0000 120 chr3R:24100857-24100977 1.0000 120 chr2L:9448867-9448987 1.0000 120 chrX:9082634-9082754 1.0000 120 chrX:11391666-11391786 1.0000 120 chr3L:13015326-13015446 1.0000 120 chr3R:9931277-9931397 1.0000 120 chr2L:10437457-10437577 1.0000 120 chr2L:5907016-5907136 1.0000 120 chr3R:5861731-5861851 1.0000 120 chr3L:19905651-19905771 1.0000 120 chr2L:8894372-8894492 1.0000 120 chrX:19521944-19522064 1.0000 120 chr3L:9614080-9614200 1.0000 120 chrX:21035350-21035470 1.0000 120 chr2R:24571690-24571810 1.0000 120 chr2L:20417835-20417955 1.0000 120 chrX:16781237-16781357 1.0000 120 chr2R:11044542-11044662 1.0000 120 chr2L:19141067-19141187 1.0000 120 chr3R:15293798-15293918 1.0000 120 chr2L:9911904-9912024 1.0000 120 chr3R:7892838-7892958 1.0000 120 chr2R:22066777-22066897 1.0000 120 chr2R:7653893-7654013 1.0000 120 chrX:476542-476662 1.0000 120 chr2L:20734260-20734380 1.0000 120 chr2R:24629544-24629664 1.0000 120 chr3R:25661696-25661816 1.0000 120 chrX:6678206-6678326 1.0000 120 chr3R:17040561-17040681 1.0000 120 chr2R:18172452-18172572 1.0000 120 chr3R:5065103-5065223 1.0000 120 chr2R:11969048-11969168 1.0000 120 chrX:1476993-1477113 1.0000 120 chr2R:13507014-13507134 1.0000 120 chr3R:6397778-6397898 1.0000 120 chrX:8601308-8601428 1.0000 120 chr3R:18315371-18315491 1.0000 120 chr3L:3320137-3320257 1.0000 120 chrX:22449394-22449514 1.0000 120 chr2L:9494831-9494951 1.0000 120 chr2L:1177609-1177729 1.0000 120 chr3R:26121896-26122016 1.0000 120 chr2R:16951856-16951976 1.0000 120 chr3L:3225511-3225631 1.0000 120 chr3R:14575902-14576022 1.0000 120 chr2R:23668803-23668923 1.0000 120 chrX:13376657-13376777 1.0000 120 chrX:8273874-8273994 1.0000 120 chr3R:16704353-16704473 1.0000 120 chrX:15887328-15887448 1.0000 120 chr3L:13964656-13964776 1.0000 120 chr2L:16271159-16271279 1.0000 120 chr2L:21166583-21166703 1.0000 120 chr3L:12409076-12409196 1.0000 120 chr3R:15963847-15963967 1.0000 120 chrX:1880307-1880427 1.0000 120 chr2R:12569848-12569968 1.0000 120 chr3L:19618477-19618597 1.0000 120 chr3L:3770975-3771095 1.0000 120 chr3L:15563578-15563698 1.0000 120 chrX:8606310-8606430 1.0000 120 chrX:7901793-7901913 1.0000 120 chrX:14583294-14583414 1.0000 120 chr2R:19292168-19292288 1.0000 120 chr3R:24544469-24544589 1.0000 120 chr3L:4353896-4354016 1.0000 120 chrX:19665975-19666095 1.0000 120 chr3R:31805371-31805491 1.0000 120 chr3R:21188085-21188205 1.0000 120 chr2R:14275456-14275576 1.0000 120 chr2L:7027144-7027264 1.0000 120 chr3L:2377570-2377690 1.0000 120 chr3R:30280503-30280623 1.0000 120 chr2L:1158225-1158345 1.0000 120 chrX:947590-947710 1.0000 120 chr3L:18672379-18672499 1.0000 120 chr2L:15039386-15039506 1.0000 120 chr4:660599-660719 1.0000 120 chrX:3399452-3399572 1.0000 120 chr2R:6781862-6781982 1.0000 120 chr2L:11199158-11199278 1.0000 120 chrX:15986857-15986977 1.0000 120 chrX:8233370-8233490 1.0000 120 chr2R:24893675-24893795 1.0000 120 chr3R:27557093-27557213 1.0000 120 chrX:1033214-1033334 1.0000 120 chrX:11715409-11715529 1.0000 120 chr3R:10888661-10888781 1.0000 120 chr2R:12344830-12344950 1.0000 120 chrX:10385780-10385900 1.0000 120 chrX:8533652-8533772 1.0000 120 chr2L:4224225-4224345 1.0000 120 chr3R:18168550-18168670 1.0000 120 chr3R:23760553-23760673 1.0000 120 chr2R:9103173-9103293 1.0000 120 chr2R:7987807-7987927 1.0000 120 chr2R:8650577-8650697 1.0000 120 chr3R:29068864-29068984 1.0000 120 chr3L:9729947-9730067 1.0000 120 chr3L:17009779-17009899 1.0000 120 chrX:14580510-14580630 1.0000 120 chrX:1478426-1478546 1.0000 120 chr2L:11203771-11203891 1.0000 120 chr3R:18215452-18215572 1.0000 120 chrX:617564-617684 1.0000 120 chr2L:20675978-20676098 1.0000 120 chrX:20423872-20423992 1.0000 120 chrX:14169209-14169329 1.0000 120 chrX:4540708-4540828 1.0000 120 chr2R:22373527-22373647 1.0000 120 chrX:5671795-5671915 1.0000 120 chr2R:22640222-22640342 1.0000 120 chr2L:7412299-7412419 1.0000 120 chrX:6973442-6973562 1.0000 120 chr2R:9116511-9116631 1.0000 120 chr2R:23818402-23818522 1.0000 120 chr4:1181904-1182024 1.0000 120 chrX:4116937-4117057 1.0000 120 chrX:5420867-5420987 1.0000 120 chr4:443970-444090 1.0000 120 chr2R:6656362-6656482 1.0000 120 chrX:2720253-2720373 1.0000 120 chr2R:23933566-23933686 1.0000 120 chr2L:14359105-14359225 1.0000 120 chrX:12611750-12611870 1.0000 120 chr2R:6881080-6881200 1.0000 120 chr2R:18277139-18277259 1.0000 120 chr3L:7510917-7511037 1.0000 120 chrX:10387795-10387915 1.0000 120 chr3L:19991767-19991887 1.0000 120 chr3L:10866797-10866917 1.0000 120 chr2L:14024777-14024897 1.0000 120 chrX:8493605-8493725 1.0000 120 chrX:13845871-13845991 1.0000 120 chrX:6663265-6663385 1.0000 120 chrX:12631461-12631581 1.0000 120 chr3L:1947663-1947783 1.0000 120 chr3L:22277378-22277498 1.0000 120 chr3R:8009275-8009395 1.0000 120 