******************************************************************************** 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/CG13123.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3L:19834276-19834396 1.0000 120 chr3L:3905290-3905410 1.0000 120 chrX:17473424-17473544 1.0000 120 chr3L:12045610-12045730 1.0000 120 chr3L:94221-94341 1.0000 120 chr2R:9546504-9546624 1.0000 120 chr3R:29083961-29084081 1.0000 120 chr2R:22661334-22661454 1.0000 120 chrX:20506067-20506187 1.0000 120 chr3R:28556555-28556675 1.0000 120 chrX:4609897-4610017 1.0000 120 chr2R:22387661-22387781 1.0000 120 chr2L:7150896-7151016 1.0000 120 chr2L:3888309-3888429 1.0000 120 chr2R:6807563-6807683 1.0000 120 chr3L:17993429-17993549 1.0000 120 chr3L:9678098-9678218 1.0000 120 chrX:17582808-17582928 1.0000 120 chr3R:30802952-30803072 1.0000 120 chr2R:25183118-25183238 1.0000 120 chr3L:18357759-18357879 1.0000 120 chr4:1064408-1064528 1.0000 120 chrX:3157412-3157532 1.0000 120 chr3R:10598381-10598501 1.0000 120 chr2R:21535538-21535658 1.0000 120 chr2R:7139411-7139531 1.0000 120 chr2R:8615290-8615410 1.0000 120 chr3L:10847953-10848073 1.0000 120 chr3R:28904350-28904470 1.0000 120 chr2R:17586095-17586215 1.0000 120 chr2R:25085529-25085649 1.0000 120 chr2L:12372582-12372702 1.0000 120 chr3R:19491122-19491242 1.0000 120 chr3L:10899344-10899464 1.0000 120 chr3R:22668817-22668937 1.0000 120 chr3L:17404760-17404880 1.0000 120 chr2R:17412683-17412803 1.0000 120 chrX:8295145-8295265 1.0000 120 chr3R:18274463-18274583 1.0000 120 chr3L:4413246-4413366 1.0000 120 chr2R:17420000-17420120 1.0000 120 chr2R:24402781-24402901 1.0000 120 chr3R:26900131-26900251 1.0000 120 chr2R:9406849-9406969 1.0000 120 chr2L:2494644-2494764 1.0000 120 chr3L:13929244-13929364 1.0000 120 chrX:9152175-9152295 1.0000 120 chr2R:10124227-10124347 1.0000 120 chr2L:7541458-7541578 1.0000 120 chr3L:10849703-10849823 1.0000 120 chr2R:18829722-18829842 1.0000 120 chr2R:11541226-11541346 1.0000 120 chr2R:11651134-11651254 1.0000 120 chrX:16073463-16073583 1.0000 120 chr2R:6652918-6653038 1.0000 120 chr2L:1655898-1656018 1.0000 120 chr2R:20126199-20126319 1.0000 120 chr3L:12741681-12741801 1.0000 120 chr2R:7407864-7407984 1.0000 120 chr3R:10648910-10649030 1.0000 120 chr2L:9763239-9763359 1.0000 120 chrX:3538880-3539000 1.0000 120 chr3R:19877560-19877680 1.0000 120 chr4:1218963-1219083 1.0000 120 chr2R:8067732-8067852 1.0000 120 chr2R:23725977-23726097 1.0000 120 chr2R:18609040-18609160 1.0000 120 chr3R:4975325-4975445 1.0000 120 chrX:16096609-16096729 1.0000 120 chrX:16968638-16968758 1.0000 120 chr2R:7955874-7955994 1.0000 120 chr2L:8009448-8009568 1.0000 120 chr3L:21007878-21007998 1.0000 120 chr3R:15351043-15351163 1.0000 120 chr3L:614870-614990 1.0000 120 chr3L:14195886-14196006 1.0000 120 chr3L:1302771-1302891 1.0000 120 chr2R:15818661-15818781 1.0000 120 chr2L:8488873-8488993 1.0000 120 chr2L:8528534-8528654 1.0000 120 chrX:3136856-3136976 1.0000 120 chr2L:7890863-7890983 1.0000 120 chr2R:8127371-8127491 1.0000 120 chr2R:23697912-23698032 1.0000 120 chr3R:15837228-15837348 1.0000 120 chr3R:6667404-6667524 1.0000 120 chr3L:14004094-14004214 1.0000 120 chr3R:30767233-30767353 1.0000 120 chr2L:5800307-5800427 1.0000 120 chr3L:12414841-12414961 1.0000 120 chr2R:14494764-14494884 1.0000 120 chr3R:4775441-4775561 1.0000 120 chr2L:8554366-8554486 1.0000 120 chrX:5883516-5883636 1.0000 120 chr2R:22657110-22657230 1.0000 120 chr2R:16178651-16178771 1.0000 120 chr2L:18590739-18590859 1.0000 120 chrX:13757048-13757168 1.0000 120 chrX:8720333-8720453 1.0000 120 chr3R:14741468-14741588 1.0000 120 chr3R:31704673-31704793 1.0000 120 chr3L:1177167-1177287 1.0000 120 chrX:656093-656213 1.0000 120 chr3R:20542423-20542543 1.0000 120 chr3R:31772017-31772137 1.0000 120 chr3R:21350132-21350252 1.0000 120 chr3L:15095029-15095149 1.0000 120 chrX:9193766-9193886 1.0000 120 chr4:225996-226116 1.0000 120 chrX:7553500-7553620 1.0000 120 chr3L:18297540-18297660 1.0000 120 chr3L:1463794-1463914 1.0000 120 chr2R:13450473-13450593 1.0000 120 chr3R:26005959-26006079 1.0000 120 chr3R:29799503-29799623 1.0000 120 chr3R:11244099-11244219 1.0000 120 chr3L:10350868-10350988 1.0000 120 chr3L:6817071-6817191 1.0000 120 chrX:12631420-12631540 1.0000 120 chr2L:2037615-2037735 1.0000 120 chr2L:10552923-10553043 1.0000 120 chrX:9352856-9352976 1.0000 120 chr2L:6700791-6700911 1.0000 120 chr2R:13968100-13968220 1.0000 120 chr2L:117901-118021 1.0000 120 chrX:22837479-22837599 1.0000 120 chr3L:264401-264521 1.0000 120 chr3R:29869215-29869335 1.0000 120 chr3L:18349429-18349549 1.0000 120 chr2L:13445633-13445753 1.0000 120 chr3L:3305571-3305691 1.0000 120 chr2R:15201357-15201477 1.0000 120 chr2R:14302769-14302889 1.0000 120 chr3L:18204003-18204123 1.0000 120 chr3R:6345967-6346087 1.0000 120 chr3R:26011653-26011773 1.0000 120 chr2L:10428644-10428764 1.0000 120 chr2R:24593700-24593820 1.0000 120 chr3L:14956389-14956509 1.0000 120 chr3L:21484045-21484165 1.0000 120 chr3R:9701468-9701588 1.0000 120 chr2L:3852249-3852369 1.0000 120 chr2R:13926317-13926437 1.0000 120 chrX:17176697-17176817 1.0000 120 chr2L:7043205-7043325 1.0000 120 chr2L:7239456-7239576 1.0000 120 chr2R:22806936-22807056 