******************************************************************************** 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/Pif1B.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3L:11442520-11442640 1.0000 120 chr3R:15112379-15112499 1.0000 120 chr3R:13524770-13524890 1.0000 120 chr3R:23787491-23787611 1.0000 120 chr3R:14557600-14557720 1.0000 120 chr3L:9551254-9551374 1.0000 120 chrX:9062815-9062935 1.0000 120 chr2R:22729290-22729410 1.0000 120 chr3L:14456113-14456233 1.0000 120 chr3R:14684127-14684247 1.0000 120 chr2R:5496347-5496467 1.0000 120 chr2L:7334351-7334471 1.0000 120 chr3R:19074370-19074490 1.0000 120 chr2L:9231798-9231918 1.0000 120 chr3L:2486624-2486744 1.0000 120 chr3R:12974593-12974713 1.0000 120 chr3R:21089569-21089689 1.0000 120 chr3R:16117452-16117572 1.0000 120 chr3L:10352207-10352327 1.0000 120 chr2R:21847828-21847948 1.0000 120 chr2L:14624006-14624126 1.0000 120 chrX:10581667-10581787 1.0000 120 chr2L:14529396-14529516 1.0000 120 chr3R:25493941-25494061 1.0000 120 chr3R:24261761-24261881 1.0000 120 chr3L:2481633-2481753 1.0000 120 chr2L:7971550-7971670 1.0000 120 chr3R:29847246-29847366 1.0000 120 chr2L:2184830-2184950 1.0000 120 chrX:5924495-5924615 1.0000 120 chr2L:10759810-10759930 1.0000 120 chr2L:2944669-2944789 1.0000 120 chrX:13644754-13644874 1.0000 120 chr3L:14002498-14002618 1.0000 120 chrX:2358357-2358477 1.0000 120 chrX:22433034-22433154 1.0000 120 chr2L:20721605-20721725 1.0000 120 chr3R:8792669-8792789 1.0000 120 chrX:21044565-21044685 1.0000 120 chrX:3289495-3289615 1.0000 120 chr2R:18314586-18314706 1.0000 120 chr3L:6155256-6155376 1.0000 120 chrX:15618075-15618195 1.0000 120 chr3L:6085305-6085425 1.0000 120 chr2R:13023862-13023982 1.0000 120 chr3R:14848023-14848143 1.0000 120 chr2R:6521285-6521405 1.0000 120 chr3R:20565753-20565873 1.0000 120 chrX:8857484-8857604 1.0000 120 chr2R:23306098-23306218 1.0000 120 chr3R:14722717-14722837 1.0000 120 chr3L:16486621-16486741 1.0000 120 chr3R:25651573-25651693 1.0000 120 chr3R:14656108-14656228 1.0000 120 chrX:17694309-17694429 1.0000 120 chr3R:29280772-29280892 1.0000 120 chr2R:15800093-15800213 1.0000 120 chrX:6745655-6745775 1.0000 120 chr4:829947-830067 1.0000 120 chrX:17542878-17542998 1.0000 120 chrX:1119330-1119450 1.0000 120 chr2L:19156093-19156213 1.0000 120 chrX:7537940-7538060 1.0000 120 chr2L:21263940-21264060 1.0000 120 chr3L:16762306-16762426 1.0000 120 chr3L:1265091-1265211 1.0000 120 chr3R:21024272-21024392 1.0000 120 chr3R:31688975-31689095 1.0000 120 chr2L:8989130-8989250 1.0000 120 chr3L:20933822-20933942 1.0000 120 chr2R:18569168-18569288 1.0000 120 chr2R:10558233-10558353 1.0000 120 chr2L:3557626-3557746 1.0000 120 chr3R:21823197-21823317 1.0000 120 chr3L:2386563-2386683 1.0000 120 chr3L:21721053-21721173 1.0000 120 chr3L:9566981-9567101 1.0000 120 chr3L:20635703-20635823 1.0000 120 chr3R:30014018-30014138 1.0000 120 chr3L:10697491-10697611 1.0000 120 chr3R:24143964-24144084 1.0000 120 chr2R:16212953-16213073 1.0000 120 chr2L:7897401-7897521 1.0000 120 chr3L:16153221-16153341 1.0000 120 chr2R:14929658-14929778 1.0000 120 chr3R:14765476-14765596 1.0000 120 chr3R:30526930-30527050 1.0000 120 chr3R:21938528-21938648 1.0000 120 chr2L:723966-724086 1.0000 120 chr3L:6458085-6458205 1.0000 120 chr3R:14673101-14673221 1.0000 120 chr3L:2533086-2533206 1.0000 120 chr2R:21543372-21543492 1.0000 120 chr2L:2432931-2433051 1.0000 120 chr2R:21799409-21799529 1.0000 120 chr3R:31723342-31723462 1.0000 120 chr3R:16119573-16119693 1.0000 120 chr2R:18301014-18301134 1.0000 120 chr2R:11544166-11544286 1.0000 120 chrX:12511392-12511512 1.0000 120 chrX:2334722-2334842 1.0000 120 chrX:334990-335110 1.0000 120 chr3L:2636562-2636682 1.0000 120 chrX:20482881-20483001 1.0000 120 chr3R:15631080-15631200 1.0000 120 chr3R:27167513-27167633 1.0000 120 chr2L:2168694-2168814 1.0000 120 chr3L:18080166-18080286 1.0000 120 chrX:11601049-11601169 1.0000 120 chrX:768040-768160 1.0000 120 chr2L:609627-609747 1.0000 120 chr2R:25115642-25115762 1.0000 120 chrX:6632056-6632176 1.0000 120 chr3R:26832022-26832142 1.0000 120 chr3L:20552048-20552168 1.0000 120 chrX:3423483-3423603 1.0000 120 chr3L:1464500-1464620 1.0000 120 chrX:17113513-17113633 1.0000 120 chr3L:13925329-13925449 1.0000 120 chr2L:21005604-21005724 1.0000 120 chr2R:24955778-24955898 1.0000 120 chrX:739964-740084 1.0000 120 chrX:13245946-13246066 1.0000 120 chr2L:18344499-18344619 1.0000 120 chr2L:20335045-20335165 1.0000 120 chr2L:12027301-12027421 1.0000 120 chr2L:8271095-8271215 1.0000 120 chr3L:9848885-9849005 1.0000 120 chr2R:18271151-18271271 1.0000 120 chr3L:2549046-2549166 1.0000 120 chrX:9156201-9156321 1.0000 120 chr2R:12587977-12588097 1.0000 120 chrX:13747750-13747870 1.0000 120 chr2L:8919770-8919890 1.0000 120 chr2R:18566081-18566201 1.0000 120 chr2R:9557607-9557727 1.0000 120 chr2L:19325570-19325690 1.0000 120 chr3R:4687398-4687518 1.0000 120 chr2L:11386513-11386633 1.0000 120 chr2R:18256974-18257094 1.0000 120 chr2L:5623858-5623978 1.0000 120 chr3R:31700347-31700467 1.0000 120 chr3L:12030653-12030773 1.0000 120 chr3L:20612975-20613095 1.0000 120 chr3R:20284652-20284772 1.0000 120 