chr2R:22886458-22886578 1.0000 120 chr2R:5967736-5967856 1.0000 120 chr2R:7636667-7636787 1.0000 120 chr3R:16355547-16355667 1.0000 120 chr3R:10024171-10024291 1.0000 120 chrX:5892216-5892336 1.0000 120 chr2R:13968163-13968283 1.0000 120 chr3L:14029101-14029221 1.0000 120 chr3R:15472826-15472946 1.0000 120 chr2R:20319505-20319625 1.0000 120 chr2L:4458790-4458910 1.0000 120 chr2L:16251942-16252062 1.0000 120 chr3L:15832258-15832378 1.0000 120 chr3L:12803761-12803881 1.0000 120 chr3R:27988962-27989082 1.0000 120 chr3L:13929284-13929404 1.0000 120 chrX:10086334-10086454 1.0000 120 chr3R:17149363-17149483 1.0000 120 chr3L:9899191-9899311 1.0000 120 chr3L:12116010-12116130 1.0000 120 chrX:1392922-1393042 1.0000 120 chr2L:20918833-20918953 1.0000 120 chr2L:19397784-19397904 1.0000 120 chr3L:15565938-15566058 1.0000 120 chrX:656063-656183 1.0000 120 chrX:16102407-16102527 1.0000 120 chrX:9193726-9193846 1.0000 120 chr2L:14376947-14377067 1.0000 120 chr2R:21183231-21183351 1.0000 120 chr2R:7815126-7815246 1.0000 120 chr3R:30096002-30096122 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_zfh2/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/zfh2.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 0.305 C 0.2 G 0.196 T 0.298 Background letter frequencies (from file dataset with add-one prior applied): A 0.305 C 0.2 G 0.196 T 0.298 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CAACACTG MEME-1 width = 8 sites = 29 llr = 275 E-value = 5.7e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1a7:8::: pos.-specific C 9::a29:: probability G 1:3::1:a matrix T ::::::a: bits 2.3 * * 2.1 * * 1.9 * * * 1.6 ** * *** Relative 1.4 ** * *** Entropy 1.2 ** ***** (13.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAACACTG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:1392922-1393042 42 1.33e-05 TGGCGTTGCC CAACACTG ACCAGCCAGC chr3L:9899191-9899311 34 1.33e-05 ATCTATTGGC CAACACTG GCAACCCAAG chr3L:7510917-7511037 95 1.33e-05 CGAGAGTTGG CAACACTG CCACACTGTC chr2R:18277139-18277259 68 1.33e-05 AGGGGATATA CAACACTG AAGTGGGCTT chr2R:6656362-6656482 31 1.33e-05 CGCTGTTGTC CAACACTG TTTGCTCAAG chrX:617564-617684 104 1.33e-05 ACACGATGTC CAACACTG GTTGAGCGC chr2R:19292168-19292288 17 1.33e-05 CGGCGCTTCA CAACACTG AAACACCACT chr2R:7653893-7654013 95 1.33e-05 CATGCTTTCC CAACACTG ACTTTAACAC chr2R:22066777-22066897 64 1.33e-05 TTGTCAAACG CAACACTG AAATCCGACT chr3L:11119521-11119641 89 1.33e-05 CGAACGTTGG CAACACTG CTCCACTCTC chr3R:15330594-15330714 106 1.33e-05 TCATATCTGG CAACACTG CAAACTG chr2R:17420047-17420167 103 1.33e-05 CAGCGCTTCG CAACACTG TCGCCGCCCC chr2R:23818402-23818522 67 2.18e-05 AGCCGACTTG CAGCACTG GCCTTTGGAA chr3R:23760553-23760673 32 2.18e-05 AAAAATTACA CAGCACTG GGCTAGTGCA chr2L:7027144-7027264 16 2.18e-05 CTGGCCCAAC CAGCACTG CGCCAGAAGA chr2L:20734260-20734380 14 2.18e-05 TGCCGAACGT CAGCACTG TAGCAGCGTT chr2L:5907016-5907136 32 2.18e-05 ATTCAAAATG CAGCACTG GCGTTTGGTC chr3L:1947663-1947783 93 3.05e-05 GTGCACCTGG CAACCCTG TGCATCACCA chr3R:18168550-18168670 84 3.05e-05 GCATGTCTGG CAACCCTG GCAATTGGTC chr3L:18672379-18672499 64 3.05e-05 TGCGATCCGG CAACCCTG TGCTCTAGAA chrX:476542-476662 50 3.05e-05 GCACGGCTGG CAACCCTG GCCGATAGTC chrX:7901793-7901913 43 3.61e-05 ATCGAAAAGC CAGCCCTG CGACGTTGCC chr3L:15565938-15566058 31 5.77e-05 ATTGGAGTGC CACCACTG CCGTGATTCG chr2L:15039386-15039506 39 7.07e-05 CAAATCCAAC CAACAGTG CTGTGAAGCG chr3R:31805371-31805491 85 7.07e-05 TGATAATAGG CAACAGTG TACACTTTTT chr3L:14029101-14029221 24 9.93e-05 AGTTGGTACA AAACACTG TTTATGCGAT chrX:6973442-6973562 58 9.93e-05 CAACTATTTC AAACACTG AAAACAATTT chrX:10385780-10385900 90 9.93e-05 CCGCGTTGCT GAGCACTG GCTGGCTTCG chr2L:937082-937202 44 9.93e-05 CTCTTGACTT GAGCACTG AAGAATTTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:1392922-1393042 1.3e-05 41_[+1]_71 chr3L:9899191-9899311 1.3e-05 33_[+1]_79 chr3L:7510917-7511037 1.3e-05 94_[+1]_18 chr2R:18277139-18277259 1.3e-05 67_[+1]_45 chr2R:6656362-6656482 1.3e-05 30_[+1]_82 chrX:617564-617684 1.3e-05 103_[+1]_9 chr2R:19292168-19292288 1.3e-05 16_[+1]_96 chr2R:7653893-7654013 1.3e-05 94_[+1]_18 chr2R:22066777-22066897 1.3e-05 63_[+1]_49 chr3L:11119521-11119641 1.3e-05 88_[+1]_24 chr3R:15330594-15330714 1.3e-05 105_[+1]_7 chr2R:17420047-17420167 1.3e-05 102_[+1]_10 chr2R:23818402-23818522 2.2e-05 66_[+1]_46 chr3R:23760553-23760673 2.2e-05 31_[+1]_81 chr2L:7027144-7027264 2.2e-05 15_[+1]_97 chr2L:20734260-20734380 2.2e-05 13_[+1]_99 chr2L:5907016-5907136 2.2e-05 31_[+1]_81 chr3L:1947663-1947783 3e-05 92_[+1]_20 chr3R:18168550-18168670 3e-05 83_[+1]_29 chr3L:18672379-18672499 3e-05 63_[+1]_49 chrX:476542-476662 3e-05 49_[+1]_63 chrX:7901793-7901913 3.6e-05 42_[+1]_70 chr3L:15565938-15566058 5.8e-05 30_[+1]_82 chr2L:15039386-15039506 7.1e-05 38_[+1]_74 