1.0000 120 chr3R:6791423-6791543 1.0000 120 chr2R:9285100-9285220 1.0000 120 chr3L:14780335-14780455 1.0000 120 chr2L:9570841-9570961 1.0000 120 chr2R:22511581-22511701 1.0000 120 chrX:2149676-2149796 1.0000 120 chr3R:15794503-15794623 1.0000 120 chr2L:20911533-20911653 1.0000 120 chr3R:29859912-29860032 1.0000 120 chr3L:21130876-21130996 1.0000 120 chr3L:7360289-7360409 1.0000 120 chr3R:22596630-22596750 1.0000 120 chr2L:11037882-11038002 1.0000 120 chrX:11108273-11108393 1.0000 120 chr3R:8978917-8979037 1.0000 120 chr2R:10142271-10142391 1.0000 120 chr3R:10168775-10168895 1.0000 120 chr3L:9859808-9859928 1.0000 120 chrX:9356363-9356483 1.0000 120 chr3L:14708158-14708278 1.0000 120 chr2R:7031185-7031305 1.0000 120 chr2L:21149219-21149339 1.0000 120 chr2L:73191-73311 1.0000 120 chr2R:17545042-17545162 1.0000 120 chr2R:24086523-24086643 1.0000 120 chr3R:6504576-6504696 1.0000 120 chr2L:15248755-15248875 1.0000 120 chr3L:21196713-21196833 1.0000 120 chr2L:11189230-11189350 1.0000 120 chr3L:10845249-10845369 1.0000 120 chr2L:3776104-3776224 1.0000 120 chr2R:9286624-9286744 1.0000 120 chr3R:8673905-8674025 1.0000 120 chr2R:13198336-13198456 1.0000 120 chrX:7617073-7617193 1.0000 120 chrX:4530010-4530130 1.0000 120 chr2L:18859317-18859437 1.0000 120 chr2L:1123494-1123614 1.0000 120 chr3R:26130698-26130818 1.0000 120 chr3R:10388881-10389001 1.0000 120 chr3L:20944335-20944455 1.0000 120 chr3R:15089724-15089844 1.0000 120 chrX:11427615-11427735 1.0000 120 chr3R:24917891-24918011 1.0000 120 chr3R:5998412-5998532 1.0000 120 chr3R:6373881-6374001 1.0000 120 chrX:7728384-7728504 1.0000 120 chr3R:26536154-26536274 1.0000 120 chr3R:19031324-19031444 1.0000 120 chr2L:16302942-16303062 1.0000 120 chr3R:23919506-23919626 1.0000 120 chr2R:22548301-22548421 1.0000 120 chr2R:14577769-14577889 1.0000 120 chrX:7333321-7333441 1.0000 120 chr4:1031832-1031952 1.0000 120 chr3L:1350733-1350853 1.0000 120 chr3L:7151917-7152037 1.0000 120 chr2L:13073954-13074074 1.0000 120 chr3R:31169098-31169218 1.0000 120 chr3R:16991916-16992036 1.0000 120 chr3R:8233450-8233570 1.0000 120 chr3L:11820079-11820199 1.0000 120 chr3R:19023970-19024090 1.0000 120 chr2L:19577299-19577419 1.0000 120 chr2L:9897467-9897587 1.0000 120 chr2L:18822962-18823082 1.0000 120 chr2L:2882999-2883119 1.0000 120 chr3L:15787476-15787596 1.0000 120 chr2L:6698516-6698636 1.0000 120 chr3R:8960512-8960632 1.0000 120 chr2R:12337653-12337773 1.0000 120 chr2R:20832435-20832555 1.0000 120 chr2R:23940107-23940227 1.0000 120 chr2R:9881467-9881587 1.0000 120 chr2L:19453498-19453618 1.0000 120 chr3L:9066221-9066341 1.0000 120 chr3L:10344170-10344290 1.0000 120 chr2L:3472382-3472502 1.0000 120 chr3L:7912035-7912155 1.0000 120 chr2L:20649949-20650069 1.0000 120 chr3R:5368284-5368404 1.0000 120 chr2R:8951541-8951661 1.0000 120 chr2R:7776673-7776793 1.0000 120 chr2L:1628229-1628349 1.0000 120 chr2L:1456379-1456499 1.0000 120 chr3L:3665445-3665565 1.0000 120 chr3L:11403666-11403786 1.0000 120 chr2L:3813455-3813575 1.0000 120 chr2R:23871567-23871687 1.0000 120 chr2R:23898291-23898411 1.0000 120 chr2L:10339253-10339373 1.0000 120 chrX:17850372-17850492 1.0000 120 chr3R:13403250-13403370 1.0000 120 chr3L:16711571-16711691 1.0000 120 chr3L:17476037-17476157 1.0000 120 chr2R:10559353-10559473 1.0000 120 chr2L:19508729-19508849 1.0000 120 chrX:3431830-3431950 1.0000 120 chr3L:15588825-15588945 1.0000 120 chr2L:4440945-4441065 1.0000 120 chr2L:10522618-10522738 1.0000 120 chr3R:8308792-8308912 1.0000 120 chr2L:6968241-6968361 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_CG13123/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/CG13123.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 0.319 C 0.176 G 0.18 T 0.325 Background letter frequencies (from file dataset with add-one prior applied): A 0.319 C 0.176 G 0.18 T 0.325 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GTAAACAA MEME-1 width = 8 sites = 34 llr = 307 E-value = 4.9e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::aaa:a6 pos.-specific C :3:::a:: probability G a::::::1 matrix T :7:::::3 bits 2.5 * * 2.3 * * 2.0 * * 1.8 * ***** Relative 1.5 * ***** Entropy 1.3 * ***** (13.0 bits) 1.0 ******* 0.8 ******* 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GTAAACAA consensus C T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:17850372-17850492 111 3.40e-05 GGCCCGATAA GTAAACAA CA chr2L:18822962-18823082 66 3.40e-05 ACGATGAATT GTAAACAA GCGGAGCCTT chr3R:24917891-24918011 66 3.40e-05 GCATTATATT GTAAACAA TAAAGGGCGT chrX:11427615-11427735 76 3.40e-05 GGTTTGGCGA GTAAACAA ACATTCGTCA chr3R:26130698-26130818 38 3.40e-05 CGACCATAAA GTAAACAA GTCATGGCTG chr3L:21130876-21130996 109 3.40e-05 TTAATCAGAG GTAAACAA ACGA chr2L:20911533-20911653 56 3.40e-05 GTTTGCCTTT GTAAACAA TGGGAGGCTT chr2L:9570841-9570961 10 3.40e-05 ATATGAAAA GTAAACAA AGTTGCTGGC chr3L:14780335-14780455 50 3.40e-05 GGAAATGCAA GTAAACAA CGCTATCACG chr2R:9285100-9285220 96 3.40e-05 AAAACTGAAG GTAAACAA AATGTATTTA chr3R:30767233-30767353 75 3.40e-05 TTTATCGAGT GTAAACAA AGCATAAAAC chr3L:21007878-21007998 56 3.40e-05 TTACGTAAAA GTAAACAA CACGGACAAA chr2R:9406849-9406969 56 3.40e-05 TGGGTGGAAG GTAAACAA CAACAATGAG chr2R:8615290-8615410 82 