chr3R:10588871-10588991 1.0000 120 chrX:4175916-4176036 1.0000 120 chr3L:776377-776497 1.0000 120 chr3R:24549881-24550001 1.0000 120 chrX:19146501-19146621 1.0000 120 chr2R:19617365-19617485 1.0000 120 chr2R:16812881-16813001 1.0000 120 chrX:19878764-19878884 1.0000 120 chr3L:19315008-19315128 1.0000 120 chr3L:8013984-8014104 1.0000 120 chr3L:11634684-11634804 1.0000 120 chrX:12000321-12000441 1.0000 120 chr3R:29210791-29210911 1.0000 120 chr3R:11888327-11888447 1.0000 120 chr2L:12513888-12514008 1.0000 120 chr2R:8307848-8307968 1.0000 120 chrX:12760855-12760975 1.0000 120 chrX:18544899-18545019 1.0000 120 chr3L:21025175-21025295 1.0000 120 chr2R:9138344-9138464 1.0000 120 chr2R:14082395-14082515 1.0000 120 chrX:13568306-13568426 1.0000 120 chr2L:5295138-5295258 1.0000 120 chr2L:7949910-7950030 1.0000 120 chrX:779460-779580 1.0000 120 chr3L:14411064-14411184 1.0000 120 chr3R:24996598-24996718 1.0000 120 chr2L:19193837-19193957 1.0000 120 chrX:9164007-9164127 1.0000 120 chr3R:24006742-24006862 1.0000 120 chrX:2742210-2742330 1.0000 120 chr2R:14975255-14975375 1.0000 120 chr3R:26535792-26535912 1.0000 120 chr3L:12790112-12790232 1.0000 120 chr2R:11690757-11690877 1.0000 120 chr3L:21738557-21738677 1.0000 120 chrX:12677157-12677277 1.0000 120 chr2R:22136895-22137015 1.0000 120 chr2R:20195234-20195354 1.0000 120 chr2R:21389315-21389435 1.0000 120 chr3L:959345-959465 1.0000 120 chr3R:24614256-24614376 1.0000 120 chr3R:28861397-28861517 1.0000 120 chr2L:20802332-20802452 1.0000 120 chr3L:7611346-7611466 1.0000 120 chr3L:8870705-8870825 1.0000 120 chrX:4970096-4970216 1.0000 120 chr3R:11646989-11647109 1.0000 120 chr3R:10455004-10455124 1.0000 120 chrX:15320621-15320741 1.0000 120 chr3L:13435339-13435459 1.0000 120 chr3R:14025953-14026073 1.0000 120 chr2R:17811062-17811182 1.0000 120 chr3R:14057620-14057740 1.0000 120 chrX:12015134-12015254 1.0000 120 chr2L:10231223-10231343 1.0000 120 chr2R:11178242-11178362 1.0000 120 chr2L:16590937-16591057 1.0000 120 chr3R:8939807-8939927 1.0000 120 chr3L:1829712-1829832 1.0000 120 chrX:9068951-9069071 1.0000 120 chr3R:18381080-18381200 1.0000 120 chr3R:13841095-13841215 1.0000 120 chr2L:13572245-13572365 1.0000 120 chrX:12596565-12596685 1.0000 120 chrX:3720384-3720504 1.0000 120 chr2L:16406657-16406777 1.0000 120 chr2R:20646214-20646334 1.0000 120 chr2L:5429268-5429388 1.0000 120 chrX:13278181-13278301 1.0000 120 chrX:5970526-5970646 1.0000 120 chr2R:11614340-11614460 1.0000 120 chr2L:2804700-2804820 1.0000 120 chrX:342669-342789 1.0000 120 chr2L:19905361-19905481 1.0000 120 chr2L:18003686-18003806 1.0000 120 chrX:18483736-18483856 1.0000 120 chr3R:14286437-14286557 1.0000 120 chr3L:787743-787863 1.0000 120 chr2R:9683835-9683955 1.0000 120 chr3L:3817098-3817218 1.0000 120 chr3L:4707904-4708024 1.0000 120 chr2R:8240814-8240934 1.0000 120 chr2R:11657991-11658111 1.0000 120 chrX:7605851-7605971 1.0000 120 chr3L:6266508-6266628 1.0000 120 chr2R:14569584-14569704 1.0000 120 chr3R:19924423-19924543 1.0000 120 chrX:9078420-9078540 1.0000 120 chr3L:12058528-12058648 1.0000 120 chr3R:30164206-30164326 1.0000 120 chr3L:1810358-1810478 1.0000 120 chr3R:8154086-8154206 1.0000 120 chr3L:2117147-2117267 1.0000 120 chr3R:19283663-19283783 1.0000 120 chrX:14953146-14953266 1.0000 120 chr3L:10387443-10387563 1.0000 120 chrX:10105832-10105952 1.0000 120 chr3R:17619870-17619990 1.0000 120 chr3L:1755628-1755748 1.0000 120 chr2R:19984980-19985100 1.0000 120 chr3L:4722024-4722144 1.0000 120 chr3R:31680044-31680164 1.0000 120 chr2R:21141841-21141961 1.0000 120 chr3R:26900071-26900191 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_Pif1B/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Pif1B.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 0.322 C 0.179 G 0.174 T 0.325 Background letter frequencies (from file dataset with add-one prior applied): A 0.321 C 0.179 G 0.175 T 0.325 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF AAAAAAAA MEME-1 width = 8 sites = 62 llr = 473 E-value = 2.3e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 Description -------------------------------------------------------------------------------- Simplified A a8a99aaa pos.-specific C :1:::::: probability G :1:::::: matrix T :::1:::: bits 2.5 2.3 2.0 1.8 * * * * Relative 1.5 * * *** Entropy 1.3 * * **** (11.0 bits) 1.0 * ****** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel AAAAAAAA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:31680044-31680164 21 1.13e-04 TGGTCACACG AAAAAAAA CTCTAGATTT chr2R:19984980-19985100 99 1.13e-04 TATATTAGAA AAAAAAAA AATAGTTGAT chr2R:11657991-11658111 58 1.13e-04 AAGAAATTCG AAAAAAAA TATAAAGAAA chr2R:11614340-11614460 59 1.13e-04 GGGCGGGCta aaaaaaaa taaaataaaa chrX:13278181-13278301 36 1.13e-04 ACTATAAATA AAAAAAAA ACAGAAAATC chr2R:20646214-20646334 60 1.13e-04 ACCaaaaaaa aaaaaaaa aagaagaaaa chrX:3720384-3720504 73 1.13e-04 Gaaacaacgg aaaaaaaa ggcaacgcaa chrX:12596565-12596685 50 1.13e-04 ttaaaaataa aaaaaaaa gaaatgaaaa chr3R:11646989-11647109 78 1.13e-04 aaacgaaaga aaaaaaaa cacaaaatca chr3R:26535792-26535912 106 1.13e-04 AAAGAGACAC AAAAAAAA TGCAGTT chrX:18544899-18545019 113 1.13e-04 