******************************************************************************** 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/Chrac-16.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2L:5771317-5771437 1.0000 120 chr3L:13411165-13411285 1.0000 120 chr2R:15818632-15818752 1.0000 120 chr3R:23300760-23300880 1.0000 120 chr2L:12351098-12351218 1.0000 120 chr2R:20906663-20906783 1.0000 120 chrX:12015084-12015204 1.0000 120 chrX:7166438-7166558 1.0000 120 chr3R:31704638-31704758 1.0000 120 chr3R:16857141-16857261 1.0000 120 chr3R:21612992-21613112 1.0000 120 chr2R:20091315-20091435 1.0000 120 chr3L:16385970-16386090 1.0000 120 chr2L:1491990-1492110 1.0000 120 chr3L:13929255-13929375 1.0000 120 chr2L:11394262-11394382 1.0000 120 chr2L:21619216-21619336 1.0000 120 chr2R:14312298-14312418 1.0000 120 chr2L:11189215-11189335 1.0000 120 chrX:3108988-3109108 1.0000 120 chr3R:21993044-21993164 1.0000 120 chr2L:11091228-11091348 1.0000 120 chr2L:7494424-7494544 1.0000 120 chrX:19164866-19164986 1.0000 120 chr2L:838154-838274 1.0000 120 chr3R:14470784-14470904 1.0000 120 chr3L:3875155-3875275 1.0000 120 chr2L:11331810-11331930 1.0000 120 chr2L:493378-493498 1.0000 120 chrX:3367426-3367546 1.0000 120 chr3R:19339376-19339496 1.0000 120 chr2L:21263888-21264008 1.0000 120 chr2L:7635354-7635474 1.0000 120 chr3L:12336413-12336533 1.0000 120 chr3R:11806945-11807065 1.0000 120 chr3L:20630707-20630827 1.0000 120 chr2L:6540171-6540291 1.0000 120 chr2L:889977-890097 1.0000 120 chr3L:295208-295328 1.0000 120 chr3R:23303341-23303461 1.0000 120 chr2R:16800188-16800308 1.0000 120 chrX:5969965-5970085 1.0000 120 chrX:15594648-15594768 1.0000 120 chr3L:20771160-20771280 1.0000 120 chr2L:11417642-11417762 1.0000 120 chr3R:8171691-8171811 1.0000 120 chr2L:3587475-3587595 1.0000 120 chrX:5883534-5883654 1.0000 120 chrX:7162646-7162766 1.0000 120 chr2L:4055547-4055667 1.0000 120 chr2L:8554454-8554574 1.0000 120 chr2R:14411694-14411814 1.0000 120 chr3L:6817124-6817244 1.0000 120 chr2L:14160976-14161096 1.0000 120 chrX:5564070-5564190 1.0000 120 chr2L:18505634-18505754 1.0000 120 chr3L:21821827-21821947 1.0000 120 chrX:20507859-20507979 1.0000 120 chr2R:9660204-9660324 1.0000 120 chr3R:10628409-10628529 1.0000 120 chr3L:10899350-10899470 1.0000 120 chrX:7901720-7901840 1.0000 120 chr3R:31060350-31060470 1.0000 120 chr3L:1414168-1414288 1.0000 120 chr3L:19898925-19899045 1.0000 120 chr2R:12537624-12537744 1.0000 120 chrX:3068439-3068559 1.0000 120 chrX:10825501-10825621 1.0000 120 chrX:15653673-15653793 1.0000 120 chr3R:14589644-14589764 1.0000 120 chr2R:6668893-6669013 1.0000 120 chr2R:16202904-16203024 1.0000 120 chr4:980225-980345 1.0000 120 chr3R:16748701-16748821 1.0000 120 chrX:18517524-18517644 1.0000 120 chr3L:11552051-11552171 1.0000 120 chr2L:1145085-1145205 1.0000 120 chr3L:5857049-5857169 