3.40e-05 GAGTCAATAT GTAAACAA TTATCTAATG chr3L:17993429-17993549 39 3.40e-05 GGCACGCCAG GTAAACAA GAGAGAAAAA chr2L:3888309-3888429 63 3.40e-05 ACCCCAAAAG GTAAACAA AGAAAATTGT chr3L:3305571-3305691 11 5.24e-05 TAATTTTGTG GCAAACAA ATTAAAGCAC chr2L:8488873-8488993 93 5.24e-05 CGGCAAGCAT GCAAACAA ACAGCTGACA chr2R:18609040-18609160 71 5.24e-05 TGTTGAAGAG GCAAACAA ACACGGTGAC chr2R:11541226-11541346 58 5.24e-05 TTGCAAACTG GCAAACAA ATCAAGAACA chr2R:22387661-22387781 113 5.24e-05 TCTACATCTA GCAAACAA chr2R:7776673-7776793 87 8.71e-05 CGCCCAAAGA GTAAACAT CAACAAGCGG chr3L:14708158-14708278 72 8.71e-05 GGCCAGACAA GTAAACAT GAAAGCGAGA chr2R:24593700-24593820 73 8.71e-05 GCAAGAATCA GTAAACAT TATTTACCCC chr3R:6345967-6346087 88 8.71e-05 TGTAAGAAGT GTAAACAT ATTTAAGACC chr2R:14494764-14494884 81 8.71e-05 TGTTGACTGG GTAAACAT CGAAGAAAGG chr3L:4413246-4413366 18 8.71e-05 GGCATAGAAT GTAAACAT ATTTACGCAA chr3R:8308792-8308912 34 1.06e-04 TGTTTGCGCT GCAAACAT TTAAACAAGC chr3R:23919506-23919626 23 1.06e-04 GCATATCTGA GCAAACAT TTTATTTGCG chr2R:7031185-7031305 66 1.06e-04 GTTGCCGTGT GCAAACAT CATCGCCTTG chr3L:1302771-1302891 16 1.06e-04 CGTCCTTAAA GCAAACAT AAAACCCTTA chr3R:10388881-10389001 19 1.25e-04 GCGAAAAAGA GTAAACAG GCGGTACACA chr3R:10168775-10168895 32 1.25e-04 AACTAAGCAA GTAAACAG AAGCGGACAA chrX:17473424-17473544 64 1.35e-04 tttaCACACA GCAAACAG CAACGACACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:17850372-17850492 3.4e-05 110_[+1]_2 chr2L:18822962-18823082 3.4e-05 65_[+1]_47 chr3R:24917891-24918011 3.4e-05 65_[+1]_47 chrX:11427615-11427735 3.4e-05 75_[+1]_37 chr3R:26130698-26130818 3.4e-05 37_[+1]_75 chr3L:21130876-21130996 3.4e-05 108_[+1]_4 chr2L:20911533-20911653 3.4e-05 55_[+1]_57 chr2L:9570841-9570961 3.4e-05 9_[+1]_103 chr3L:14780335-14780455 3.4e-05 49_[+1]_63 chr2R:9285100-9285220 3.4e-05 95_[+1]_17 chr3R:30767233-30767353 3.4e-05 74_[+1]_38 chr3L:21007878-21007998 3.4e-05 55_[+1]_57 chr2R:9406849-9406969 3.4e-05 55_[+1]_57 chr2R:8615290-8615410 3.4e-05 81_[+1]_31 chr3L:17993429-17993549 3.4e-05 38_[+1]_74 chr2L:3888309-3888429 3.4e-05 62_[+1]_50 chr3L:3305571-3305691 5.2e-05 10_[+1]_102 chr2L:8488873-8488993 5.2e-05 92_[+1]_20 chr2R:18609040-18609160 5.2e-05 70_[+1]_42 chr2R:11541226-11541346 5.2e-05 57_[+1]_55 chr2R:22387661-22387781 5.2e-05 112_[+1] chr2R:7776673-7776793 8.7e-05 86_[+1]_26 chr3L:14708158-14708278 8.7e-05 71_[+1]_41 chr2R:24593700-24593820 8.7e-05 72_[+1]_40 chr3R:6345967-6346087 8.7e-05 87_[+1]_25 chr2R:14494764-14494884 8.7e-05 80_[+1]_32 chr3L:4413246-4413366 8.7e-05 17_[+1]_95 chr3R:8308792-8308912 0.00011 33_[+1]_79 chr3R:23919506-23919626 0.00011 22_[+1]_90 chr2R:7031185-7031305 0.00011 65_[+1]_47 chr3L:1302771-1302891 0.00011 15_[+1]_97 chr3R:10388881-10389001 0.00013 18_[+1]_94 chr3R:10168775-10168895 0.00013 31_[+1]_81 chrX:17473424-17473544 0.00014 63_[+1]_49 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTAAACAA width=8 seqs=34 chrX:17850372-17850492 ( 111) GTAAACAA 1 chr2L:18822962-18823082 ( 66) GTAAACAA 1 chr3R:24917891-24918011 ( 66) GTAAACAA 1 chrX:11427615-11427735 ( 76) GTAAACAA 1 chr3R:26130698-26130818 ( 38) GTAAACAA 1 chr3L:21130876-21130996 ( 109) GTAAACAA 1 chr2L:20911533-20911653 ( 56) GTAAACAA 1 chr2L:9570841-9570961 ( 10) GTAAACAA 1 chr3L:14780335-14780455 ( 50) GTAAACAA 1 chr2R:9285100-9285220 ( 96) GTAAACAA 1 chr3R:30767233-30767353 ( 75) GTAAACAA 1 chr3L:21007878-21007998 ( 56) GTAAACAA 1 chr2R:9406849-9406969 ( 56) GTAAACAA 1 chr2R:8615290-8615410 ( 82) GTAAACAA 1 chr3L:17993429-17993549 ( 39) GTAAACAA 1 chr2L:3888309-3888429 ( 63) GTAAACAA 1 chr3L:3305571-3305691 ( 11) GCAAACAA 1 chr2L:8488873-8488993 ( 93) GCAAACAA 1 chr2R:18609040-18609160 ( 71) GCAAACAA 1 chr2R:11541226-11541346 ( 58) GCAAACAA 1 chr2R:22387661-22387781 ( 113) GCAAACAA 1 chr2R:7776673-7776793 ( 87) GTAAACAT 1 chr3L:14708158-14708278 ( 72) GTAAACAT 1 chr2R:24593700-24593820 ( 73) GTAAACAT 1 chr3R:6345967-6346087 ( 88) GTAAACAT 1 chr2R:14494764-14494884 ( 81) GTAAACAT 1 chr3L:4413246-4413366 ( 18) GTAAACAT 1 chr3R:8308792-8308912 ( 34) GCAAACAT 1 chr3R:23919506-23919626 ( 23) GCAAACAT 1 chr2R:7031185-7031305 ( 66) GCAAACAT 1 chr3L:1302771-1302891 ( 16) GCAAACAT 1 chr3R:10388881-10389001 ( 19) GTAAACAG 1 chr3R:10168775-10168895 ( 32) GTAAACAG 1 chrX:17473424-17473544 ( 64) GCAAACAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.4922 E= 4.9e-005 -1173 -1173 247 -1173 -1173 74 -1173 112 165 -1173 -1173 -1173 165 -1173 -1173 -1173 165 -1173 -1173 -1173 -1173 250 -1173 -1173 165 -1173 -1173 -1173 95 -1173 -103 -14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 4.9e-005 0.000000 0.000000 1.000000 0.000000 0.000000 0.294118 0.000000 0.705882 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.617647 0.000000 0.088235 0.294118 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTAAACAA MEME-1 regular expression -------------------------------------------------------------------------------- G[TC]AAACA[AT] -------------------------------------------------------------------------------- Time 7.49 secs. ******************************************************************************** ******************************************************************************** MOTIF GGCRGCAC MEME-2 width = 8 sites = 18 llr = 177 E-value = 1.4e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::4::8: pos.