caaaaaaaca aaaaaaaa chr2R:19617365-19617485 30 1.13e-04 TTTaaaaaaa aaaaaaaa aaCTTCAGCG chr3R:24549881-24550001 77 1.13e-04 aaataaaaat aaaaaaaa caataaaaCC chr2R:12587977-12588097 67 1.13e-04 AAACCGAATG AAAAAAAA CAGGCGGAGC chrX:9156201-9156321 55 1.13e-04 ATTTTGGAAA AAAAAAAA AAGCAGCGCA chr3L:9848885-9849005 41 1.13e-04 GAGTGCTGCa aaaaaaaa gaagaaaaaa chr2L:12027301-12027421 37 1.13e-04 ataatatgaa aaaaaaaa cTCCCTCTGC chrX:13245946-13246066 97 1.13e-04 ATTATTCATT AAAAAAAA AACTATTTGT chr2R:24955778-24955898 40 1.13e-04 TAAAAAGTGA AAAAAAAA AACAGAAAAA chrX:17113513-17113633 55 1.13e-04 CAAGGAACAT AAAAAAAA GGTTTACCAC chrX:11601049-11601169 38 1.13e-04 ATACATTATT AAAAAAAA ACCTTGTATC chr2R:10558233-10558353 47 1.13e-04 TAATTGATTT AAAAAAAA GAAAAGCAAA chr3R:21024272-21024392 64 1.13e-04 tataaaagaa aaaaaaaa aagaaaGCAG chrX:17542878-17542998 27 1.13e-04 TGCACAGGGC AAAAAAAA AAAACAGATG chrX:17694309-17694429 67 1.13e-04 CAATTAGCGC AAAAAAAA CGCACGAACA chrX:8857484-8857604 59 1.13e-04 GTTTTTAATA AAAAAAAA GTATCGAATA chr2R:13023862-13023982 84 1.13e-04 GCCaaaaata aaaaaaaa taataaaaat chrX:5924495-5924615 26 1.13e-04 ACTTAATCAA AAAAAAAA TTCAAAGAAA chr2L:9231798-9231918 83 1.13e-04 AACAAGAGCa aaaaaaaa agaaaaaaag chr2L:7334351-7334471 57 1.13e-04 GCCaaaaaaa aaaaaaaa caaaaaaaaa chr3L:14456113-14456233 37 1.13e-04 CTGTCCaaac aaaaaaaa aaaaagacaa chr3L:9551254-9551374 25 1.13e-04 AGACTTTGCa aaaaaaaa aaaaaataaa chr3R:13524770-13524890 82 1.13e-04 ATCGCAGCAA AAAAAAAA CAAAAAAAAA chr3L:11442520-11442640 56 1.13e-04 aaacaaaaaa aaaaaaaa cgaatgaaaa chr3L:787743-787863 79 1.76e-04 TTTTAGAAGG ACAAAAAA TCCCTTTTCT chr3L:11634684-11634804 97 1.76e-04 CAAAAGTACA ACAAAAAA GACAAGAGCA chr3L:20635703-20635823 21 1.76e-04 TTATTTTTCT ACAAAAAA GTTTCATTTG chrX:3289495-3289615 76 1.76e-04 TATTCGCTGT ACAAAAAA GCATTGCCCG chr3L:14002498-14002618 6 1.76e-04 ATTCT ACAAAAAA ATATAGTTTA chrX:12015134-12015254 64 2.37e-04 CTTTGCATAC AGAAAAAA ACATGTTAAT chrX:2742210-2742330 103 2.37e-04 GCCATAAAAA AGAAAAAA AGGGTTTCCC chrX:13747750-13747870 60 2.37e-04 CGGAGACCTC AGAAAAAA ACCACAGCCA chr3L:2549046-2549166 10 2.37e-04 CATGCACTG AGAAAAAA TGGCATTAAG chr3R:26832022-26832142 78 2.37e-04 TATTTTGAAT AGAAAAAA TTTTGAGAAT chrX:5970526-5970646 40 3.51e-04 AAATAAAGAT AAATAAAA AATAAAAGAG chr2L:13572245-13572365 17 3.51e-04 tttaaatata aaataaaa atTGAATTAA chr3R:13841095-13841215 27 3.51e-04 TGATTGTACT AAATAAAA AATACAAGAA chr3L:21738557-21738677 43 3.51e-04 AAGGGAAGGC AAATAAAA AGTGAAGGCA chr2L:20335045-20335165 36 3.51e-04 GAAAATAATA AAATAAAA ATATTATTAA chrX:739964-740084 35 3.51e-04 ACTGTTCACT AAATAAAA AATTATTTAC chrX:768040-768160 54 3.51e-04 GCAAGGAGAT AAATAAAA TAAATATTGA chr3R:12974593-12974713 48 3.51e-04 TTTCAATATT AAATAAAA AATATGTTTC chrX:14953146-14953266 78 4.14e-04 AAGCGGGACC AAAACAAA CTCCAAAATG chr3L:1810358-1810478 68 4.14e-04 CTGAAAATAG AAAACAAA GCGAAAAGCA chr3R:14286437-14286557 64 4.14e-04 CTGCGCTCAC AAAACAAA CGCACAGGTA chrX:10105832-10105952 70 5.28e-04 AGTTATAATT ATAAAAAA CTGGAAATTA chr3L:20612975-20613095 69 5.28e-04 TTTATGTCAC ATAAAAAA TGCGTTGATA chr3L:6085305-6085425 36 5.28e-04 TATAAATTTC ATAAAAAA CTTAAATTTC chrX:13568306-13568426 61 5.91e-04 TATTCACTGC AAAAAACA ATAAACTTTT chrX:334990-335110 75 5.91e-04 ATTTACGGTT AAAAAACA TGCAGAATAT chr2L:19325570-19325690 79 6.55e-04 TTTCCTAAAC ACATAAAA TGGGTAAAAA chrX:19878764-19878884 57 9.00e-04 CAATGCTCGA AAAATAAA TTCGAAAATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:31680044-31680164 0.00011 20_[+1]_92 chr2R:19984980-19985100 0.00011 98_[+1]_14 chr2R:11657991-11658111 0.00011 57_[+1]_55 chr2R:11614340-11614460 0.00011 58_[+1]_54 chrX:13278181-13278301 0.00011 35_[+1]_77 chr2R:20646214-20646334 0.00011 59_[+1]_53 chrX:3720384-3720504 0.00011 72_[+1]_40 chrX:12596565-12596685 0.00011 49_[+1]_63 chr3R:11646989-11647109 0.00011 77_[+1]_35 chr3R:26535792-26535912 0.00011 105_[+1]_7 chrX:18544899-18545019 0.00011 112_[+1] chr2R:19617365-19617485 0.00011 29_[+1]_83 chr3R:24549881-24550001 0.00011 76_[+1]_36 chr2R:12587977-12588097 0.00011 66_[+1]_46 chrX:9156201-9156321 0.00011 54_[+1]_58 chr3L:9848885-9849005 0.00011 40_[+1]_72 chr2L:12027301-12027421 0.00011 36_[+1]_76 chrX:13245946-13246066 0.00011 96_[+1]_16 chr2R:24955778-24955898 0.00011 39_[+1]_73 chrX:17113513-17113633 0.00011 54_[+1]_58 chrX:11601049-11601169 0.00011 37_[+1]_75 chr2R:10558233-10558353 0.00011 46_[+1]_66 chr3R:21024272-21024392 0.00011 63_[+1]_49 chrX:17542878-17542998 0.00011 26_[+1]_86 chrX:17694309-17694429 0.00011 66_[+1]_46 chrX:8857484-8857604 0.00011 58_[+1]_54 chr2R:13023862-13023982 0.00011 83_[+1]_29 chrX:5924495-5924615 0.00011 25_[+1]_87 chr2L:9231798-9231918 0.00011 82_[+1]_30 chr2L:7334351-7334471 0.00011 56_[+1]_56 chr3L:14456113-14456233 0.00011 36_[+1]_76 chr3L:9551254-9551374 0.00011 24_[+1]_88 chr3R:13524770-13524890 0.00011 81_[+1]_31 chr3L:11442520-11442640 0.00011 55_[+1]_57 chr3L:787743-787863 0.00018 78_[+1]_34 chr3L:11634684-11634804 0.00018 96_[+1]_16 chr3L:20635703-20635823 0.00018 20_[+1]_92 chrX:3289495-3289615 0.00018 75_[+1]_37 chr3L:14002498-14002618 0.00018 5_[+1]_107 chrX:12015134-12015254 0.00024 63_[+1]_49 chrX:2742210-2742330 0.00024 