chr3R:31805371-31805491 7.1e-05 84_[+1]_28 chr3L:14029101-14029221 9.9e-05 23_[+1]_89 chrX:6973442-6973562 9.9e-05 57_[+1]_55 chrX:10385780-10385900 9.9e-05 89_[+1]_23 chr2L:937082-937202 9.9e-05 43_[+1]_69 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAACACTG width=8 seqs=29 chrX:1392922-1393042 ( 42) CAACACTG 1 chr3L:9899191-9899311 ( 34) CAACACTG 1 chr3L:7510917-7511037 ( 95) CAACACTG 1 chr2R:18277139-18277259 ( 68) CAACACTG 1 chr2R:6656362-6656482 ( 31) CAACACTG 1 chrX:617564-617684 ( 104) CAACACTG 1 chr2R:19292168-19292288 ( 17) CAACACTG 1 chr2R:7653893-7654013 ( 95) CAACACTG 1 chr2R:22066777-22066897 ( 64) CAACACTG 1 chr3L:11119521-11119641 ( 89) CAACACTG 1 chr3R:15330594-15330714 ( 106) CAACACTG 1 chr2R:17420047-17420167 ( 103) CAACACTG 1 chr2R:23818402-23818522 ( 67) CAGCACTG 1 chr3R:23760553-23760673 ( 32) CAGCACTG 1 chr2L:7027144-7027264 ( 16) CAGCACTG 1 chr2L:20734260-20734380 ( 14) CAGCACTG 1 chr2L:5907016-5907136 ( 32) CAGCACTG 1 chr3L:1947663-1947783 ( 93) CAACCCTG 1 chr3R:18168550-18168670 ( 84) CAACCCTG 1 chr3L:18672379-18672499 ( 64) CAACCCTG 1 chrX:476542-476662 ( 50) CAACCCTG 1 chrX:7901793-7901913 ( 43) CAGCCCTG 1 chr3L:15565938-15566058 ( 31) CACCACTG 1 chr2L:15039386-15039506 ( 39) CAACAGTG 1 chr3R:31805371-31805491 ( 85) CAACAGTG 1 chr3L:14029101-14029221 ( 24) AAACACTG 1 chrX:6973442-6973562 ( 58) AAACACTG 1 chrX:10385780-10385900 ( 90) GAGCACTG 1 chr2L:937082-937202 ( 44) GAGCACTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 9.81167 E= 5.7e-007 -215 210 -151 -1150 171 -1150 -1150 -1150 117 -254 49 -1150 -1150 232 -1150 -1150 144 -22 -1150 -1150 -1150 222 -151 -1150 -1150 -1150 -1150 175 -1150 -1150 235 -1150 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 29 E= 5.7e-007 0.068966 0.862069 0.068966 0.000000 1.000000 0.000000 0.000000 0.000000 0.689655 0.034483 0.275862 0.000000 0.000000 1.000000 0.000000 0.000000 0.827586 0.172414 0.000000 0.000000 0.000000 0.931034 0.068966 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-1 regular expression -------------------------------------------------------------------------------- CA[AG]CACTG -------------------------------------------------------------------------------- Time 7.44 secs. ******************************************************************************** ******************************************************************************** MOTIF CAGKGCTG MEME-2 width = 8 sites = 23 llr = 228 E-value = 2.5e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :8:::::: pos.-specific C 91:::8:: probability G 1:a4a::a matrix T :::6:2a: bits 2.3 * * * 2.1 * * * 1.9 * * * * 1.6 * * **** Relative 1.4 * * **** Entropy 1.2 * * **** (14.3 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAGTGCTG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:17149363-17149483 89 1.35e-05 AACAGTGGGA CAGTGCTG CCACACCTGC chr2L:4458790-4458910 91 1.35e-05 TTGCTAAATA CAGTGCTG TATAACGGTC chr2R:23933566-23933686 13 1.35e-05 TCGCACAAGA CAGGGCTG ACTGAAAACG chrX:5420867-5420987 14 1.35e-05 CATGCACAAA CAGGGCTG CCCACGCTCA chrX:4116937-4117057 45 1.35e-05 ATGACATGGG CAGTGCTG CGCAGCGTCG chr3R:18215452-18215572 8 1.35e-05 GTAAGAC CAGGGCTG CAACTACGAA chr2L:4224225-4224345 35 1.35e-05 GCTCCATTTT CAGTGCTG TAAATTGCCA chr2L:9494831-9494951 5 1.35e-05 TGCC CAGGGCTG CATGAGAAAG chrX:1476993-1477113 69 1.35e-05 CGAGATAAAC CAGTGCTG TAAAGCGCCG chr3R:3846628-3846748 88 1.35e-05 ATAGTATGGA CAGGGCTG ATACTAACAG chrX:1260472-1260592 12 1.35e-05 GAGAAACACC CAGTGCTG ATTGTATTGT chr2R:24197701-24197821 103 1.35e-05 CATTCCAGGC CAGTGCTG GGCCAGCTGT chrX:8906906-8907026 78 1.35e-05 TCACTGTTCC CAGTGCTG CCAGACAGCG chr2R:13968163-13968283 109 2.24e-05 ACAGCACAGT CCGTGCTG CTGA chr3L:9729947-9730067 12 2.24e-05 TGTTGTAAAA CCGGGCTG ACAAGCGGTT chr2R:9103173-9103293 46 2.24e-05 TGCAATGTGA CCGTGCTG CTGATTGTGT chr3L:9899191-9899311 53 4.25e-05 CAACCCAAGC CAGGGTTG GCTTGTGCGT chr2R:5967736-5967856 37 4.25e-05 TAGTGGTGTT CAGTGTTG TTAGATGTCG chr2R:22886458-22886578 110 4.25e-05 CGCCGGCGAC CAGGGTTG GCA chrX:8606310-8606430 62 4.25e-05 TAATGTGCAT CAGTGTTG GCAAGCGATC chr2R:24893675-24893795 12 5.58e-05 AGTCCCCATT GAGTGCTG ACTGCTATCT chr2L:20734260-20734380 50 5.58e-05 GTACAGCTGA GAGGGCTG CCAACTGGCT chr2L:20417835-20417955 106 6.45e-05 TTCGCATCAT CGGTGCTG AAAATCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:17149363-17149483 1.4e-05 88_[+2]_24 chr2L:4458790-4458910 1.4e-05 90_[+2]_22 chr2R:23933566-23933686 1.4e-05 12_[+2]_100 chrX:5420867-5420987 1.4e-05 13_[+2]_99 chrX:4116937-4117057 1.4e-05 44_[+2]_68 chr3R:18215452-18215572 1.4e-05 7_[+2]_105 chr2L:4224225-4224345 1.4e-05 34_[+2]_78 chr2L:9494831-9494951 1.4e-05 4_[+2]_108 chrX:1476993-1477113 1.4e-05 68_[+2]_44 chr3R:3846628-3846748 1.4e-05 87_[+2]_25 