-specific C :291291a probability G a814811: matrix T :::1:::: bits 2.5 * * 2.3 * * * * 2.0 * * * * 1.8 *** ** * Relative 1.5 *** ** * Entropy 1.3 *** ** * (14.2 bits) 1.0 *** **** 0.8 *** **** 0.5 *** **** 0.3 ******** 0.0 -------- Multilevel GGCAGCAC consensus GC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:19508729-19508849 63 1.83e-06 TGACCATGAC GGCGGCAC ACTTTACATT chrX:5883516-5883636 71 1.83e-06 TCCGCCAGAT GGCGGCAC AGCATGAAAT chr2R:13450473-13450593 44 5.06e-06 CATGCGCACT GGCAGCAC TGCCGTACAA chr2R:23697912-23698032 7 5.06e-06 AACTCA GGCAGCAC TATATTCATA chr2R:17412683-17412803 52 5.06e-06 CGAATAATGT GGCAGCAC TAGTTATCGA chr2L:3472382-3472502 85 6.85e-06 CTGTGCAGAT GGCGCCAC CATGACGCGC chr2L:73191-73311 54 6.85e-06 TATACACAAT GGCGCCAC TGTTGTTTTA chr3R:11244099-11244219 86 8.63e-06 CTGCTGTTCT GGCCGCAC TTCAAGATAA chr3R:26130698-26130818 110 1.79e-05 AGACCATCTC GGCTGCAC AGA chr2R:22657110-22657230 87 1.79e-05 CGATGTTAAC GGCTGCAC TTGAACGTAG chr2R:22511581-22511701 15 2.07e-05 ATTTCTCCAC GGCAGCGC TAAAACAACA chr3L:614870-614990 111 2.07e-05 CTTTGTGTCC GGCGGCCC TC chr2R:7407864-7407984 58 2.39e-05 TGCGCTCTTA GCCAGCAC TCCAACCACA chr2R:14494764-14494884 11 3.12e-05 ACAATCGGGT GCCGCCAC TCGAAATGAA chr4:1031832-1031952 27 3.67e-05 ACTTCTGCTC GCCCGCAC ACTTCTCAGT chr2R:11541226-11541346 1 3.67e-05 . GGGGGCAC AGCAAACAAA chrX:22837479-22837599 27 4.55e-05 CTTTCGCTTG GGCACCGC AATATAAAAA chr2R:21535538-21535658 75 5.95e-05 GGTGGCGCTT GGCAGGAC TGTGTAAGAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:19508729-19508849 1.8e-06 62_[+2]_50 chrX:5883516-5883636 1.8e-06 70_[+2]_42 chr2R:13450473-13450593 5.1e-06 43_[+2]_69 chr2R:23697912-23698032 5.1e-06 6_[+2]_106 chr2R:17412683-17412803 5.1e-06 51_[+2]_61 chr2L:3472382-3472502 6.8e-06 84_[+2]_28 chr2L:73191-73311 6.8e-06 53_[+2]_59 chr3R:11244099-11244219 8.6e-06 85_[+2]_27 chr3R:26130698-26130818 1.8e-05 109_[+2]_3 chr2R:22657110-22657230 1.8e-05 86_[+2]_26 chr2R:22511581-22511701 2.1e-05 14_[+2]_98 chr3L:614870-614990 2.1e-05 110_[+2]_2 chr2R:7407864-7407984 2.4e-05 57_[+2]_55 chr2R:14494764-14494884 3.1e-05 10_[+2]_102 chr4:1031832-1031952 3.7e-05 26_[+2]_86 chr2R:11541226-11541346 3.7e-05 [+2]_112 chrX:22837479-22837599 4.6e-05 26_[+2]_86 chr2R:21535538-21535658 5.9e-05 74_[+2]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGCRGCAC width=8 seqs=18 chr2L:19508729-19508849 ( 63) GGCGGCAC 1 chrX:5883516-5883636 ( 71) GGCGGCAC 1 chr2R:13450473-13450593 ( 44) GGCAGCAC 1 chr2R:23697912-23698032 ( 7) GGCAGCAC 1 chr2R:17412683-17412803 ( 52) GGCAGCAC 1 chr2L:3472382-3472502 ( 85) GGCGCCAC 1 chr2L:73191-73311 ( 54) GGCGCCAC 1 chr3R:11244099-11244219 ( 86) GGCCGCAC 1 chr3R:26130698-26130818 ( 110) GGCTGCAC 1 chr2R:22657110-22657230 ( 87) GGCTGCAC 1 chr2R:22511581-22511701 ( 15) GGCAGCGC 1 chr3L:614870-614990 ( 111) GGCGGCCC 1 chr2R:7407864-7407984 ( 58) GCCAGCAC 1 chr2R:14494764-14494884 ( 11) GCCGCCAC 1 chr4:1031832-1031952 ( 27) GCCCGCAC 1 chr2R:11541226-11541346 ( 1) GGGGGCAC 1 chrX:22837479-22837599 ( 27) GGCACCGC 1 chr2R:21535538-21535658 ( 75) GGCAGGAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4635 E= 1.4e+000 -1081 -1081 247 -1081 -1081 -8 221 -1081 -1081 242 -170 -1081 29 -66 111 -155 -1081 34 211 -1081 -1081 242 -170 -1081 138 -166 -70 -1081 -1081 250 -1081 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 1.4e+000 0.000000 0.000000 1.000000 0.000000 0.000000 0.166667 0.833333 0.000000 0.000000 0.944444 0.055556 0.000000 0.388889 0.111111 0.388889 0.111111 0.000000 0.222222 0.777778 0.000000 0.000000 0.944444 0.055556 0.000000 0.833333 0.055556 0.111111 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCRGCAC MEME-2 regular expression -------------------------------------------------------------------------------- GGC[AG][GC]CAC -------------------------------------------------------------------------------- Time 13.76 secs. ******************************************************************************** ******************************************************************************** MOTIF YATCGATA MEME-3 width = 8 sites = 26 llr = 234 E-value = 1.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 Description -------------------------------------------------------------------------------- Simplified A :9:::9:9 pos.-specific C 3::a:1:: probability G :1::a::1 matrix T 7:a:::a: bits 2.5 ** 2.3 ** 2.0 ** 1.8 ** Relative 1.5 *** * Entropy 1.3 ******* (13.0 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TATCGATA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:6968241-6968361 45 5.44e-05 CAGTCAATTA TATCGATA TGTCGCCTAT chr3R:13403250-13403370 91 5.44e-05 GTCAGCAATT TATCGATA GATCAAAGTT chrX:17850372-17850492 65 5.44e-05 CAAGCAAACT TATCGATA GTCCCGATAA chr2R:23898291-23898411 24 5.44e-05 GGTAAAGGTA TATCGATA TGTAGGCGTG chr2L:19453498-19453618 39 5.44e-05 ATGAAATCGC TATCGATA AGTCCCATAA chr2L:9897467-9897587 102 5.44e-05 GTGCCGATAC CATCGATA AGCATAATAT chr3L:1350733-1350853 47 5.44e-05 TAGTTACGTC TATCGATA TTTTCACCAT chrX:7728384-7728504 12 5.44e-05 TGTGCGGTGT TATCGATA GTGCACGTAT