1.0000 120 chr2L:1462201-1462321 1.0000 120 chr3R:19164998-19165118 1.0000 120 chr3L:613674-613794 1.0000 120 chr3L:16768434-16768554 1.0000 120 chr3R:10641361-10641481 1.0000 120 chr2L:3776038-3776158 1.0000 120 chr2R:18209776-18209896 1.0000 120 chr2L:11338329-11338449 1.0000 120 chr3L:20517046-20517166 1.0000 120 chr3R:18393547-18393667 1.0000 120 chrX:12029118-12029238 1.0000 120 chr3R:11368881-11369001 1.0000 120 chr2L:19377519-19377639 1.0000 120 chr3R:18215465-18215585 1.0000 120 chr2R:12174595-12174715 1.0000 120 chr3L:745661-745781 1.0000 120 chr3R:10626188-10626308 1.0000 120 chr3R:21856541-21856661 1.0000 120 chrX:18635418-18635538 1.0000 120 chr2L:11950037-11950157 1.0000 120 chr3R:23293551-23293671 1.0000 120 chr2L:18900027-18900147 1.0000 120 chr2L:7270398-7270518 1.0000 120 chr3L:6264563-6264683 1.0000 120 chr3R:6818735-6818855 1.0000 120 chr3L:11429847-11429967 1.0000 120 chr2L:3861540-3861660 1.0000 120 chrX:17751833-17751953 1.0000 120 chr2R:13968062-13968182 1.0000 120 chr2R:25085517-25085637 1.0000 120 chr2L:3472397-3472517 1.0000 120 chr3L:16061025-16061145 1.0000 120 chr2R:12274356-12274476 1.0000 120 chr2R:9087727-9087847 1.0000 120 chrX:5639232-5639352 1.0000 120 chr3R:23345258-23345378 1.0000 120 chr3L:18349440-18349560 1.0000 120 chr3L:3450499-3450619 1.0000 120 chr3L:10845192-10845312 1.0000 120 chr3R:29522318-29522438 1.0000 120 chr3R:14357534-14357654 1.0000 120 chr3R:27440689-27440809 1.0000 120 chr3R:26542241-26542361 1.0000 120 chrX:7710940-7711060 1.0000 120 chrX:2123083-2123203 1.0000 120 chr2L:10856641-10856761 1.0000 120 chr3R:18242173-18242293 1.0000 120 chrX:7617076-7617196 1.0000 120 chr2L:8573028-8573148 1.0000 120 chr2L:11199215-11199335 1.0000 120 chr2R:23652377-23652497 1.0000 120 chr2L:827562-827682 1.0000 120 chr3R:23387104-23387224 1.0000 120 chr3L:5554525-5554645 1.0000 120 chr2L:15061492-15061612 1.0000 120 chr2L:7532796-7532916 1.0000 120 chr3R:15837203-15837323 1.0000 120 chr2L:9576780-9576900 1.0000 120 chrX:11548842-11548962 1.0000 120 chr3L:6981940-6982060 1.0000 120 chr3L:3855327-3855447 1.0000 120 chr2R:21535594-21535714 1.0000 120 chr3L:699420-699540 1.0000 120 chr2L:1428524-1428644 1.0000 120 chr2L:6907877-6907997 1.0000 120 chrX:9193767-9193887 1.0000 120 chr3R:26117716-26117836 1.0000 120 chr3R:16837943-16838063 1.0000 120 chr2R:11628159-11628279 1.0000 120 chr3R:16919194-16919314 1.0000 120 chr3L:21536969-21537089 1.0000 120 chr2L:3533246-3533366 1.0000 120 chr3L:8399227-8399347 1.0000 120 chr2L:7632894-7633014 1.0000 120 chr2L:14701575-14701695 1.0000 120 chr2R:12468443-12468563 1.0000 120 chr2L:4393987-4394107 1.0000 120 chr2L:4847341-4847461 1.0000 120 chr3L:5987751-5987871 1.0000 120 chr3R:9220173-9220293 1.0000 120 chr3L:4158521-4158641 1.0000 120 chr3L:18223613-18223733 1.0000 120 chr3R:5636865-5636985 