chrX:1260472-1260592 1.4e-05 11_[+2]_101 chr2R:24197701-24197821 1.4e-05 102_[+2]_10 chrX:8906906-8907026 1.4e-05 77_[+2]_35 chr2R:13968163-13968283 2.2e-05 108_[+2]_4 chr3L:9729947-9730067 2.2e-05 11_[+2]_101 chr2R:9103173-9103293 2.2e-05 45_[+2]_67 chr3L:9899191-9899311 4.3e-05 52_[+2]_60 chr2R:5967736-5967856 4.3e-05 36_[+2]_76 chr2R:22886458-22886578 4.3e-05 109_[+2]_3 chrX:8606310-8606430 4.3e-05 61_[+2]_51 chr2R:24893675-24893795 5.6e-05 11_[+2]_101 chr2L:20734260-20734380 5.6e-05 49_[+2]_63 chr2L:20417835-20417955 6.4e-05 105_[+2]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGKGCTG width=8 seqs=23 chr3R:17149363-17149483 ( 89) CAGTGCTG 1 chr2L:4458790-4458910 ( 91) CAGTGCTG 1 chr2R:23933566-23933686 ( 13) CAGGGCTG 1 chrX:5420867-5420987 ( 14) CAGGGCTG 1 chrX:4116937-4117057 ( 45) CAGTGCTG 1 chr3R:18215452-18215572 ( 8) CAGGGCTG 1 chr2L:4224225-4224345 ( 35) CAGTGCTG 1 chr2L:9494831-9494951 ( 5) CAGGGCTG 1 chrX:1476993-1477113 ( 69) CAGTGCTG 1 chr3R:3846628-3846748 ( 88) CAGGGCTG 1 chrX:1260472-1260592 ( 12) CAGTGCTG 1 chr2R:24197701-24197821 ( 103) CAGTGCTG 1 chrX:8906906-8907026 ( 78) CAGTGCTG 1 chr2R:13968163-13968283 ( 109) CCGTGCTG 1 chr3L:9729947-9730067 ( 12) CCGGGCTG 1 chr2R:9103173-9103293 ( 46) CCGTGCTG 1 chr3L:9899191-9899311 ( 53) CAGGGTTG 1 chr2R:5967736-5967856 ( 37) CAGTGTTG 1 chr2R:22886458-22886578 ( 110) CAGGGTTG 1 chrX:8606310-8606430 ( 62) CAGTGTTG 1 chr2R:24893675-24893795 ( 12) GAGTGCTG 1 chr2L:20734260-20734380 ( 50) GAGGGCTG 1 chr2L:20417835-20417955 ( 106) CGGTGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.8221 E= 2.5e-005 -1117 219 -117 -1117 143 -62 -217 -1117 -1117 -1117 235 -1117 -1117 -1117 100 103 -1117 -1117 235 -1117 -1117 204 -1117 -78 -1117 -1117 -1117 175 -1117 -1117 235 -1117 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 2.5e-005 0.000000 0.913043 0.086957 0.000000 0.826087 0.130435 0.043478 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.391304 0.608696 0.000000 0.000000 1.000000 0.000000 0.000000 0.826087 0.000000 0.173913 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGKGCTG MEME-2 regular expression -------------------------------------------------------------------------------- CAG[TG]GCTG -------------------------------------------------------------------------------- Time 13.72 secs. ******************************************************************************** ******************************************************************************** MOTIF TATCGATA MEME-3 width = 8 sites = 31 llr = 282 E-value = 4.4e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 Description -------------------------------------------------------------------------------- Simplified A 1a:::a:9 pos.-specific C 2::a:::: probability G ::1:a::1 matrix T 7:9:::a: bits 2.3 ** 2.1 ** 1.9 ** 1.6 * **** Relative 1.4 * ***** Entropy 1.2 ******* (13.1 bits) 0.9 ******* 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TATCGATA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:12116010-12116130 22 2.94e-05 AATGTTAAAT TATCGATA AGCCAAACCA chr3L:14029101-14029221 44 2.94e-05 TATGCGATAC TATCGATA GTTCCAGAAG chrX:12631461-12631581 108 2.94e-05 ATAAGATTGA TATCGATA ATGCC chr3L:19991767-19991887 74 2.94e-05 CGCCCTAACT TATCGATA CATCAAAAGC chrX:617564-617684 37 2.94e-05 CGACGGGGCC TATCGATA TACCCGATAA chrX:1033214-1033334 12 2.94e-05 GCGCCGATAC TATCGATA CAAGCCCAGT chr2L:15039386-15039506 109 2.94e-05 CCTATCGGAC TATCGATA CAAC chr2L:1177609-1177729 74 2.94e-05 ATCGGTCAGT TATCGATA ACTGGCAGTC chr3R:6397778-6397898 87 2.94e-05 tccaaattct tatcgata gaAGCGGATT chrX:1476993-1477113 44 2.94e-05 CGCGCAGAGC TATCGATA AGTATCGCGA chr3R:17040561-17040681 107 2.94e-05 TTTGTCGATA TATCGATA GGCTGG chr3R:25661696-25661816 53 2.94e-05 TTGGCATTGC TATCGATA GCTTGAAAAA chrX:476542-476662 74 2.94e-05 AGTCAATAAA TATCGATA GTTGTTGGTT chr3L:13015326-13015446 30 2.94e-05 TGTCAGCAGC TATCGATA GTTGTTTCGT chr3R:21140593-21140713 82 2.94e-05 AAATTAGTTG TATCGATA CCGCGACGAA chr2L:9779235-9779355 45 2.94e-05 GGAAACTTtc tatcgata ttccagaaaa chr2R:21183231-21183351 40 4.92e-05 TGTTTTGATG CATCGATA ACAACAAAAA chrX:5420867-5420987 30 4.92e-05 TGCCCACGCT CATCGATA GGTATCGATT chrX:20423872-20423992 23 4.92e-05 CCAAGGATTC CATCGATA AATTATTTAT chrX:14580510-14580630 41 4.92e-05 CTTGCTGGCC CATCGATA AGAAGCGGTT chr3R:8784941-8785061 103 4.92e-05 GCCCCCATAT CATCGATA TACCTTTATA chr3L:13929284-13929404 61 6.85e-05 CGGCTTTGAG TAGCGATA TTATTTGCAA chr3R:24100857-24100977 88 6.85e-05 CCACGTACCC TAGCGATA ACAAATTAGT chr2R:5967736-5967856 60 8.75e-05 TGTCGATAGT TATCGATG TTGTAAGCTG chr2R:18277139-18277259 40 8.75e-05 CAGTATTACC TATCGATG ATTCTGTTTT chrX:19521944-19522064 65 8.75e-05 AGATGTCGAA TATCGATG TCGTCTGCCC chr4:660599-660719 43 1.18e-04 TTCTTAAACT AATCGATA TTAATCAATC