chr3L:9859808-9859928 49 5.44e-05 TGTTTTGGCC TATCGATA CATACATATG chr2R:14302769-14302889 26 5.44e-05 GGTTTTCTGC TATCGATA GGATAGTGCT chr3L:264401-264521 12 5.44e-05 AGCGCGATAG CATCGATA TTTTCGTGAC chr3R:11244099-11244219 62 5.44e-05 TTATCAAGGG CATCGATA GTTTGGCTGC chr3R:14741468-14741588 109 5.44e-05 TTACCCTATA CATCGATA GTAT chrX:16968638-16968758 12 5.44e-05 ACAAGACTGT CATCGATA TAAGCAGGCG chr3L:12741681-12741801 84 5.44e-05 TCTACGCAGT TATCGATA GTGCAATAAA chrX:16073463-16073583 82 5.44e-05 TGCGCTTGGC TATCGATA TGGACCTAAG chr2R:17412683-17412803 64 5.44e-05 CAGCACTAGT TATCGATA TAATCAGAGA chr3L:19834276-19834396 73 5.44e-05 CCAGTGGGGC TATCGATA GCTAATCGAT chr2R:22548301-22548421 16 8.44e-05 TCTTTTTTTG TATCGCTA ATAAGTTCAA chr3R:29869215-29869335 100 8.44e-05 ACCAATAGCC CATCGCTA GTTCAATCGA chrX:5883516-5883636 6 8.44e-05 TGCGA CATCGCTA TGAATTTGAA chr2L:19508729-19508849 11 1.15e-04 TTGGAACTTA TATCGATG CTTACCCGAT chr2R:7955874-7955994 8 1.15e-04 GCAAGAA CATCGATG ACGGGTGAAC chrX:4609897-4610017 12 1.15e-04 TTTGGGTCGA CATCgatg acgatcatcg chr3L:7912035-7912155 106 1.46e-04 GTTTTTGGCC TGTCGATA AATTAAA chr2L:10552923-10553043 1 1.46e-04 . TGTCGATA AGGTTATAGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:6968241-6968361 5.4e-05 44_[+3]_68 chr3R:13403250-13403370 5.4e-05 90_[+3]_22 chrX:17850372-17850492 5.4e-05 64_[+3]_48 chr2R:23898291-23898411 5.4e-05 23_[+3]_89 chr2L:19453498-19453618 5.4e-05 38_[+3]_74 chr2L:9897467-9897587 5.4e-05 101_[+3]_11 chr3L:1350733-1350853 5.4e-05 46_[+3]_66 chrX:7728384-7728504 5.4e-05 11_[+3]_101 chr3L:9859808-9859928 5.4e-05 48_[+3]_64 chr2R:14302769-14302889 5.4e-05 25_[+3]_87 chr3L:264401-264521 5.4e-05 11_[+3]_101 chr3R:11244099-11244219 5.4e-05 61_[+3]_51 chr3R:14741468-14741588 5.4e-05 108_[+3]_4 chrX:16968638-16968758 5.4e-05 11_[+3]_101 chr3L:12741681-12741801 5.4e-05 83_[+3]_29 chrX:16073463-16073583 5.4e-05 81_[+3]_31 chr2R:17412683-17412803 5.4e-05 63_[+3]_49 chr3L:19834276-19834396 5.4e-05 72_[+3]_40 chr2R:22548301-22548421 8.4e-05 15_[+3]_97 chr3R:29869215-29869335 8.4e-05 99_[+3]_13 chrX:5883516-5883636 8.4e-05 5_[+3]_107 chr2L:19508729-19508849 0.00012 10_[+3]_102 chr2R:7955874-7955994 0.00012 7_[+3]_105 chrX:4609897-4610017 0.00012 11_[+3]_101 chr3L:7912035-7912155 0.00015 105_[+3]_7 chr2L:10552923-10553043 0.00015 [+3]_112 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YATCGATA width=8 seqs=26 chr2L:6968241-6968361 ( 45) TATCGATA 1 chr3R:13403250-13403370 ( 91) TATCGATA 1 chrX:17850372-17850492 ( 65) TATCGATA 1 chr2R:23898291-23898411 ( 24) TATCGATA 1 chr2L:19453498-19453618 ( 39) TATCGATA 1 chr2L:9897467-9897587 ( 102) CATCGATA 1 chr3L:1350733-1350853 ( 47) TATCGATA 1 chrX:7728384-7728504 ( 12) TATCGATA 1 chr3L:9859808-9859928 ( 49) TATCGATA 1 chr2R:14302769-14302889 ( 26) TATCGATA 1 chr3L:264401-264521 ( 12) CATCGATA 1 chr3R:11244099-11244219 ( 62) CATCGATA 1 chr3R:14741468-14741588 ( 109) CATCGATA 1 chrX:16968638-16968758 ( 12) CATCGATA 1 chr3L:12741681-12741801 ( 84) TATCGATA 1 chrX:16073463-16073583 ( 82) TATCGATA 1 chr2R:17412683-17412803 ( 64) TATCGATA 1 chr3L:19834276-19834396 ( 73) TATCGATA 1 chr2R:22548301-22548421 ( 16) TATCGCTA 1 chr3R:29869215-29869335 ( 100) CATCGCTA 1 chrX:5883516-5883636 ( 6) CATCGCTA 1 chr2L:19508729-19508849 ( 11) TATCGATG 1 chr2R:7955874-7955994 ( 8) CATCGATG 1 chrX:4609897-4610017 ( 12) CATCGATG 1 chr3L:7912035-7912155 ( 106) TGTCGATA 1 chr2L:10552923-10553043 ( 1) TGTCGATA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.6151 E= 1.4e+003 -1134 97 -1134 101 153 -1134 -123 -1134 -1134 -1134 -1134 162 -1134 250 -1134 -1134 -1134 -1134 247 -1134 147 -61 -1134 -1134 -1134 -1134 -1134 162 147 -1134 -64 -1134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 1.4e+003 0.000000 0.346154 0.000000 0.653846 0.923077 0.000000 0.076923 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.884615 0.115385 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.884615 0.000000 0.115385 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YATCGATA MEME-3 regular expression -------------------------------------------------------------------------------- [TC]ATCGATA -------------------------------------------------------------------------------- Time 19.99 secs. ******************************************************************************** ******************************************************************************** MOTIF STGCTGCC MEME-4 width = 8 sites = 15 llr = 149 E-value = 4.3e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :2:::::2 pos.