102_[+1]_10 chrX:13747750-13747870 0.00024 59_[+1]_53 chr3L:2549046-2549166 0.00024 9_[+1]_103 chr3R:26832022-26832142 0.00024 77_[+1]_35 chrX:5970526-5970646 0.00035 39_[+1]_73 chr2L:13572245-13572365 0.00035 16_[+1]_96 chr3R:13841095-13841215 0.00035 26_[+1]_86 chr3L:21738557-21738677 0.00035 42_[+1]_70 chr2L:20335045-20335165 0.00035 35_[+1]_77 chrX:739964-740084 0.00035 34_[+1]_78 chrX:768040-768160 0.00035 53_[+1]_59 chr3R:12974593-12974713 0.00035 47_[+1]_65 chrX:14953146-14953266 0.00041 77_[+1]_35 chr3L:1810358-1810478 0.00041 67_[+1]_45 chr3R:14286437-14286557 0.00041 63_[+1]_49 chrX:10105832-10105952 0.00053 69_[+1]_43 chr3L:20612975-20613095 0.00053 68_[+1]_44 chr3L:6085305-6085425 0.00053 35_[+1]_77 chrX:13568306-13568426 0.00059 60_[+1]_52 chrX:334990-335110 0.00059 74_[+1]_38 chr2L:19325570-19325690 0.00065 78_[+1]_34 chrX:19878764-19878884 0.0009 56_[+1]_56 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAAAAAA width=8 seqs=62 chr3R:31680044-31680164 ( 21) AAAAAAAA 1 chr2R:19984980-19985100 ( 99) AAAAAAAA 1 chr2R:11657991-11658111 ( 58) AAAAAAAA 1 chr2R:11614340-11614460 ( 59) AAAAAAAA 1 chrX:13278181-13278301 ( 36) AAAAAAAA 1 chr2R:20646214-20646334 ( 60) AAAAAAAA 1 chrX:3720384-3720504 ( 73) AAAAAAAA 1 chrX:12596565-12596685 ( 50) AAAAAAAA 1 chr3R:11646989-11647109 ( 78) AAAAAAAA 1 chr3R:26535792-26535912 ( 106) AAAAAAAA 1 chrX:18544899-18545019 ( 113) AAAAAAAA 1 chr2R:19617365-19617485 ( 30) AAAAAAAA 1 chr3R:24549881-24550001 ( 77) AAAAAAAA 1 chr2R:12587977-12588097 ( 67) AAAAAAAA 1 chrX:9156201-9156321 ( 55) AAAAAAAA 1 chr3L:9848885-9849005 ( 41) AAAAAAAA 1 chr2L:12027301-12027421 ( 37) AAAAAAAA 1 chrX:13245946-13246066 ( 97) AAAAAAAA 1 chr2R:24955778-24955898 ( 40) AAAAAAAA 1 chrX:17113513-17113633 ( 55) AAAAAAAA 1 chrX:11601049-11601169 ( 38) AAAAAAAA 1 chr2R:10558233-10558353 ( 47) AAAAAAAA 1 chr3R:21024272-21024392 ( 64) AAAAAAAA 1 chrX:17542878-17542998 ( 27) AAAAAAAA 1 chrX:17694309-17694429 ( 67) AAAAAAAA 1 chrX:8857484-8857604 ( 59) AAAAAAAA 1 chr2R:13023862-13023982 ( 84) AAAAAAAA 1 chrX:5924495-5924615 ( 26) AAAAAAAA 1 chr2L:9231798-9231918 ( 83) AAAAAAAA 1 chr2L:7334351-7334471 ( 57) AAAAAAAA 1 chr3L:14456113-14456233 ( 37) AAAAAAAA 1 chr3L:9551254-9551374 ( 25) AAAAAAAA 1 chr3R:13524770-13524890 ( 82) AAAAAAAA 1 chr3L:11442520-11442640 ( 56) AAAAAAAA 1 chr3L:787743-787863 ( 79) ACAAAAAA 1 chr3L:11634684-11634804 ( 97) ACAAAAAA 1 chr3L:20635703-20635823 ( 21) ACAAAAAA 1 chrX:3289495-3289615 ( 76) ACAAAAAA 1 chr3L:14002498-14002618 ( 6) ACAAAAAA 1 chrX:12015134-12015254 ( 64) AGAAAAAA 1 chrX:2742210-2742330 ( 103) AGAAAAAA 1 chrX:13747750-13747870 ( 60) AGAAAAAA 1 chr3L:2549046-2549166 ( 10) AGAAAAAA 1 chr3R:26832022-26832142 ( 78) AGAAAAAA 1 chrX:5970526-5970646 ( 40) AAATAAAA 1 chr2L:13572245-13572365 ( 17) AAATAAAA 1 chr3R:13841095-13841215 ( 27) AAATAAAA 1 chr3L:21738557-21738677 ( 43) AAATAAAA 1 chr2L:20335045-20335165 ( 36) AAATAAAA 1 chrX:739964-740084 ( 35) AAATAAAA 1 chrX:768040-768160 ( 54) AAATAAAA 1 chr3R:12974593-12974713 ( 48) AAATAAAA 1 chrX:14953146-14953266 ( 78) AAAACAAA 1 chr3L:1810358-1810478 ( 68) AAAACAAA 1 chr3R:14286437-14286557 ( 64) AAAACAAA 1 chrX:10105832-10105952 ( 70) ATAAAAAA 1 chr3L:20612975-20613095 ( 69) ATAAAAAA 1 chr3L:6085305-6085425 ( 36) ATAAAAAA 1 chrX:13568306-13568426 ( 61) AAAAAACA 1 chrX:334990-335110 ( 75) AAAAAACA 1 chr2L:19325570-19325690 ( 79) ACATAAAA 1 chrX:19878764-19878884 ( 57) AAAATAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 9.53609 E= 2.3e+001 164 -1260 -1260 -1260 127 -88 -111 -275 164 -1260 -1260 -1260 141 -1260 -1260 -116 154 -188 -1260 -433 164 -1260 -1260 -1260 159 -247 -1260 -1260 164 -1260 -1260 -1260 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 62 E= 2.3e+001 1.000000 0.000000 0.000000 0.000000 0.774194 0.096774 0.080645 0.048387 1.000000 0.000000 0.000000 0.000000 0.854839 0.000000 0.000000 0.145161 0.935484 0.048387 0.000000 0.016129 1.000000 0.000000 0.000000 0.000000 0.967742 0.032258 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAAAA MEME-1 regular expression -------------------------------------------------------------------------------- AAAAAAAA -------------------------------------------------------------------------------- Time 7.48 secs. ******************************************************************************** ******************************************************************************** MOTIF TGGGCGGG MEME-2 width = 8 sites = 15 llr = 150 E-value = 3.6e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 Description -------------------------------------------------------------------------------- Simplified A 1::1::11 pos.