1.0000 120 chr3R:30058070-30058190 1.0000 120 chr2L:15248678-15248798 1.0000 120 chr2L:3598612-3598732 1.0000 120 chr3L:12062977-12063097 1.0000 120 chrX:2536304-2536424 1.0000 120 chr3L:11993149-11993269 1.0000 120 chr3L:11334159-11334279 1.0000 120 chr3R:23028677-23028797 1.0000 120 chr2L:4887544-4887664 1.0000 120 chr2L:15629911-15630031 1.0000 120 chr3L:14612941-14613061 1.0000 120 chrX:2978213-2978333 1.0000 120 chr2R:20257459-20257579 1.0000 120 chr2R:11095252-11095372 1.0000 120 chr2R:9286640-9286760 1.0000 120 chr2R:20601183-20601303 1.0000 120 chr2L:21658570-21658690 1.0000 120 chr2R:18850623-18850743 1.0000 120 chr3R:5251038-5251158 1.0000 120 chr3R:31793764-31793884 1.0000 120 chrX:9356447-9356567 1.0000 120 chr2L:1629696-1629816 1.0000 120 chr3R:21200037-21200157 1.0000 120 chrX:12463119-12463239 1.0000 120 chr3L:1479431-1479551 1.0000 120 chrX:9664582-9664702 1.0000 120 chr2L:6797576-6797696 1.0000 120 chr2L:3566672-3566792 1.0000 120 chr3L:3852981-3853101 1.0000 120 chr2R:9971136-9971256 1.0000 120 chr3R:18274473-18274593 1.0000 120 chr2R:23554587-23554707 1.0000 120 chr2L:522917-523037 1.0000 120 chr2L:602469-602589 1.0000 120 chr3L:11074581-11074701 1.0000 120 chr3R:21151516-21151636 1.0000 120 chr2L:606338-606458 1.0000 120 chrX:19770237-19770357 1.0000 120 chr2R:15201327-15201447 1.0000 120 chr2L:16302929-16303049 1.0000 120 chr3L:18226111-18226231 1.0000 120 chr2R:13926305-13926425 1.0000 120 chrX:9652109-9652229 1.0000 120 chr2R:17461219-17461339 1.0000 120 chr2L:8528469-8528589 1.0000 120 chr2L:10356607-10356727 1.0000 120 chr3R:27677243-27677363 1.0000 120 chr3R:25004877-25004997 1.0000 120 chr2L:1729718-1729838 1.0000 120 chrX:8777203-8777323 1.0000 120 chr3R:16834789-16834909 1.0000 120 chr3L:9066166-9066286 1.0000 120 chrX:20394143-20394263 1.0000 120 chr3R:31064730-31064850 1.0000 120 chr3R:8960546-8960666 1.0000 120 chr3L:16021433-16021553 1.0000 120 chrX:7728345-7728465 1.0000 120 chr3R:16469728-16469848 1.0000 120 chr2R:18125806-18125926 1.0000 120 chr2R:23176749-23176869 1.0000 120 chr2L:1150682-1150802 1.0000 120 chr2L:9598573-9598693 1.0000 120 chr3L:15563036-15563156 1.0000 120 chr3R:24830072-24830192 1.0000 120 chr3L:12501406-12501526 1.0000 120 chr3L:3391990-3392110 1.0000 120 chr3R:23346946-23347066 1.0000 120 chr3R:19024020-19024140 1.0000 120 chr3R:17551225-17551345 1.0000 120 chr2R:11738677-11738797 1.0000 120 chr2L:18921418-18921538 1.0000 120 chr2L:19335260-19335380 1.0000 120 chrX:9349340-9349460 1.0000 120 chr2L:19867124-19867244 1.0000 120 chr2L:14519381-14519501 1.0000 120 chr2L:7258229-7258349 1.0000 120 chr3L:7151924-7152044 1.0000 120 chr3L:3384626-3384746 1.0000 120 chr3L:6743165-6743285 1.0000 120 chr3L:17912615-17912735 1.0000 120 chr2L:20649991-20650111 1.0000 120 chr3L:557445-557565 1.0000 120 chr2R:7254294-7254414 1.0000 120 chr2R:18676515-18676635 1.0000 120 chr2R:16691365-16691485 1.0000 120 chr3R:17943530-17943650 1.0000 120 chr2L:11037966-11038086 1.0000 120 chr3R:21937229-21937349 1.0000 120 chr3L:11350867-11350987 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_Chrac-16/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Chrac-16.