-specific C 31:a::a6 probability G 71a::a:2 matrix T :6::a::: bits 2.5 ** ** 2.3 ** ** 2.0 ** ** 1.8 ** ** Relative 1.5 * ***** Entropy 1.3 * ***** (14.3 bits) 1.0 * ****** 0.8 * ****** 0.5 * ****** 0.3 ******** 0.0 -------- Multilevel GTGCTGCC consensus CA A sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:14780335-14780455 72 3.36e-06 ATCACGTTAC GTGCTGCC CTCTTAATTA chr2R:14302769-14302889 39 3.36e-06 CGATAGGATA GTGCTGCC AGACATAAAA chr2R:23725977-23726097 21 6.64e-06 TTTCGGCGCA CTGCTGCC GTCTCGCTCG chr3R:8233450-8233570 3 8.50e-06 CG GGGCTGCC AGCCATAATC chr2R:20832435-20832555 15 1.52e-05 AGTTAATTTT GTGCTGCG CGGTATATTT chr2R:17412683-17412803 3 1.52e-05 CA GAGCTGCC AACCCATGTT chr3L:3905290-3905410 1 1.52e-05 . GAGCTGCC ACACTGCTGA chr3L:1463794-1463914 1 1.71e-05 . CGGCTGCC TTGCCTTTCG chr2L:16302942-16303062 17 2.50e-05 ATAATATTCT GTGCTGCA TCAAAAATAT chr3L:10350868-10350988 88 2.50e-05 GATTATTTAA GTGCTGCA CATTTTTCGC chr3L:15095029-15095149 99 2.50e-05 TGCAAAGACA GTGCTGCA AGCCGGCCGA chrX:13757048-13757168 93 2.50e-05 GCCCTAAGGA GCGCTGCC ATACTGTGTT chr2R:14577769-14577889 76 3.15e-05 CTATATTGGC CTGCTGCG CCTATCGTTG chr2R:22511581-22511701 70 3.15e-05 GGAGCTGCAA CAGCTGCC TTGGCAGCCA chr2L:3888309-3888429 6 3.15e-05 TGTGT CTGCTGCG GGGCAAATGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:14780335-14780455 3.4e-06 71_[+4]_41 chr2R:14302769-14302889 3.4e-06 38_[+4]_74 chr2R:23725977-23726097 6.6e-06 20_[+4]_92 chr3R:8233450-8233570 8.5e-06 2_[+4]_110 chr2R:20832435-20832555 1.5e-05 14_[+4]_98 chr2R:17412683-17412803 1.5e-05 2_[+4]_110 chr3L:3905290-3905410 1.5e-05 [+4]_112 chr3L:1463794-1463914 1.7e-05 [+4]_112 chr2L:16302942-16303062 2.5e-05 16_[+4]_96 chr3L:10350868-10350988 2.5e-05 87_[+4]_25 chr3L:15095029-15095149 2.5e-05 98_[+4]_14 chrX:13757048-13757168 2.5e-05 92_[+4]_20 chr2R:14577769-14577889 3.2e-05 75_[+4]_37 chr2R:22511581-22511701 3.2e-05 69_[+4]_43 chr2L:3888309-3888429 3.2e-05 5_[+4]_107 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF STGCTGCC width=8 seqs=15 chr3L:14780335-14780455 ( 72) GTGCTGCC 1 chr2R:14302769-14302889 ( 39) GTGCTGCC 1 chr2R:23725977-23726097 ( 21) CTGCTGCC 1 chr3R:8233450-8233570 ( 3) GGGCTGCC 1 chr2R:20832435-20832555 ( 15) GTGCTGCG 1 chr2R:17412683-17412803 ( 3) GAGCTGCC 1 chr3L:3905290-3905410 ( 1) GAGCTGCC 1 chr3L:1463794-1463914 ( 1) CGGCTGCC 1 chr2L:16302942-16303062 ( 17) GTGCTGCA 1 chr3L:10350868-10350988 ( 88) GTGCTGCA 1 chr3L:15095029-15095149 ( 99) GTGCTGCA 1 chrX:13757048-13757168 ( 93) GCGCTGCC 1 chr2R:14577769-14577889 ( 76) CTGCTGCG 1 chr2R:22511581-22511701 ( 70) CAGCTGCC 1 chr2L:3888309-3888429 ( 6) CTGCTGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.8033 E= 4.3e+003 -1055 92 189 -1055 -67 -140 -43 89 -1055 -1055 247 -1055 -1055 250 -1055 -1055 -1055 -1055 -1055 162 -1055 -1055 247 -1055 -1055 250 -1055 -1055 -67 177 15 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 4.3e+003 0.000000 0.333333 0.666667 0.000000 0.200000 0.066667 0.133333 0.600000 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 1.000000 0.000000 0.000000 0.200000 0.600000 0.200000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STGCTGCC MEME-4 regular expression -------------------------------------------------------------------------------- [GC][TA]GCTGC[CAG] -------------------------------------------------------------------------------- Time 26.17 secs. ******************************************************************************** ******************************************************************************** MOTIF CCCGCTTC MEME-5 width = 8 sites = 4 llr = 51 E-value = 5.8e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C aaa:a::a probability G :::a:::: matrix T :::::aa: bits 2.5 ***** * 2.3 ***** * 2.0 ***** * 1.8 ***** * Relative 1.5 ******** Entropy 1.3 ******** (18.2 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCCGCTTC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:10388881-10389001 77 3.21e-06 AAATAAACAC CCCGCTTC GTAATGCCCT chr3R:6504576-6504696 86 3.21e-06 GCAGCGCTGA CCCGCTTC AGCAAATAAG chr2R:17545042-17545162 112 3.21e-06 GGTGGAAAAC CCCGCTTC C chr2R:17420000-17420120 87 3.21e-06 ATTTAAAAAC CCCGCTTC GGATTTAGCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:10388881-10389001 3.2e-06 76_[+5]_36 chr3R:6504576-6504696 3.2e-06 85_[+5]_27 chr2R:17545042-17545162 3.2e-06 111_[+5]_1 chr2R:17420000-17420120 3.2e-06 86_[+5]_26 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCCGCTTC width=8 seqs=4 chr3R:10388881-10389001 ( 77) CCCGCTTC 1 chr3R:6504576-6504696 ( 86) CCCGCTTC 1 chr2R:17545042-17545162 ( 112) CCCGCTTC 1 chr2R:17420000-17420120 ( 87) CCCGCTTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.7858 E= 5.8e+003 -865 250 -865 -865 -865 250 -865 -865 -865 250 -865 -865 -865 -865 247 -865 -865 250 -865 -865 -865 -865 -865 162 -865 -865 -865 162 -865 250 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 5.8e+003 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 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCGCTTC MEME-5 regular expression -------------------------------------------------------------------------------- CCCGCTTC -------------------------------------------------------------------------------- Time 32.34 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:19834276-19834396 2.39e-02 72_[+3(5.44e-05)]_40 chr3L:3905290-3905410 1.49e-02 [+4(1.52e-05)]_112 chrX:17473424-17473544 2.23e-01 120 chr3L:12045610-12045730 9.53e-03 120 chr3L:94221-94341 2.78e-01 120 chr2R:9546504-9546624 2.23e-01 120 chr3R:29083961-29084081 2.36e-01 120 chr2R:22661334-22661454 1.24e-01 120 chrX:20506067-20506187 7.61e-01 120 chr3R:28556555-28556675 1.45e-01 120 chrX:4609897-4610017 4.33e-03 120 chr2R:22387661-22387781 5.65e-02 112_[+1(5.24e-05)] chr2L:7150896-7151016 7.49e-01 120 chr2L:3888309-3888429 2.70e-03 5_[+4(3.15e-05)]_49_[+1(3.40e-05)]_\ 