-specific C 1:::7::: probability G 19a93999 matrix T 71:::1:: bits 2.5 * 2.3 * 2.0 * * * 1.8 ******* Relative 1.5 ******* Entropy 1.3 ******* (14.5 bits) 1.0 ******* 0.8 ******* 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TGGGCGGG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:18544899-18545019 81 1.67e-06 AATCCCCAAC TGGGCGGG CGAGGaaaaa chrX:3720384-3720504 56 3.30e-06 CGGAGAGGGG TGGGGGGG aaacaacgga chr2L:12513888-12514008 100 3.30e-06 tttttttttt tggggggg ttttgtgttt chrX:7605851-7605971 25 4.20e-06 CCAATCAAAT GGGGCGGG GCTTAAATCG chrX:12677157-12677277 90 4.20e-06 ATGAAGCCAG GGGGCGGG ATGGGGGGTG chr2R:11614340-11614460 48 1.69e-05 acaTGCGGAC AGGGCGGG Ctaaaaaaaa chr3L:13435339-13435459 73 1.69e-05 TGCCACTCGG TGGGCGAG CGGGTGGTTG chr3R:20284652-20284772 66 1.69e-05 TTTCTGCACA TGGACGGG GTTTGGGCCT chrX:768040-768160 37 1.69e-05 TCCCGCAAGC TGGGCGAG CAAGGAGATA chrX:7537940-7538060 63 1.69e-05 TTTAAAAGTG TGGACGGG AGAGGCATGC chr2L:19156093-19156213 39 1.69e-05 TTCTTTGCCA TTGGCGGG CTGGCAGTTT chr3R:14557600-14557720 99 1.78e-05 CGTTGATAAA CGGGGGGG TGGGCTGCGA chr2R:9683835-9683955 100 2.40e-05 TCTCTTCATT TGGGCGGA TATGCCAGCG chr2R:12587977-12588097 104 2.40e-05 AAACGACGGA TGGGCTGG GGAGCATGA chrX:6632056-6632176 109 3.46e-05 CTTGCCCCCT TTGGGGGG TCTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:18544899-18545019 1.7e-06 80_[+2]_32 chrX:3720384-3720504 3.3e-06 55_[+2]_57 chr2L:12513888-12514008 3.3e-06 99_[+2]_13 chrX:7605851-7605971 4.2e-06 24_[+2]_88 chrX:12677157-12677277 4.2e-06 89_[+2]_23 chr2R:11614340-11614460 1.7e-05 47_[+2]_65 chr3L:13435339-13435459 1.7e-05 72_[+2]_40 chr3R:20284652-20284772 1.7e-05 65_[+2]_47 chrX:768040-768160 1.7e-05 36_[+2]_76 chrX:7537940-7538060 1.7e-05 62_[+2]_50 chr2L:19156093-19156213 1.7e-05 38_[+2]_74 chr3R:14557600-14557720 1.8e-05 98_[+2]_14 chr2R:9683835-9683955 2.4e-05 99_[+2]_13 chr2R:12587977-12588097 2.4e-05 103_[+2]_9 chrX:6632056-6632176 3.5e-05 108_[+2]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGGCGGG width=8 seqs=15 chrX:18544899-18545019 ( 81) TGGGCGGG 1 chrX:3720384-3720504 ( 56) TGGGGGGG 1 chr2L:12513888-12514008 ( 100) TGGGGGGG 1 chrX:7605851-7605971 ( 25) GGGGCGGG 1 chrX:12677157-12677277 ( 90) GGGGCGGG 1 chr2R:11614340-11614460 ( 48) AGGGCGGG 1 chr3L:13435339-13435459 ( 73) TGGGCGAG 1 chr3R:20284652-20284772 ( 66) TGGACGGG 1 chrX:768040-768160 ( 37) TGGGCGAG 1 chrX:7537940-7538060 ( 63) TGGACGGG 1 chr2L:19156093-19156213 ( 39) TTGGCGGG 1 chr3R:14557600-14557720 ( 99) CGGGGGGG 1 chr2R:9683835-9683955 ( 100) TGGGCGGA 1 chr2R:12587977-12588097 ( 104) TGGGCTGG 1 chrX:6632056-6632176 ( 109) TTGGGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.5841 E= 3.6e+001 -227 -142 -39 117 -1055 -1055 231 -129 -1055 -1055 252 -1055 -127 -1055 231 -1055 -1055 204 61 -1055 -1055 -1055 242 -228 -127 -1055 231 -1055 -227 -1055 242 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 3.6e+001 0.066667 0.066667 0.133333 0.733333 0.000000 0.000000 0.866667 0.133333 0.000000 0.000000 1.000000 0.000000 0.133333 0.000000 0.866667 0.000000 0.000000 0.733333 0.266667 0.000000 0.000000 0.000000 0.933333 0.066667 0.133333 0.000000 0.866667 0.000000 0.066667 0.000000 0.933333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGGCGGG MEME-2 regular expression -------------------------------------------------------------------------------- TGGG[CG]GGG -------------------------------------------------------------------------------- Time 13.72 secs. ******************************************************************************** ******************************************************************************** MOTIF RCTGCYGC MEME-3 width = 8 sites = 20 llr = 200 E-value = 9.6e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A 4::::::: pos.-specific C :81:a4:a probability G 52:a::a1 matrix T 2:a::6:: bits 2.5 ** * 2.3 ** ** 2.0 ** ** 1.8 * ** ** Relative 1.5 * ** ** Entropy 1.3 **** ** (14.4 bits) 1.0 ******* 0.8 ******* 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCTGCTGC consensus AG C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:14722717-14722837 4 1.79e-06 CCT GCTGCCGC TGCTGTCTTG chr3L:6155256-6155376 82 1.79e-06 CTCGTTTTTG GCTGCCGC ATCAACTGGG chrX:6632056-6632176 61 5.03e-06 gttgtttttt gctgctgC TTTACGGATT chr2R:25115642-25115762 108 5.03e-06 ttcagttgac gctgctgc tgttt chr3R:8792669-8792789 53 5.03e-06 CAACACTTGC GCTGCTGC AACTGCAACG chr3L:10352207-10352327 49 5.03e-06 TTGCCTtgct gctgctgc ttctgcttta chrX:7605851-7605971 91 8.31e-06 GCCCTCTGCT ACTGCCGC TGCCTCAGTC chr2L:2804700-2804820 9 8.31e-06 TGGACTGG ACTGCCGC TGAACTTTGG chr3R:24614256-24614376 24 1.43e-05 GATAGCCCAG ACTGCTGC TCATTTCTGC chr2L:8271095-8271215 110 1.43e-05 GATTCGACTG ACTGCTGC ATT chrX:9062815-9062935 78 1.43e-05 AAACTTCTAA ACTGCTGC TTCAACAGCC chr3R:25651573-25651693 103 1.92e-05 CATTTTTTTC GGTGCTGC GAGCAGCTTG chrX:9078420-9078540 86 2.25e-05 GGCCAACTGC TCTGCCGC CACTCGCTTT chr2L:12027301-12027421 50 2.25e-05 aaaaacTCCC TCTGCCGC AGAGACGCCG chr3L:21025175-21025295 44 2.85e-05 tattattgat tCTGCTGc acgcacacag chr3R:8939807-8939927 50 3.17e-05 GTTCAATGAA AGTGCCGC GTTGTCGTTG chr3L:9848885-9849005 32 3.76e-05 TTACTCCCCG AGTGCTGC aaaaaaaaag chr2L:18344499-18344619 24 3.76e-05 TGAGATAAAT AGTGCTGC AGGATTAAGG chr3R:11646989-11647109 22 3.86e-05 GCACGAAGTT GCCGCCGC GACTGAGTCA chr3R:26900071-26900191 37 5.03e-05 TTAAGTGCGT GCTGCTGG GGAATGATGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:14722717-14722837 1.8e-06 3_[+3]_109 chr3L:6155256-6155376 1.8e-06 81_[+3]_31 chrX:6632056-6632176 5e-06 60_[+3]_52 chr2R:25115642-25115762 5e-06 107_[+3]_5 chr3R:8792669-8792789 5e-06 52_[+3]_60 