chr2R:7653893-7654013 77 1.18e-04 GCTATCGACG AATCGATA CATGCTTTCC chrX:21035350-21035470 74 1.18e-04 TGGGTATCGT AATCGATA GTTGCGAAAT chr3L:3320137-3320257 92 1.31e-04 CATGTACAAT CAGCGATA AAAACGAAAA chrX:10474646-10474766 86 1.31e-04 GATGTGTATC CAGCGATA TATTAAGTTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:12116010-12116130 2.9e-05 21_[+3]_91 chr3L:14029101-14029221 2.9e-05 43_[+3]_69 chrX:12631461-12631581 2.9e-05 107_[+3]_5 chr3L:19991767-19991887 2.9e-05 73_[+3]_39 chrX:617564-617684 2.9e-05 36_[+3]_76 chrX:1033214-1033334 2.9e-05 11_[+3]_101 chr2L:15039386-15039506 2.9e-05 108_[+3]_4 chr2L:1177609-1177729 2.9e-05 73_[+3]_39 chr3R:6397778-6397898 2.9e-05 86_[+3]_26 chrX:1476993-1477113 2.9e-05 43_[+3]_69 chr3R:17040561-17040681 2.9e-05 106_[+3]_6 chr3R:25661696-25661816 2.9e-05 52_[+3]_60 chrX:476542-476662 2.9e-05 73_[+3]_39 chr3L:13015326-13015446 2.9e-05 29_[+3]_83 chr3R:21140593-21140713 2.9e-05 81_[+3]_31 chr2L:9779235-9779355 2.9e-05 44_[+3]_68 chr2R:21183231-21183351 4.9e-05 39_[+3]_73 chrX:5420867-5420987 4.9e-05 29_[+3]_83 chrX:20423872-20423992 4.9e-05 22_[+3]_90 chrX:14580510-14580630 4.9e-05 40_[+3]_72 chr3R:8784941-8785061 4.9e-05 102_[+3]_10 chr3L:13929284-13929404 6.9e-05 60_[+3]_52 chr3R:24100857-24100977 6.9e-05 87_[+3]_25 chr2R:5967736-5967856 8.7e-05 59_[+3]_53 chr2R:18277139-18277259 8.7e-05 39_[+3]_73 chrX:19521944-19522064 8.7e-05 64_[+3]_48 chr4:660599-660719 0.00012 42_[+3]_70 chr2R:7653893-7654013 0.00012 76_[+3]_36 chrX:21035350-21035470 0.00012 73_[+3]_39 chr3L:3320137-3320257 0.00013 91_[+3]_21 chrX:10474646-10474766 0.00013 85_[+3]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TATCGATA width=8 seqs=31 chr3L:12116010-12116130 ( 22) TATCGATA 1 chr3L:14029101-14029221 ( 44) TATCGATA 1 chrX:12631461-12631581 ( 108) TATCGATA 1 chr3L:19991767-19991887 ( 74) TATCGATA 1 chrX:617564-617684 ( 37) TATCGATA 1 chrX:1033214-1033334 ( 12) TATCGATA 1 chr2L:15039386-15039506 ( 109) TATCGATA 1 chr2L:1177609-1177729 ( 74) TATCGATA 1 chr3R:6397778-6397898 ( 87) TATCGATA 1 chrX:1476993-1477113 ( 44) TATCGATA 1 chr3R:17040561-17040681 ( 107) TATCGATA 1 chr3R:25661696-25661816 ( 53) TATCGATA 1 chrX:476542-476662 ( 74) TATCGATA 1 chr3L:13015326-13015446 ( 30) TATCGATA 1 chr3R:21140593-21140713 ( 82) TATCGATA 1 chr2L:9779235-9779355 ( 45) TATCGATA 1 chr2R:21183231-21183351 ( 40) CATCGATA 1 chrX:5420867-5420987 ( 30) CATCGATA 1 chrX:20423872-20423992 ( 23) CATCGATA 1 chrX:14580510-14580630 ( 41) CATCGATA 1 chr3R:8784941-8785061 ( 103) CATCGATA 1 chr3L:13929284-13929404 ( 61) TAGCGATA 1 chr3R:24100857-24100977 ( 88) TAGCGATA 1 chr2R:5967736-5967856 ( 60) TATCGATG 1 chr2R:18277139-18277259 ( 40) TATCGATG 1 chrX:19521944-19522064 ( 65) TATCGATG 1 chr4:660599-660719 ( 43) AATCGATA 1 chr2R:7653893-7654013 ( 77) AATCGATA 1 chrX:21035350-21035470 ( 74) AATCGATA 1 chr3L:3320137-3320257 ( 92) CAGCGATA 1 chrX:10474646-10474766 ( 86) CAGCGATA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5371 E= 4.4e-003 -166 17 -1160 118 171 -1160 -1160 -1160 -1160 -1160 -60 155 -1160 232 -1160 -1160 -1160 -1160 235 -1160 171 -1160 -1160 -1160 -1160 -1160 -1160 175 156 -1160 -102 -1160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 4.4e-003 0.096774 0.225806 0.000000 0.677419 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.129032 0.870968 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.903226 0.000000 0.096774 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-3 regular expression -------------------------------------------------------------------------------- [TC]ATCGATA -------------------------------------------------------------------------------- Time 19.93 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGTTGCC MEME-4 width = 8 sites = 6 llr = 70 E-value = 4.2e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :a::::a8 probability G a:a::a:2 matrix T :::aa::: bits 2.3 *** ** 2.1 *** ** 1.9 *** ** 1.6 ******** Relative 1.4 ******** Entropy 1.2 ******** (16.9 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCGTTGCC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:1392922-1393042 34 5.35e-06 AAACGAATTG GCGTTGCC CAACACTGAC chrX:5420867-5420987 73 5.35e-06 TTCTTAGGCG GCGTTGCC ACCGAATGTG chr2R:13507014-13507134 77 5.35e-06 CCATGGCGCT GCGTTGCC AGACAGCTTG chr2L:20734260-20734380 27 5.35e-06 CACTGTAGCA GCGTTGCC ACCTAGTACA chrX:10474646-10474766 11 5.35e-06 TTTACGGCAA GCGTTGCC AGAGTTGTGT chrX:18101893-18102013 53 1.06e-05 CTCATAAGGA GCGTTGCG CCGATAGCTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:1392922-1393042 5.3e-06 33_[+4]_79 chrX:5420867-5420987 5.3e-06 72_[+4]_40 chr2R:13507014-13507134 5.3e-06 76_[+4]_36 chr2L:20734260-20734380 5.3e-06 26_[+4]_86 chrX:10474646-10474766 5.3e-06 10_[+4]_102 chrX:18101893-18102013 