50 chr2R:6807563-6807683 2.30e-02 55_[+2(3.12e-05)]_57 chr3L:17993429-17993549 2.86e-02 38_[+1(3.40e-05)]_32_[+1(3.40e-05)]_\ 34 chr3L:9678098-9678218 4.83e-01 120 chrX:17582808-17582928 1.15e-01 120 chr3R:30802952-30803072 6.03e-01 120 chr2R:25183118-25183238 3.12e-01 120 chr3L:18357759-18357879 5.87e-01 120 chr4:1064408-1064528 6.48e-01 120 chrX:3157412-3157532 9.60e-01 120 chr3R:10598381-10598501 3.54e-01 120 chr2R:21535538-21535658 5.14e-02 74_[+2(5.95e-05)]_38 chr2R:7139411-7139531 8.91e-01 120 chr2R:8615290-8615410 1.74e-02 81_[+1(3.40e-05)]_31 chr3L:10847953-10848073 7.56e-01 120 chr3R:28904350-28904470 4.20e-01 120 chr2R:17586095-17586215 1.27e-02 120 chr2R:25085529-25085649 4.18e-01 120 chr2L:12372582-12372702 9.30e-01 120 chr3R:19491122-19491242 6.90e-03 120 chr3L:10899344-10899464 1.35e-01 120 chr3R:22668817-22668937 7.76e-01 120 chr3L:17404760-17404880 3.80e-02 120 chr2R:17412683-17412803 2.17e-05 2_[+4(1.52e-05)]_41_[+2(5.06e-06)]_\ 4_[+3(5.44e-05)]_49 chrX:8295145-8295265 1.00e+00 120 chr3R:18274463-18274583 7.95e-01 120 chr3L:4413246-4413366 3.58e-01 17_[+1(8.71e-05)]_95 chr2R:17420000-17420120 8.75e-03 86_[+5(3.21e-06)]_26 chr2R:24402781-24402901 2.46e-01 120 chr3R:26900131-26900251 8.94e-01 120 chr2R:9406849-9406969 9.87e-02 55_[+1(3.40e-05)]_57 chr2L:2494644-2494764 2.12e-01 120 chr3L:13929244-13929364 4.77e-01 120 chrX:9152175-9152295 6.51e-02 120 chr2R:10124227-10124347 8.98e-01 120 chr2L:7541458-7541578 1.00e+00 120 chr3L:10849703-10849823 9.48e-01 120 chr2R:18829722-18829842 8.19e-01 120 chr2R:11541226-11541346 2.86e-03 [+2(3.67e-05)]_1_[+1(5.24e-05)]_40_\ [+1(5.24e-05)]_55 chr2R:11651134-11651254 2.55e-01 120 chrX:16073463-16073583 2.97e-03 52_[+3(5.44e-05)]_21_[+3(5.44e-05)]_\ 31 chr2R:6652918-6653038 6.90e-01 120 chr2L:1655898-1656018 9.56e-01 120 chr2R:20126199-20126319 4.91e-01 120 chr3L:12741681-12741801 2.06e-01 83_[+3(5.44e-05)]_29 chr2R:7407864-7407984 2.88e-02 57_[+2(2.39e-05)]_55 chr3R:10648910-10649030 7.99e-01 120 chr2L:9763239-9763359 4.07e-01 120 chrX:3538880-3539000 8.42e-01 120 chr3R:19877560-19877680 9.67e-01 120 chr4:1218963-1219083 7.51e-01 120 chr2R:8067732-8067852 1.98e-01 120 chr2R:23725977-23726097 1.56e-02 20_[+4(6.64e-06)]_92 chr2R:18609040-18609160 1.03e-01 70_[+1(5.24e-05)]_42 chr3R:4975325-4975445 6.11e-01 120 chrX:16096609-16096729 4.72e-01 120 chrX:16968638-16968758 2.53e-02 11_[+3(5.44e-05)]_64_[+3(5.44e-05)]_\ 29 chr2R:7955874-7955994 1.28e-01 120 chr2L:8009448-8009568 7.47e-01 120 chr3L:21007878-21007998 1.63e-01 55_[+1(3.40e-05)]_57 chr3R:15351043-15351163 1.00e+00 120 chr3L:614870-614990 9.39e-03 110_[+2(2.07e-05)]_2 chr3L:14195886-14196006 9.61e-01 120 chr3L:1302771-1302891 4.34e-01 120 chr2R:15818661-15818781 7.12e-02 43_[+2(8.53e-05)]_69 chr2L:8488873-8488993 6.43e-02 92_[+1(5.24e-05)]_20 chr2L:8528534-8528654 3.19e-01 120 chrX:3136856-3136976 2.13e-01 120 chr2L:7890863-7890983 2.13e-01 120 chr2R:8127371-8127491 1.85e-01 120 chr2R:23697912-23698032 5.78e-02 6_[+2(5.06e-06)]_106 chr3R:15837228-15837348 7.57e-01 120 chr3R:6667404-6667524 9.78e-01 120 chr3L:14004094-14004214 4.48e-02 120 chr3R:30767233-30767353 2.31e-03 74_[+1(3.40e-05)]_38 chr2L:5800307-5800427 8.08e-01 120 chr3L:12414841-12414961 6.68e-01 120 chr2R:14494764-14494884 6.88e-05 10_[+2(3.12e-05)]_62_[+1(8.71e-05)]_\ 32 chr3R:4775441-4775561 6.56e-01 120 chr2L:8554366-8554486 9.70e-01 120 chrX:5883516-5883636 1.26e-03 5_[+3(8.44e-05)]_57_[+2(1.83e-06)]_\ 42 chr2R:22657110-22657230 5.33e-03 86_[+2(1.79e-05)]_26 chr2R:16178651-16178771 9.91e-01 120 chr2L:18590739-18590859 1.68e-01 120 chrX:13757048-13757168 1.38e-02 92_[+4(2.50e-05)]_20 chrX:8720333-8720453 8.72e-01 120 chr3R:14741468-14741588 6.03e-03 108_[+3(5.44e-05)]_4 chr3R:31704673-31704793 7.86e-01 120 chr3L:1177167-1177287 1.62e-01 120 chrX:656093-656213 8.06e-01 120 chr3R:20542423-20542543 9.96e-01 120 chr3R:31772017-31772137 2.44e-01 120 chr3R:21350132-21350252 1.71e-01 120 chr3L:15095029-15095149 2.28e-02 98_[+4(2.50e-05)]_14 chrX:9193766-9193886 4.14e-01 120 chr4:225996-226116 7.58e-01 120 chrX:7553500-7553620 4.40e-02 120 chr3L:18297540-18297660 9.92e-01 120 chr3L:1463794-1463914 1.46e-02 [+4(1.71e-05)]_112 chr2R:13450473-13450593 2.97e-04 43_[+2(5.06e-06)]_69 chr3R:26005959-26006079 8.06e-02 120 chr3R:29799503-29799623 9.95e-01 120 chr3R:11244099-11244219 2.15e-04 61_[+3(5.44e-05)]_16_[+2(8.63e-06)]_\ 27 chr3L:10350868-10350988 2.65e-02 87_[+4(2.50e-05)]_25 chr3L:6817071-6817191 1.16e-01 120 chrX:12631420-12631540 2.23e-01 105_[+4(9.16e-05)]_7 chr2L:2037615-2037735 9.48e-02 120 chr2L:10552923-10553043 7.53e-02 120 chrX:9352856-9352976 7.12e-01 120 chr2L:6700791-6700911 1.68e-01 120 chr2R:13968100-13968220 9.88e-01 120 chr2L:117901-118021 6.95e-03 120 chrX:22837479-22837599 1.28e-01 26_[+2(4.55e-05)]_86 chr3L:264401-264521 4.78e-02 11_[+3(5.44e-05)]_101 chr3R:29869215-29869335 9.67e-03 99_[+3(8.44e-05)]_13 chr3L:18349429-18349549 9.13e-01 120 chr2L:13445633-13445753 2.76e-01 120 chr3L:3305571-3305691 1.53e-02 10_[+1(5.24e-05)]_102 chr2R:15201357-15201477 9.93e-01 120 chr2R:14302769-14302889 2.32e-05 25_[+3(5.44e-05)]_5_[+4(3.36e-06)]_\ 74 chr3L:18204003-18204123 8.81e-01 120 chr3R:6345967-6346087 