chr3L:10352207-10352327 5e-06 48_[+3]_64 chrX:7605851-7605971 8.3e-06 90_[+3]_22 chr2L:2804700-2804820 8.3e-06 8_[+3]_104 chr3R:24614256-24614376 1.4e-05 23_[+3]_89 chr2L:8271095-8271215 1.4e-05 109_[+3]_3 chrX:9062815-9062935 1.4e-05 77_[+3]_35 chr3R:25651573-25651693 1.9e-05 102_[+3]_10 chrX:9078420-9078540 2.3e-05 85_[+3]_27 chr2L:12027301-12027421 2.3e-05 49_[+3]_63 chr3L:21025175-21025295 2.9e-05 43_[+3]_69 chr3R:8939807-8939927 3.2e-05 49_[+3]_63 chr3L:9848885-9849005 3.8e-05 31_[+3]_81 chr2L:18344499-18344619 3.8e-05 23_[+3]_89 chr3R:11646989-11647109 3.9e-05 21_[+3]_91 chr3R:26900071-26900191 5e-05 36_[+3]_76 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RCTGCYGC width=8 seqs=20 chr3R:14722717-14722837 ( 4) GCTGCCGC 1 chr3L:6155256-6155376 ( 82) GCTGCCGC 1 chrX:6632056-6632176 ( 61) GCTGCTGC 1 chr2R:25115642-25115762 ( 108) GCTGCTGC 1 chr3R:8792669-8792789 ( 53) GCTGCTGC 1 chr3L:10352207-10352327 ( 49) GCTGCTGC 1 chrX:7605851-7605971 ( 91) ACTGCCGC 1 chr2L:2804700-2804820 ( 9) ACTGCCGC 1 chr3R:24614256-24614376 ( 24) ACTGCTGC 1 chr2L:8271095-8271215 ( 110) ACTGCTGC 1 chrX:9062815-9062935 ( 78) ACTGCTGC 1 chr3R:25651573-25651693 ( 103) GGTGCTGC 1 chrX:9078420-9078540 ( 86) TCTGCCGC 1 chr2L:12027301-12027421 ( 50) TCTGCCGC 1 chr3L:21025175-21025295 ( 44) TCTGCTGC 1 chr3R:8939807-8939927 ( 50) AGTGCCGC 1 chr3L:9848885-9849005 ( 32) AGTGCTGC 1 chr2L:18344499-18344619 ( 24) AGTGCTGC 1 chr3R:11646989-11647109 ( 22) GCCGCCGC 1 chr3R:26900071-26900191 ( 37) GCTGCTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4069 E= 9.6e-003 32 -1097 137 -112 -1097 216 20 -1097 -1097 -184 -1097 155 -1097 -1097 252 -1097 -1097 248 -1097 -1097 -1097 116 -1097 88 -1097 -1097 252 -1097 -1097 241 -180 -1097 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 9.6e-003 0.400000 0.000000 0.450000 0.150000 0.000000 0.800000 0.200000 0.000000 0.000000 0.050000 0.000000 0.950000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.950000 0.050000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RCTGCYGC MEME-3 regular expression -------------------------------------------------------------------------------- [GA][CG]TGC[TC]GC -------------------------------------------------------------------------------- Time 19.89 secs. ******************************************************************************** ******************************************************************************** MOTIF CCGTGGGG MEME-4 width = 8 sites = 2 llr = 27 E-value = 1.9e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C aa:::::: probability G ::a:aaaa matrix T :::a:::: bits 2.5 *** **** 2.3 *** **** 2.0 *** **** 1.8 *** **** Relative 1.5 ******** Entropy 1.3 ******** (19.2 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCGTGGGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:15320621-15320741 16 1.71e-06 AACAATAACC CCGTGGGG ATGTGTTTGT chrX:3423483-3423603 31 1.71e-06 TGACAGAGCT CCGTGGGG CATATTATTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:15320621-15320741 1.7e-06 15_[+4]_97 chrX:3423483-3423603 1.7e-06 30_[+4]_82 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCGTGGGG width=8 seqs=2 chrX:15320621-15320741 ( 16) CCGTGGGG 1 chrX:3423483-3423603 ( 31) CCGTGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.7859 E= 1.9e+004 -765 248 -765 -765 -765 248 -765 -765 -765 -765 251 -765 -765 -765 -765 162 -765 -765 251 -765 -765 -765 251 -765 -765 -765 251 -765 -765 -765 251 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.9e+004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCGTGGGG MEME-4 regular expression -------------------------------------------------------------------------------- CCGTGGGG -------------------------------------------------------------------------------- Time 26.02 secs. ******************************************************************************** ******************************************************************************** MOTIF CGGCAGCG MEME-5 width = 8 sites = 2 llr = 27 E-value = 2.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::a::: pos.-specific C a::a::a: probability G :aa::a:a matrix T :::::::: bits 2.5 **** *** 2.3 **** *** 2.0 **** *** 1.8 ******** Relative 1.5 ******** Entropy 1.3 ******** (19.2 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CGGCAGCG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:26535792-26535912 36 1.73e-06 ACGTCGCAGT CGGCAGCG TAAGCTTTTC chrX:2742210-2742330 40 1.73e-06 CGCGCTACGC CGGCAGCG ATTGAGTAAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:26535792-26535912 1.7e-06 35_[+5]_77 chrX:2742210-2742330 1.7e-06 39_[+5]_73 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGGCAGCG width=8 seqs=2 chr3R:26535792-26535912 ( 36) CGGCAGCG 1 chrX:2742210-2742330 ( 40) CGGCAGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.7859 E= 2.1e+004 -765 248 -765 -765 -765 -765 251 -765 -765 -765 251 -765 -765 248 -765 -765 163 -765 -765 -765 -765 -765 251 -765 -765 248 -765 -765 -765 -765 251 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.1e+004 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCG MEME-5 regular expression -------------------------------------------------------------------------------- CGGCAGCG -------------------------------------------------------------------------------- Time 32.12 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:11442520-11442640 1.90e-01 120 chr3R:15112379-15112499 5.00e-02 120 chr3R:13524770-13524890 9.79e-02 120 chr3R:23787491-23787611 8.12e-01 120 chr3R:14557600-14557720 1.52e-04 98_[+2(1.78e-05)]_14 chr3L:9551254-9551374 4.16e-01 120 chrX:9062815-9062935 5.91e-02 77_[+3(1.43e-05)]_35 chr2R:22729290-22729410 2.30e-01 120 chr3L:14456113-14456233 3.53e-01 120 chr3R:14684127-14684247 5.00e-01 120 chr2R:5496347-5496467 9.75e-01 120 chr2L:7334351-7334471 1.93e-02 120 chr3R:19074370-19074490 7.67e-01 120 chr2L:9231798-9231918 2.44e-02 120 chr3L:2486624-2486744 7.11e-02 120 chr3R:12974593-12974713 1.30e-01 120 chr3R:21089569-21089689 4.56e-01 120 chr3R:16117452-16117572 6.62e-01 120 chr3L:10352207-10352327 4.38e-02 45_[+3(5.03e-06)]_67 chr2R:21847828-21847948 9.07e-01 120 chr2L:14624006-14624126 4.79e-01 120 chrX:10581667-10581787 9.86e-01 120 chr2L:14529396-14529516 9.32e-01 120 chr3R:25493941-25494061 7.58e-02 120 chr3R:24261761-24261881 9.73e-01 120 chr3L:2481633-2481753 8.30e-01 120 chr2L:7971550-7971670 9.48e-01 120 chr3R:29847246-29847366 9.86e-01 120 chr2L:2184830-2184950 9.53e-01 120 chrX:5924495-5924615 2.92e-01 120 chr2L:10759810-10759930 9.93e-01 120 chr2L:2944669-2944789 3.43e-01 120 chrX:13644754-13644874 5.08e-01 120 chr3L:14002498-14002618 1.25e-02 120 chrX:2358357-2358477 8.58e-01 120 chrX:22433034-22433154 1.00e+00 120 chr2L:20721605-20721725 9.88e-01 120 chr3R:8792669-8792789 4.98e-03 25_[+5(6.17e-05)]_19_[+3(5.03e-06)]_\ 15_[+3(8.31e-06)]_37 chrX:21044565-21044685 3.86e-01 120 chrX:3289495-3289615 3.37e-01 120 chr2R:18314586-18314706 7.20e-02 120 chr3L:6155256-6155376 1.54e-02 81_[+3(1.79e-06)]_31 chrX:15618075-15618195 9.70e-01 120 chr3L:6085305-6085425 8.39e-01 120 chr2R:13023862-13023982 4.68e-04 44_[+4(6.12e-05)]_68 chr3R:14848023-14848143 2.83e-01 120 chr2R:6521285-6521405 8.85e-01 120 chr3R:20565753-20565873 7.12e-01 120 chrX:8857484-8857604 5.30e-01 120 chr2R:23306098-23306218 1.00e+00 120 chr3R:14722717-14722837 3.00e-02 3_[+3(1.79e-06)]_32_[+3(5.03e-06)]_\ 69 chr3L:16486621-16486741 8.40e-01 120 chr3R:25651573-25651693 5.24e-02 102_[+3(1.92e-05)]_10 chr3R:14656108-14656228 9.84e-01 120 chrX:17694309-17694429 3.75e-01 120 chr3R:29280772-29280892 9.13e-01 120 chr2R:15800093-15800213 6.84e-01 120 chrX:6745655-6745775 9.61e-01 120 chr4:829947-830067 7.45e-01 120 chrX:17542878-17542998 3.96e-01 120 chrX:1119330-1119450 9.86e-01 120 chr2L:19156093-19156213 4.66e-02 38_[+2(1.69e-05)]_74 chrX:7537940-7538060 1.86e-02 62_[+2(1.69e-05)]_50 chr2L:21263940-21264060 7.32e-01 120 chr3L:16762306-16762426 9.57e-01 120 chr3L:1265091-1265211 7.70e-01 120 chr3R:21024272-21024392 3.55e-02 120 chr3R:31688975-31689095 8.28e-01 120 chr2L:8989130-8989250 6.22e-02 53_[+5(6.17e-05)]_59 chr3L:20933822-20933942 7.69e-03 15_[+4(6.12e-05)]_97 chr2R:18569168-18569288 5.79e-01 120 chr2R:10558233-10558353 7.93e-03 112_[+5(6.17e-05)] chr2L:3557626-3557746 9.13e-02 120 chr3R:21823197-21823317 7.60e-01 120 chr3L:2386563-2386683 9.67e-01 120 chr3L:21721053-21721173 6.07e-01 120 chr3L:9566981-9567101 9.59e-01 120 chr3L:20635703-20635823 1.59e-01 120 chr3R:30014018-30014138 9.79e-02 120 chr3L:10697491-10697611 3.18e-01 120 chr3R:24143964-24144084 5.83e-01 120 chr2R:16212953-16213073 9.95e-01 120 chr2L:7897401-7897521 8.76e-01 120 chr3L:16153221-16153341 9.55e-01 120 chr2R:14929658-14929778 9.98e-01 120 chr3R:14765476-14765596 4.74e-01 120 chr3R:30526930-30527050 1.14e-01 82_[+5(6.17e-05)]_30 chr3R:21938528-21938648 9.34e-01 120 chr2L:723966-724086 9.66e-01 120 chr3L:6458085-6458205 8.07e-01 120 chr3R:14673101-14673221 8.88e-01 120 chr3L:2533086-2533206 1.00e+00 120 chr2R:21543372-21543492 3.62e-01 120 chr2L:2432931-2433051 8.69e-01 120 chr2R:21799409-21799529 7.51e-01 120 chr3R:31723342-31723462 5.82e-01 120 chr3R:16119573-16119693 5.04e-01 120 chr2R:18301014-18301134 5.84e-01 120 chr2R:11544166-11544286 9.41e-01 120 chrX:12511392-12511512 9.99e-01 120 chrX:2334722-2334842 2.10e-01 120 chrX:334990-335110 3.76e-01 120 chr3L:2636562-2636682 8.39e-01 120 chrX:20482881-20483001 7.21e-01 120 chr3R:15631080-15631200 8.33e-02 52_[+4(6.12e-05)]_60 chr3R:27167513-27167633 9.58e-01 120 chr2L:2168694-2168814 4.71e-01 120 chr3L:18080166-18080286 1.19e-01 120 chrX:11601049-11601169 2.72e-01 120 chrX:768040-768160 1.27e-02 36_[+2(1.69e-05)]_76 chr2L:609627-609747 7.76e-01 120 chr2R:25115642-25115762 3.13e-02 107_[+3(5.03e-06)]_5 chrX:6632056-6632176 1.19e-04 60_[+3(5.03e-06)]_40_[+2(3.46e-05)]_\ 4 chr3R:26832022-26832142 5.45e-01 120 chr3L:20552048-20552168 9.97e-01 120 chrX:3423483-3423603 2.74e-02 30_[+4(1.71e-06)]_82 chr3L:1464500-1464620 2.57e-01 120 chrX:17113513-17113633 4.59e-01 120 chr3L:13925329-13925449 5.03e-01 120 chr2L:21005604-21005724 9.65e-01 120 chr2R:24955778-24955898 1.41e-02 120 chrX:739964-740084 5.19e-02 120 chrX:13245946-13246066 4.33e-01 120 chr2L:18344499-18344619 2.16e-01 23_[+3(3.76e-05)]_89 chr2L:20335045-20335165 7.23e-01 120 chr2L:12027301-12027421 