1.1e-05 52_[+4]_60 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGTTGCC width=8 seqs=6 chrX:1392922-1393042 ( 34) GCGTTGCC 1 chrX:5420867-5420987 ( 73) GCGTTGCC 1 chr2R:13507014-13507134 ( 77) GCGTTGCC 1 chr2L:20734260-20734380 ( 27) GCGTTGCC 1 chrX:10474646-10474766 ( 11) GCGTTGCC 1 chrX:18101893-18102013 ( 53) GCGTTGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.6482 E= 4.2e+003 -923 -923 235 -923 -923 232 -923 -923 -923 -923 235 -923 -923 -923 -923 174 -923 -923 -923 174 -923 -923 235 -923 -923 232 -923 -923 -923 205 -23 -923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 4.2e+003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.833333 0.166667 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGTTGCC MEME-4 regular expression -------------------------------------------------------------------------------- GCGTTGCC -------------------------------------------------------------------------------- Time 26.09 secs. ******************************************************************************** ******************************************************************************** MOTIF TTKGCGCC MEME-5 width = 8 sites = 7 llr = 79 E-value = 1.7e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C ::::a:aa probability G ::6a:a:: matrix T aa4::::: bits 2.3 ***** 2.1 ***** 1.9 ***** 1.6 ** ***** Relative 1.4 ** ***** Entropy 1.2 ******** (16.3 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTGGCGCC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:7815126-7815246 20 5.35e-06 TTCTCTAAAA TTGGCGCC TAATTCTATT chrX:1392922-1393042 16 5.35e-06 TGCTCTTCAT TTGGCGCC AAACGAATTG chr3R:24544469-24544589 81 5.35e-06 TTGTTCTATT TTGGCGCC AAAAATAGCT chr2R:19292168-19292288 104 5.35e-06 ACAAACGGTC TTGGCGCC TAACGCTAG chrX:7901793-7901913 2 1.35e-05 G TTTGCGCC ACCATCCCTG chr3R:18315371-18315491 34 1.35e-05 CGGCAGTGAT TTTGCGCC TTTCAGTGAA chr3R:5065103-5065223 59 1.35e-05 TTGTTTCCGC TTTGCGCC ATATCTACAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:7815126-7815246 5.3e-06 19_[+5]_93 chrX:1392922-1393042 5.3e-06 15_[+5]_97 chr3R:24544469-24544589 5.3e-06 80_[+5]_32 chr2R:19292168-19292288 5.3e-06 103_[+5]_9 chrX:7901793-7901913 1.3e-05 1_[+5]_111 chr3R:18315371-18315491 1.3e-05 33_[+5]_79 chr3R:5065103-5065223 1.3e-05 58_[+5]_54 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTKGCGCC width=8 seqs=7 chr2R:7815126-7815246 ( 20) TTGGCGCC 1 chrX:1392922-1393042 ( 16) TTGGCGCC 1 chr3R:24544469-24544589 ( 81) TTGGCGCC 1 chr2R:19292168-19292288 ( 104) TTGGCGCC 1 chrX:7901793-7901913 ( 2) TTTGCGCC 1 chr3R:18315371-18315491 ( 34) TTTGCGCC 1 chr3R:5065103-5065223 ( 59) TTTGCGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.5841 E= 1.7e+004 -945 -945 -945 175 -945 -945 -945 175 -945 -945 154 52 -945 -945 235 -945 -945 232 -945 -945 -945 -945 235 -945 -945 232 -945 -945 -945 232 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 1.7e+004 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.571429 0.428571 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTKGCGCC MEME-5 regular expression -------------------------------------------------------------------------------- TT[GT]GCGCC -------------------------------------------------------------------------------- Time 32.23 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:16310162-16310282 5.87e-01 120 chr2R:20270989-20271109 7.95e-01 120 chr2L:20079000-20079120 6.51e-01 120 chr3R:8524422-8524542 1.81e-01 120 chr2L:2735078-2735198 3.21e-01 120 chrX:7323744-7323864 1.35e-01 120 chrX:8906906-8907026 8.46e-03 77_[+2(1.35e-05)]_35 chr2L:9779235-9779355 1.02e-01 44_[+3(2.94e-05)]_68 chrX:3950286-3950406 5.04e-01 120 chr3R:21852777-21852897 7.56e-01 120 chr2R:20641608-20641728 2.90e-01 120 chrX:19292394-19292514 3.24e-01 15_[+4(5.19e-05)]_97 chr3R:23337340-23337460 9.17e-01 120 chr2L:2133109-2133229 9.07e-02 89_[+5(2.73e-05)]_23 chrX:13333075-13333195 7.75e-01 120 chr2R:10013375-10013495 6.30e-01 120 chr2R:20281278-20281398 8.81e-01 120 chr2L:1071068-1071188 2.36e-01 120 chr2R:6938652-6938772 2.57e-01 120 chr3R:27289760-27289880 7.84e-01 120 chr3L:1534264-1534384 6.35e-01 120 chr3R:8930246-8930366 1.63e-01 120 chr3R:23228813-23228933 5.66e-01 120 chr3L:20827324-20827444 5.63e-01 120 chrX:948268-948388 7.12e-01 120 chr2L:1043695-1043815 9.85e-01 120 chrX:16581861-16581981 8.79e-01 120 chr2L:3058864-3058984 9.50e-01 120 chr3R:12083683-12083803 3.52e-01 120 chr2R:22737930-22738050 7.63e-01 120 chr3L:16160130-16160250 9.96e-01 120 chrX:18101893-18102013 1.10e-04 52_[+4(1.06e-05)]_60 chrX:16671195-16671315 4.63e-01 120 chr2R:16660172-16660292 7.08e-01 120 chr3R:15547903-15548023 7.50e-01 120 chrX:13676642-13676762 1.00e+00 120 chr2R:22450434-22450554 1.89e-01 120 chr2L:14499171-14499291 4.68e-01 