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 0.34 C 0.163 G 0.164 T 0.332 Background letter frequencies (from file dataset with add-one prior applied): A 0.34 C 0.163 G 0.164 T 0.332 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GRTGGCGC MEME-1 width = 8 sites = 36 llr = 357 E-value = 5.1e-022 ******************************************************************************** -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :5:::::1 pos.-specific C :11::9:8 probability G a31991a: matrix T :18:1::1 bits 2.6 * 2.4 * ** 2.1 * **** 1.8 * **** Relative 1.6 * ***** Entropy 1.3 * ***** (14.3 bits) 1.0 * ***** 0.8 * ****** 0.5 * ****** 0.3 ******** 0.0 -------- Multilevel GATGGCGC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:21535594-21535714 9 1.05e-06 TTACGCTA GGTGGCGC TTGGCAGGAC chr2L:9576780-9576900 96 1.05e-06 TTTTTAACTA GGTGGCGC AGGAGATCAT chrX:18635418-18635538 77 1.05e-06 TTCTCTCCTA GGTGGCGC TTTATTACTA chr3R:21856541-21856661 60 1.05e-06 AGTTTTGAGA GGTGGCGC GAGTAGGGAA chr2R:16800188-16800308 103 1.05e-06 ATTTCGTATA GGTGGCGC CACTTAAACT chr2L:1491990-1492110 46 1.05e-06 CTTCCGCCTA GGTGGCGC TTCTATCAGC chrX:7710940-7711060 73 3.22e-06 TTAATCCATA GATGGCGC CAGATGTTTC chr2R:12274356-12274476 51 3.22e-06 ATTGCCGAAA GATGGCGC CCATGGCGCA chr2L:3472397-3472517 67 3.22e-06 TGCCTGTGCA GATGGCGC CACCATGACG chr3R:16748701-16748821 31 3.22e-06 CGAATCCATA GATGGCGC ATGCAACTCA chr2L:14160976-14161096 63 3.22e-06 CTCACACAGA GATGGCGC CAACACTTAA chr2R:20906663-20906783 91 3.22e-06 ACCAACGGTA GATGGCGC CAGTGCAACA chr2R:23652377-23652497 6 4.26e-06 AGAGT GCTGGCGC CATCCAGCTT chrX:15594648-15594768 41 4.26e-06 TACCCGCCTA GCTGGCGC TTTTGTGCTA chr3L:557445-557565 28 7.42e-06 ATTTGACGAC GACGGCGC CAAACTTCTC chrX:17751833-17751953 94 7.42e-06 TTCAAGAGTA GAGGGCGC CGCTTACTTT chrX:18517524-18517644 89 7.42e-06 CAACGTTCCA GACGGCGC CCTCTGGCGG chr3L:10899350-10899470 89 7.42e-06 ATAGCCGCTG GAGGGCGC TCATGTATAT chr2R:20601183-20601303 25 9.54e-06 CACGTTCTTT GTTGGCGC CTAAAAATGC chrX:20507859-20507979 63 1.63e-05 GAGGAGGTGA GATGGCGA GAAAGGTTTA chrX:7162646-7162766 88 1.63e-05 TTGGCCCATA GATGGCGA CAGTATGCTT chr3R:19024020-19024140 7 1.73e-05 ACAGCT GGTGGGGC AGAGTTGCCA chr2L:6797576-6797696 85 2.04e-05 TACGCCGCTA GGTGTCGC TTAGTTAAAA chrX:15653673-15653793 82 2.04e-05 AACAGCCACA GGTGTCGC TACTGAGCAA chrX:10825501-10825621 17 2.26e-05 GCGATTTTGA GATGGGGC TAAACAAGCA chr3R:16919194-16919314 82 3.02e-05 ACCAACACAA GATGTCGC TCTCCGACAG chr3R:9220173-9220293 