4.96e-04 49_[+3(2.25e-05)]_63 chr2L:8271095-8271215 7.49e-02 109_[+3(1.43e-05)]_3 chr3L:9848885-9849005 1.12e-03 31_[+3(3.76e-05)]_81 chr2R:18271151-18271271 6.09e-01 120 chr3L:2549046-2549166 1.63e-01 120 chrX:9156201-9156321 1.13e-02 120 chr2R:12587977-12588097 1.31e-03 103_[+2(2.40e-05)]_9 chrX:13747750-13747870 2.08e-02 120 chr2L:8919770-8919890 9.51e-01 120 chr2R:18566081-18566201 9.81e-01 120 chr2R:9557607-9557727 3.85e-01 120 chr2L:19325570-19325690 6.35e-01 120 chr3R:4687398-4687518 9.89e-01 120 chr2L:11386513-11386633 4.69e-01 120 chr2R:18256974-18257094 6.54e-01 120 chr2L:5623858-5623978 3.32e-01 120 chr3R:31700347-31700467 9.76e-01 120 chr3L:12030653-12030773 9.97e-01 120 chr3L:20612975-20613095 3.39e-01 120 chr3R:20284652-20284772 3.15e-02 65_[+2(1.69e-05)]_47 chr3R:10588871-10588991 1.24e-02 95_[+4(6.12e-05)]_17 chrX:4175916-4176036 7.33e-01 120 chr3L:776377-776497 9.93e-01 120 chr3R:24549881-24550001 3.19e-01 120 chrX:19146501-19146621 7.36e-01 120 chr2R:19617365-19617485 3.82e-03 43_[+3(8.62e-05)]_69 chr2R:16812881-16813001 8.45e-01 120 chrX:19878764-19878884 2.60e-01 120 chr3L:19315008-19315128 8.54e-01 120 chr3L:8013984-8014104 2.55e-01 120 chr3L:11634684-11634804 5.18e-01 120 chrX:12000321-12000441 1.05e-01 120 chr3R:29210791-29210911 7.35e-01 120 chr3R:11888327-11888447 2.05e-01 120 chr2L:12513888-12514008 3.73e-03 99_[+2(3.30e-06)]_13 chr2R:8307848-8307968 9.88e-01 120 chrX:12760855-12760975 9.93e-01 120 chrX:18544899-18545019 2.85e-05 80_[+2(1.67e-06)]_32 chr3L:21025175-21025295 1.05e-01 43_[+3(2.85e-05)]_69 chr2R:9138344-9138464 2.25e-01 120 chr2R:14082395-14082515 8.93e-01 120 chrX:13568306-13568426 1.96e-01 120 chr2L:5295138-5295258 3.72e-01 120 chr2L:7949910-7950030 1.41e-01 120 chrX:779460-779580 1.02e-01 16_[+4(6.12e-05)]_96 chr3L:14411064-14411184 3.08e-01 120 chr3R:24996598-24996718 6.44e-01 120 chr2L:19193837-19193957 9.79e-01 120 chrX:9164007-9164127 1.59e-01 120 chr3R:24006742-24006862 9.75e-01 120 chrX:2742210-2742330 6.64e-04 39_[+5(1.73e-06)]_73 chr2R:14975255-14975375 6.05e-01 120 chr3R:26535792-26535912 9.59e-04 35_[+5(1.73e-06)]_77 chr3L:12790112-12790232 4.70e-01 120 chr2R:11690757-11690877 7.34e-01 120 chr3L:21738557-21738677 6.14e-01 120 chrX:12677157-12677277 8.82e-05 89_[+2(4.20e-06)]_23 chr2R:22136895-22137015 1.78e-01 120 chr2R:20195234-20195354 1.00e+00 120 chr2R:21389315-21389435 7.49e-01 120 chr3L:959345-959465 7.01e-01 120 chr3R:24614256-24614376 7.00e-02 23_[+3(1.43e-05)]_5_[+3(9.53e-05)]_\ 76 chr3R:28861397-28861517 9.04e-01 120 chr2L:20802332-20802452 9.71e-01 120 chr3L:7611346-7611466 9.96e-01 120 chr3L:8870705-8870825 1.00e+00 120 chrX:4970096-4970216 9.07e-01 120 chr3R:11646989-11647109 5.74e-04 21_[+3(3.86e-05)]_91 chr3R:10455004-10455124 6.16e-01 120 chrX:15320621-15320741 1.14e-03 15_[+4(1.71e-06)]_97 chr3L:13435339-13435459 1.00e-02 72_[+2(1.69e-05)]_40 chr3R:14025953-14026073 9.54e-01 120 chr2R:17811062-17811182 9.08e-01 120 chr3R:14057620-14057740 9.17e-01 120 chrX:12015134-12015254 1.23e-01 120 chr2L:10231223-10231343 8.57e-01 120 chr2R:11178242-11178362 1.15e-01 120 chr2L:16590937-16591057 9.11e-01 120 chr3R:8939807-8939927 5.31e-02 49_[+3(3.17e-05)]_63 chr3L:1829712-1829832 2.28e-01 120 chrX:9068951-9069071 7.94e-01 120 chr3R:18381080-18381200 1.73e-01 120 chr3R:13841095-13841215 7.13e-01 120 chr2L:13572245-13572365 7.70e-01 120 chrX:12596565-12596685 1.52e-01 120 chrX:3720384-3720504 1.88e-04 55_[+2(3.30e-06)]_57 chr2L:16406657-16406777 1.00e+00 120 chr2R:20646214-20646334 6.67e-03 120 chr2L:5429268-5429388 9.95e-01 120 chrX:13278181-13278301 3.30e-01 120 chrX:5970526-5970646 7.63e-01 120 chr2R:11614340-11614460 4.83e-03 47_[+2(1.69e-05)]_65 chr2L:2804700-2804820 7.77e-04 8_[+3(8.31e-06)]_104 chrX:342669-342789 5.61e-01 120 chr2L:19905361-19905481 8.88e-01 120 chr2L:18003686-18003806 5.76e-01 120 chrX:18483736-18483856 4.78e-02 120 chr3R:14286437-14286557 3.08e-01 120 chr3L:787743-787863 3.14e-01 120 chr2R:9683835-9683955 3.05e-03 99_[+2(2.40e-05)]_13 chr3L:3817098-3817218 5.16e-01 120 chr3L:4707904-4708024 1.24e-02 120 chr2R:8240814-8240934 9.57e-01 120 chr2R:11657991-11658111 2.50e-02 120 chrX:7605851-7605971 1.16e-04 24_[+2(4.20e-06)]_58_[+3(8.31e-06)]_\ 22 chr3L:6266508-6266628 2.06e-01 120 chr2R:14569584-14569704 9.86e-01 120 chr3R:19924423-19924543 5.75e-01 120 chrX:9078420-9078540 1.84e-02 85_[+3(2.25e-05)]_27 chr3L:12058528-12058648 9.61e-01 120 chr3R:30164206-30164326 8.73e-01 120 chr3L:1810358-1810478 2.30e-02 120 chr3R:8154086-8154206 9.20e-01 120 chr3L:2117147-2117267 8.45e-01 120 chr3R:19283663-19283783 8.06e-01 120 chrX:14953146-14953266 1.70e-01 120 chr3L:10387443-10387563 6.47e-01 120 chrX:10105832-10105952 6.65e-01 120 chr3R:17619870-17619990 3.17e-01 120 chr3L:1755628-1755748 7.58e-02 120 chr2R:19984980-19985100 2.36e-01 120 chr3L:4722024-4722144 9.95e-01 120 chr3R:31680044-31680164 2.46e-01 120 chr2R:21141841-21141961 5.04e-01 120 chr3R:26900071-26900191 2.39e-02 36_[+3(5.03e-05)]_76 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n06.farnam.hpc.yale.internal ********************************************************************************