120 chr2R:14771533-14771653 2.96e-01 120 chr3L:4446026-4446146 8.71e-01 120 chr3R:21118932-21119052 8.70e-01 120 chr2L:4335256-4335376 6.17e-01 120 chr2R:24197701-24197821 2.30e-02 102_[+2(1.35e-05)]_10 chrX:15120279-15120399 2.03e-01 120 chr2R:23869709-23869829 2.11e-01 120 chrX:1260472-1260592 3.56e-02 11_[+2(1.35e-05)]_101 chr2R:17420047-17420167 1.23e-02 102_[+1(1.33e-05)]_10 chr3R:15330594-15330714 9.46e-02 105_[+1(1.33e-05)]_7 chrX:18494289-18494409 9.59e-01 120 chr3R:21140593-21140713 7.79e-02 81_[+3(2.94e-05)]_31 chr2L:7443066-7443186 7.67e-01 120 chr3R:10699247-10699367 4.44e-01 120 chr3L:627878-627998 3.43e-01 120 chr3R:18243703-18243823 9.46e-03 120 chr3R:8784941-8785061 2.17e-01 102_[+3(4.92e-05)]_10 chr3L:3411783-3411903 9.65e-01 120 chr3L:8655374-8655494 5.15e-01 120 chrX:10474646-10474766 8.99e-05 10_[+4(5.35e-06)]_20_[+2(8.64e-05)]_\ 74 chrX:618670-618790 6.18e-01 120 chr2L:8461983-8462103 8.01e-01 120 chr2R:17161015-17161135 9.47e-01 120 chr3L:3772677-3772797 3.28e-01 120 chr2L:10321122-10321242 4.43e-01 120 chrX:19495405-19495525 1.38e-01 120 chr3L:5819429-5819549 9.34e-01 120 chr2L:937082-937202 1.53e-01 43_[+1(9.93e-05)]_69 chr3R:3846628-3846748 6.33e-02 87_[+2(1.35e-05)]_25 chr2L:9938113-9938233 1.30e-02 120 chr2L:6089022-6089142 4.56e-01 120 chr2R:24132865-24132985 5.52e-01 120 chr3R:30056071-30056191 8.91e-01 120 chrX:3403531-3403651 8.92e-01 120 chr2L:19069714-19069834 4.12e-02 120 chr3R:24626251-24626371 7.04e-01 120 chr2R:23942343-23942463 7.88e-01 120 chr2L:8732855-8732975 4.94e-01 120 chr3R:30134770-30134890 9.41e-01 120 chrX:6220472-6220592 5.60e-02 52_[+2(8.64e-05)]_60 chr3L:11119521-11119641 2.36e-02 88_[+1(1.33e-05)]_24 chr3R:24100857-24100977 6.63e-02 87_[+3(6.85e-05)]_25 chr2L:9448867-9448987 1.71e-02 120 chrX:9082634-9082754 5.40e-01 120 chrX:11391666-11391786 8.62e-01 120 chr3L:13015326-13015446 1.02e-01 29_[+3(2.94e-05)]_83 chr3R:9931277-9931397 1.43e-01 120 chr2L:10437457-10437577 5.96e-02 120 chr2L:5907016-5907136 1.29e-02 31_[+1(2.18e-05)]_15_[+1(9.93e-05)]_\ 58 chr3R:5861731-5861851 1.44e-01 120 chr3L:19905651-19905771 8.53e-03 120 chr2L:8894372-8894492 9.86e-01 120 chrX:19521944-19522064 2.86e-02 64_[+3(8.75e-05)]_48 chr3L:9614080-9614200 3.55e-02 120 chrX:21035350-21035470 1.78e-02 120 chr2R:24571690-24571810 9.89e-01 120 chr2L:20417835-20417955 5.97e-02 105_[+2(6.45e-05)]_7 chrX:16781237-16781357 9.28e-01 120 chr2R:11044542-11044662 6.27e-01 120 chr2L:19141067-19141187 1.12e-02 120 chr3R:15293798-15293918 9.32e-01 120 chr2L:9911904-9912024 2.00e-01 120 chr3R:7892838-7892958 7.69e-01 120 chr2R:22066777-22066897 1.25e-02 63_[+1(1.33e-05)]_49 chr2R:7653893-7654013 2.81e-03 94_[+1(1.33e-05)]_18 chrX:476542-476662 8.28e-04 49_[+1(3.05e-05)]_16_[+3(2.94e-05)]_\ 39 chr2L:20734260-20734380 6.72e-06 13_[+1(2.18e-05)]_5_[+4(5.35e-06)]_\ 15_[+2(5.58e-05)]_63 chr2R:24629544-24629664 5.70e-01 120 chr3R:25661696-25661816 2.53e-03 52_[+3(2.94e-05)]_60 chrX:6678206-6678326 9.67e-01 120 chr3R:17040561-17040681 8.95e-03 106_[+3(2.94e-05)]_6 chr2R:18172452-18172572 8.02e-01 120 chr3R:5065103-5065223 9.93e-03 58_[+5(1.35e-05)]_54 chr2R:11969048-11969168 2.86e-01 120 chrX:1476993-1477113 3.21e-06 43_[+3(2.94e-05)]_17_[+2(1.35e-05)]_\ 44 chr2R:13507014-13507134 5.70e-03 76_[+4(5.35e-06)]_36 chr3R:6397778-6397898 1.63e-02 86_[+3(2.94e-05)]_26 chrX:8601308-8601428 3.51e-01 120 chr3R:18315371-18315491 1.77e-02 33_[+5(1.35e-05)]_79 chr3L:3320137-3320257 1.23e-01 120 chrX:22449394-22449514 8.17e-01 120 chr2L:9494831-9494951 2.34e-02 4_[+2(1.35e-05)]_108 chr2L:1177609-1177729 1.68e-02 73_[+3(2.94e-05)]_39 chr3R:26121896-26122016 8.30e-01 120 chr2R:16951856-16951976 5.49e-01 120 chr3L:3225511-3225631 5.29e-01 120 chr3R:14575902-14576022 6.36e-03 49_[+4(3.58e-05)]_63 chr2R:23668803-23668923 6.45e-02 120 chrX:13376657-13376777 8.03e-01 120 chrX:8273874-8273994 3.47e-02 120 chr3R:16704353-16704473 9.14e-02 120 chrX:15887328-15887448 9.06e-02 120 chr3L:13964656-13964776 2.01e-01 120 chr2L:16271159-16271279 9.74e-01 120 chr2L:21166583-21166703 1.99e-01 120 chr3L:12409076-12409196 1.00e+00 120 chr3R:15963847-15963967 3.68e-01 120 chrX:1880307-1880427 2.57e-01 120 chr2R:12569848-12569968 1.24e-02 120 chr3L:19618477-19618597 1.08e-01 120 chr3L:3770975-3771095 8.81e-01 120 chr3L:15563578-15563698 7.44e-01 120 chrX:8606310-8606430 3.22e-05 61_[+2(4.25e-05)]_51 chrX:7901793-7901913 1.69e-05 1_[+5(1.35e-05)]_33_[+1(3.61e-05)]_\ 70 chrX:14583294-14583414 4.42e-01 120 chr2R:19292168-19292288 1.92e-04 16_[+1(1.33e-05)]_79_[+5(5.35e-06)]_\ 9 chr3R:24544469-24544589 3.58e-02 80_[+5(5.35e-06)]_32 chr3L:4353896-4354016 2.38e-01 120 chrX:19665975-19666095 6.43e-01 120 chr3R:31805371-31805491 1.77e-02 84_[+1(7.07e-05)]_28 chr3R:21188085-21188205 