4.25e-01 87_[+1(8.71e-05)]_25 chr3R:26011653-26011773 2.73e-01 120 chr2L:10428644-10428764 7.09e-01 120 chr2R:24593700-24593820 2.09e-02 72_[+1(8.71e-05)]_40 chr3L:14956389-14956509 8.81e-02 120 chr3L:21484045-21484165 4.88e-02 120 chr3R:9701468-9701588 3.61e-02 120 chr2L:3852249-3852369 7.71e-01 120 chr2R:13926317-13926437 8.46e-01 120 chrX:17176697-17176817 8.89e-01 120 chr2L:7043205-7043325 3.75e-01 120 chr2L:7239456-7239576 6.25e-01 120 chr2R:22806936-22807056 3.87e-01 120 chr3R:6791423-6791543 6.70e-01 120 chr2R:9285100-9285220 8.91e-02 95_[+1(3.40e-05)]_17 chr3L:14780335-14780455 4.86e-05 49_[+1(3.40e-05)]_14_[+4(3.36e-06)]_\ 41 chr2L:9570841-9570961 4.10e-02 9_[+1(3.40e-05)]_103 chr2R:22511581-22511701 5.99e-04 14_[+2(2.07e-05)]_38_[+4(5.76e-05)]_\ 1_[+4(3.15e-05)]_43 chrX:2149676-2149796 2.53e-01 120 chr3R:15794503-15794623 5.35e-01 120 chr2L:20911533-20911653 9.03e-02 55_[+1(3.40e-05)]_57 chr3R:29859912-29860032 4.74e-01 120 chr3L:21130876-21130996 6.08e-02 108_[+1(3.40e-05)]_4 chr3L:7360289-7360409 3.82e-01 120 chr3R:22596630-22596750 6.89e-01 120 chr2L:11037882-11038002 9.88e-01 120 chrX:11108273-11108393 8.87e-01 120 chr3R:8978917-8979037 7.08e-01 120 chr2R:10142271-10142391 4.28e-01 120 chr3R:10168775-10168895 3.77e-01 120 chr3L:9859808-9859928 1.23e-02 48_[+3(5.44e-05)]_64 chrX:9356363-9356483 4.15e-01 120 chr3L:14708158-14708278 1.33e-01 71_[+1(8.71e-05)]_41 chr2R:7031185-7031305 8.30e-02 120 chr2L:21149219-21149339 6.66e-01 120 chr2L:73191-73311 9.65e-03 53_[+2(6.85e-06)]_59 chr2R:17545042-17545162 7.37e-03 111_[+5(3.21e-06)]_1 chr2R:24086523-24086643 8.22e-03 35_[+3(5.44e-05)]_16_[+3(5.44e-05)]_\ 53 chr3R:6504576-6504696 4.29e-04 85_[+5(3.21e-06)]_27 chr2L:15248755-15248875 8.29e-01 120 chr3L:21196713-21196833 1.10e-01 120 chr2L:11189230-11189350 5.97e-01 120 chr3L:10845249-10845369 7.43e-02 120 chr2L:3776104-3776224 9.23e-01 120 chr2R:9286624-9286744 1.90e-01 120 chr3R:8673905-8674025 8.34e-01 120 chr2R:13198336-13198456 2.55e-01 120 chrX:7617073-7617193 7.19e-01 120 chrX:4530010-4530130 1.98e-01 120 chr2L:18859317-18859437 8.53e-01 120 chr2L:1123494-1123614 1.09e-02 120 chr3R:26130698-26130818 2.32e-05 37_[+1(3.40e-05)]_64_[+2(1.79e-05)]_\ 3 chr3R:10388881-10389001 1.31e-04 76_[+5(3.21e-06)]_36 chr3L:20944335-20944455 1.51e-02 6_[+1(5.24e-05)]_15_[+1(5.24e-05)]_\ 5_[+1(5.24e-05)]_60_[+1(5.24e-05)]_2 chr3R:15089724-15089844 6.29e-01 120 chrX:11427615-11427735 1.91e-01 75_[+1(3.40e-05)]_37 chr3R:24917891-24918011 2.86e-01 65_[+1(3.40e-05)]_47 chr3R:5998412-5998532 3.24e-01 120 chr3R:6373881-6374001 3.07e-01 120 chrX:7728384-7728504 2.09e-02 11_[+3(5.44e-05)]_101 chr3R:26536154-26536274 4.38e-01 120 chr3R:19031324-19031444 9.11e-01 120 chr2L:16302942-16303062 1.18e-01 16_[+4(2.50e-05)]_96 chr3R:23919506-23919626 2.63e-01 120 chr2R:22548301-22548421 9.15e-03 15_[+3(8.44e-05)]_97 chr2R:14577769-14577889 1.89e-03 75_[+4(3.15e-05)]_37 chrX:7333321-7333441 9.03e-02 120 chr4:1031832-1031952 8.87e-04 26_[+2(3.67e-05)]_36_[+4(2.50e-05)]_\ 42 chr3L:1350733-1350853 1.02e-01 46_[+3(5.44e-05)]_66 chr3L:7151917-7152037 6.09e-01 120 chr2L:13073954-13074074 1.99e-01 120 chr3R:31169098-31169218 7.72e-02 120 chr3R:16991916-16992036 8.88e-01 120 chr3R:8233450-8233570 2.31e-03 2_[+4(8.50e-06)]_110 chr3L:11820079-11820199 8.32e-01 120 chr3R:19023970-19024090 9.41e-02 120 chr2L:19577299-19577419 1.13e-01 120 chr2L:9897467-9897587 5.41e-03 101_[+3(5.44e-05)]_11 chr2L:18822962-18823082 4.87e-02 65_[+1(3.40e-05)]_47 chr2L:2882999-2883119 3.18e-01 120 chr3L:15787476-15787596 8.80e-01 120 chr2L:6698516-6698636 8.19e-01 120 chr3R:8960512-8960632 9.93e-01 120 chr2R:12337653-12337773 6.08e-01 120 chr2R:20832435-20832555 2.99e-02 14_[+4(1.52e-05)]_98 chr2R:23940107-23940227 8.92e-01 120 chr2R:9881467-9881587 1.18e-01 120 chr2L:19453498-19453618 3.82e-02 38_[+3(5.44e-05)]_74 chr3L:9066221-9066341 7.38e-01 120 chr3L:10344170-10344290 9.73e-01 120 chr2L:3472382-3472502 5.39e-03 84_[+2(6.85e-06)]_28 chr3L:7912035-7912155 5.05e-02 120 chr2L:20649949-20650069 7.13e-01 120 chr3R:5368284-5368404 2.32e-01 120 chr2R:8951541-8951661 5.22e-01 120 chr2R:7776673-7776793 8.21e-02 86_[+1(8.71e-05)]_26 chr2L:1628229-1628349 9.44e-01 120 chr2L:1456379-1456499 7.27e-01 120 chr3L:3665445-3665565 8.10e-01 120 chr3L:11403666-11403786 9.65e-01 120 chr2L:3813455-3813575 1.93e-01 120 chr2R:23871567-23871687 4.14e-01 120 chr2R:23898291-23898411 6.30e-02 23_[+3(5.44e-05)]_89 chr2L:10339253-10339373 9.50e-01 120 chrX:17850372-17850492 2.35e-03 64_[+3(5.44e-05)]_38_[+1(3.40e-05)]_\ 2 chr3R:13403250-13403370 1.59e-01 90_[+3(5.44e-05)]_22 chr3L:16711571-16711691 3.53e-02 22_[+2(7.21e-05)]_90 chr3L:17476037-17476157 8.35e-01 120 chr2R:10559353-10559473 9.67e-01 120 chr2L:19508729-19508849 1.67e-05 62_[+2(1.83e-06)]_50 chrX:3431830-3431950 9.71e-01 120 chr3L:15588825-15588945 5.29e-02 120 chr2L:4440945-4441065 9.31e-01 120 chr2L:10522618-10522738 1.00e+00 120 chr3R:8308792-8308912 1.40e-03 28_[+4(6.75e-05)]_84 chr2L:6968241-6968361 5.87e-02 44_[+3(5.44e-05)]_68 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n12.farnam.hpc.yale.internal ********************************************************************************