1.66e-01 120 chr2R:14275456-14275576 3.49e-01 120 chr2L:7027144-7027264 7.84e-03 15_[+1(2.18e-05)]_97 chr3L:2377570-2377690 9.39e-02 120 chr3R:30280503-30280623 1.78e-01 120 chr2L:1158225-1158345 9.74e-01 120 chrX:947590-947710 9.11e-01 120 chr3L:18672379-18672499 3.75e-03 63_[+1(3.05e-05)]_49 chr2L:15039386-15039506 1.15e-05 41_[+2(1.35e-05)]_59_[+3(2.94e-05)]_\ 4 chr4:660599-660719 3.03e-02 120 chrX:3399452-3399572 1.03e-01 120 chr2R:6781862-6781982 9.99e-01 120 chr2L:11199158-11199278 2.12e-01 120 chrX:15986857-15986977 8.10e-01 120 chrX:8233370-8233490 5.29e-01 120 chr2R:24893675-24893795 1.28e-01 11_[+2(5.58e-05)]_101 chr3R:27557093-27557213 4.88e-01 120 chrX:1033214-1033334 2.56e-02 11_[+3(2.94e-05)]_68_[+3(4.92e-05)]_\ 25 chrX:11715409-11715529 2.85e-01 120 chr3R:10888661-10888781 5.24e-01 120 chr2R:12344830-12344950 8.60e-01 120 chrX:10385780-10385900 7.09e-03 81_[+4(5.19e-05)]_[+1(9.93e-05)]_23 chrX:8533652-8533772 9.86e-01 120 chr2L:4224225-4224345 1.17e-03 34_[+2(1.35e-05)]_78 chr3R:18168550-18168670 1.61e-01 83_[+1(3.05e-05)]_29 chr3R:23760553-23760673 2.56e-03 31_[+1(2.18e-05)]_81 chr2R:9103173-9103293 1.25e-02 45_[+2(2.24e-05)]_67 chr2R:7987807-7987927 6.09e-01 120 chr2R:8650577-8650697 8.53e-01 120 chr3R:29068864-29068984 4.38e-01 120 chr3L:9729947-9730067 1.07e-01 11_[+2(2.24e-05)]_101 chr3L:17009779-17009899 5.48e-01 120 chrX:14580510-14580630 7.27e-02 40_[+3(4.92e-05)]_72 chrX:1478426-1478546 8.47e-02 120 chr2L:11203771-11203891 2.92e-01 120 chr3R:18215452-18215572 4.70e-02 7_[+2(1.35e-05)]_105 chrX:617564-617684 1.14e-03 36_[+3(2.94e-05)]_59_[+1(1.33e-05)]_\ 9 chr2L:20675978-20676098 3.14e-01 120 chrX:20423872-20423992 1.47e-01 22_[+3(4.92e-05)]_90 chrX:14169209-14169329 8.73e-01 120 chrX:4540708-4540828 3.98e-01 120 chr2R:22373527-22373647 9.99e-01 120 chrX:5671795-5671915 1.49e-02 120 chr2R:22640222-22640342 6.52e-01 120 chr2L:7412299-7412419 1.50e-01 120 chrX:6973442-6973562 1.45e-01 57_[+1(9.93e-05)]_55 chr2R:9116511-9116631 6.58e-02 120 chr2R:23818402-23818522 1.87e-02 66_[+1(2.18e-05)]_46 chr4:1181904-1182024 8.44e-01 120 chrX:4116937-4117057 8.88e-04 44_[+2(1.35e-05)]_9_[+4(3.58e-05)]_\ 51 chrX:5420867-5420987 1.76e-06 13_[+2(1.35e-05)]_8_[+3(4.92e-05)]_\ 35_[+4(5.35e-06)]_40 chr4:443970-444090 7.41e-01 120 chr2R:6656362-6656482 5.26e-03 30_[+1(1.33e-05)]_82 chrX:2720253-2720373 4.57e-02 120 chr2R:23933566-23933686 7.09e-03 12_[+2(1.35e-05)]_100 chr2L:14359105-14359225 7.21e-01 120 chrX:12611750-12611870 7.90e-01 120 chr2R:6881080-6881200 8.85e-02 120 chr2R:18277139-18277259 3.57e-04 39_[+3(8.75e-05)]_20_[+1(1.33e-05)]_\ 45 chr3L:7510917-7511037 2.14e-03 94_[+1(1.33e-05)]_18 chrX:10387795-10387915 7.74e-01 120 chr3L:19991767-19991887 1.52e-01 73_[+3(2.94e-05)]_26_[+3(4.92e-05)]_\ 5 chr3L:10866797-10866917 4.53e-01 120 chr2L:14024777-14024897 8.70e-01 120 chrX:8493605-8493725 6.03e-01 120 chrX:13845871-13845991 6.64e-01 120 chrX:6663265-6663385 3.16e-01 120 chrX:12631461-12631581 1.85e-02 92_[+3(2.94e-05)]_7_[+3(2.94e-05)]_\ 5 chr3L:1947663-1947783 2.49e-03 92_[+1(3.05e-05)]_20 chr3L:22277378-22277498 7.51e-01 120 chr3R:8009275-8009395 6.10e-01 120 chr2R:22886458-22886578 3.54e-02 109_[+2(4.25e-05)]_3 chr2R:5967736-5967856 8.77e-04 36_[+2(4.25e-05)]_15_[+3(8.75e-05)]_\ 53 chr2R:7636667-7636787 6.08e-01 120 chr3R:16355547-16355667 5.29e-01 120 chr3R:10024171-10024291 5.14e-01 120 chrX:5892216-5892336 5.54e-01 120 chr2R:13968163-13968283 6.88e-04 54_[+5(5.24e-05)]_46_[+2(2.24e-05)]_\ 4 chr3L:14029101-14029221 3.11e-03 23_[+1(9.93e-05)]_12_[+3(2.94e-05)]_\ 69 chr3R:15472826-15472946 9.61e-01 120 chr2R:20319505-20319625 6.85e-01 120 chr2L:4458790-4458910 4.70e-03 90_[+2(1.35e-05)]_22 chr2L:16251942-16252062 9.95e-01 120 chr3L:15832258-15832378 2.27e-01 120 chr3L:12803761-12803881 9.98e-01 120 chr3R:27988962-27989082 6.32e-01 120 chr3L:13929284-13929404 4.59e-02 60_[+3(6.85e-05)]_52 chrX:10086334-10086454 9.85e-02 120 chr3R:17149363-17149483 4.02e-03 88_[+2(1.35e-05)]_24 chr3L:9899191-9899311 1.73e-03 33_[+1(1.33e-05)]_11_[+2(4.25e-05)]_\ 60 chr3L:12116010-12116130 8.30e-03 21_[+3(2.94e-05)]_91 chrX:1392922-1393042 1.38e-06 15_[+5(5.35e-06)]_10_[+4(5.35e-06)]_\ [+1(1.33e-05)]_71 chr2L:20918833-20918953 6.96e-01 120 chr2L:19397784-19397904 8.62e-01 120 chr3L:15565938-15566058 5.52e-02 30_[+1(5.77e-05)]_82 chrX:656063-656183 3.77e-01 120 chrX:16102407-16102527 9.94e-01 120 chrX:9193726-9193846 9.57e-01 120 chr2L:14376947-14377067 7.72e-01 120 chr2R:21183231-21183351 3.87e-02 39_[+3(4.92e-05)]_73 chr2R:7815126-7815246 4.42e-03 19_[+5(5.35e-06)]_93 chr3R:30096002-30096122 7.84e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n01.farnam.hpc.yale.internal ********************************************************************************