15 3.13e-05 TAGAAAAAAT CGTGGCGC AGAGATGATC chr2R:11628159-11628279 20 4.00e-05 AACAAATTTT GAAGGCGC GCCAAGCGGA chrX:2123083-2123203 111 4.00e-05 TGTGCGTCGC GTCGGCGC TT chrX:5883534-5883654 80 4.00e-05 TAGTTCGCTA GATGGCGT CTTGCTAACG chr2L:5771317-5771437 68 4.00e-05 CTTTACGGTA GATGGCGT TATTCAAAGG chr3R:31060350-31060470 81 4.43e-05 CACTTCCTCT GCTGGCGA CGCTGCTTTT chr2L:1150682-1150802 19 5.08e-05 TTTGCAGTAG GGTAGCGC AATAAACTTA chr2L:3533246-3533366 36 5.08e-05 TTATTTTAAT GGTTGCGC TTGGCTAATC chr2L:18921418-18921538 94 5.63e-05 ACTCTTATTT GAGGGCGA AATTATTTCA chrX:12029118-12029238 36 7.27e-05 TTTCCCCGAC GTTGGCGA AGATCGATGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:21535594-21535714 1e-06 8_[+1]_104 chr2L:9576780-9576900 1e-06 95_[+1]_17 chrX:18635418-18635538 1e-06 76_[+1]_36 chr3R:21856541-21856661 1e-06 59_[+1]_53 chr2R:16800188-16800308 1e-06 102_[+1]_10 chr2L:1491990-1492110 1e-06 45_[+1]_67 chrX:7710940-7711060 3.2e-06 72_[+1]_40 chr2R:12274356-12274476 3.2e-06 50_[+1]_62 chr2L:3472397-3472517 3.2e-06 66_[+1]_46 chr3R:16748701-16748821 3.2e-06 30_[+1]_82 chr2L:14160976-14161096 3.2e-06 62_[+1]_50 chr2R:20906663-20906783 3.2e-06 90_[+1]_22 chr2R:23652377-23652497 4.3e-06 5_[+1]_107 chrX:15594648-15594768 4.3e-06 40_[+1]_72 chr3L:557445-557565 7.4e-06 27_[+1]_85 chrX:17751833-17751953 7.4e-06 93_[+1]_19 chrX:18517524-18517644 7.4e-06 88_[+1]_24 chr3L:10899350-10899470 7.4e-06 88_[+1]_24 chr2R:20601183-20601303 9.5e-06 24_[+1]_88 chrX:20507859-20507979 1.6e-05 62_[+1]_50 chrX:7162646-7162766 1.6e-05 87_[+1]_25 chr3R:19024020-19024140 1.7e-05 6_[+1]_106 chr2L:6797576-6797696 2e-05 84_[+1]_28 chrX:15653673-15653793 2e-05 81_[+1]_31 chrX:10825501-10825621 2.3e-05 16_[+1]_96 chr3R:16919194-16919314 3e-05 81_[+1]_31 chr3R:9220173-9220293 3.1e-05 14_[+1]_98 chr2R:11628159-11628279 4e-05 19_[+1]_93 chrX:2123083-2123203 4e-05 110_[+1]_2 chrX:5883534-5883654 4e-05 79_[+1]_33 chr2L:5771317-5771437 4e-05 67_[+1]_45 chr3R:31060350-31060470 4.4e-05 80_[+1]_32 chr2L:1150682-1150802 5.1e-05 18_[+1]_94 chr2L:3533246-3533366 5.1e-05 35_[+1]_77 chr2L:18921418-18921538 5.6e-05 93_[+1]_19 chrX:12029118-12029238 7.3e-05 35_[+1]_77 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GRTGGCGC width=8 seqs=36 chr2R:21535594-21535714 ( 9) GGTGGCGC 1 chr2L:9576780-9576900 ( 96) GGTGGCGC 1 chrX:18635418-18635538 ( 77) GGTGGCGC 1 chr3R:21856541-21856661 ( 60) GGTGGCGC 1 chr2R:16800188-16800308 ( 103) GGTGGCGC 1 chr2L:1491990-1492110 ( 46) GGTGGCGC 1 chrX:7710940-7711060 ( 73) GATGGCGC 1 chr2R:12274356-12274476 ( 51) GATGGCGC 1 chr2L:3472397-3472517 ( 67) GATGGCGC 1 chr3R:16748701-16748821 ( 31) GATGGCGC 1 chr2L:14160976-14161096 ( 63) GATGGCGC 1 chr2R:20906663-20906783 ( 91) GATGGCGC 1 chr2R:23652377-23652497 ( 6) GCTGGCGC 1 chrX:15594648-15594768 ( 41) GCTGGCGC 1 chr3L:557445-557565 ( 28) GACGGCGC 1 chrX:17751833-17751953 ( 94) GAGGGCGC 1 chrX:18517524-18517644 ( 89) GACGGCGC 1 chr3L:10899350-10899470 ( 89) GAGGGCGC 1 chr2R:20601183-20601303 ( 25) GTTGGCGC 1 chrX:20507859-20507979 ( 63) GATGGCGA 1 chrX:7162646-7162766 ( 88) GATGGCGA 1 chr3R:19024020-19024140 ( 7) GGTGGGGC 1 chr2L:6797576-6797696 ( 85) GGTGTCGC 1 chrX:15653673-15653793 ( 82) GGTGTCGC 1 chrX:10825501-10825621 ( 17) GATGGGGC 1 chr3R:16919194-16919314 ( 82) GATGTCGC 1 chr3R:9220173-9220293 ( 15) CGTGGCGC 1 chr2R:11628159-11628279 ( 20) GAAGGCGC 1 chrX:2123083-2123203 ( 111) GTCGGCGC 1 chrX:5883534-5883654 ( 80) GATGGCGT 1 chr2L:5771317-5771437 ( 68) GATGGCGT 1 chr3R:31060350-31060470 ( 81) GCTGGCGA 1 chr2L:1150682-1150802 ( 19) GGTAGCGC 1 chr2L:3533246-3533366 ( 36) GGTTGCGC 1 chr2L:18921418-18921538 ( 94) GAGGGCGA 1 chrX:12029118-12029238 ( 36) GTTGGCGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.648 E= 5.1e-022 -1181 -255 256 -1181 56 -97 102 -199 -361 -97 -98 128 -361 -1181 252 -358 -1181 -1181 248 -199 -1181 253 -156 -1181 -1181 -1181 260 -1181 -129 230 -1181 -258 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 36 E= 5.1e-022 0.000000 0.027778 0.972222 0.000000 0.500000 0.083333 0.333333 0.083333 0.027778 0.083333 0.083333 0.805556 0.027778 0.000000 0.944444 0.027778 0.000000 0.000000 0.916667 0.083333 0.000000 0.944444 0.055556 0.000000 0.000000 0.000000 1.000000 0.000000 0.138889 0.805556 0.000000 0.055556 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 regular expression -------------------------------------------------------------------------------- G[AG]TGGCGC -------------------------------------------------------------------------------- Time 7.52 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGCCAYC MEME-2 width = 8 sites = 19 llr = 220 E-value = 9.1e-015 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::2:8:: pos.-specific C 1a:8a24a probability G 9:a::::: matrix T ::::::6: bits 2.6 ** * * 2.4 *** * * 2.1 *** * * 1.8 ***** * Relative 1.6 ***** * Entropy 1.3 ***** * (16.7 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCGCCATC consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:1479431-1479551 7 1.05e-06 ATAGGA GCGCCACC TATAAATGTA chr3R:16919194-16919314 31 1.05e-06 CCGCCTTGCA GCGCCACC TGGCCTTGGT chr2R:23652377-23652497 49 1.05e-06 AATAGGAACA GCGCCACC TGCTTGCGAA chr2R:12274356-12274476 80 1.05e-06 TAAGGTCAGC GCGCCACC TGGCGACGGC chrX:7901720-7901840 78 1.05e-06 AATATCGTTT GCGCCACC ATCCCTGGTC chr2R:16800188-16800308 32 1.05e-06 AACTGAACTA GCGCCACC TGAGACTGCA chr2R:15818632-15818752 62 1.05e-06 CACAAATGCA GCGCCACC TATGCGGGCA chr2L:7258229-7258349 84 3.20e-06 AGCGCCCAGT GCGCCATC TAGCAGAACT chr3R:16834789-16834909 79 3.20e-06 GAGCACATTG GCGCCATC TGTATTCCGT chr2L:602469-602589 2 3.20e-06 G GCGCCATC TGTTGTTCCC chr2R:25085517-25085637 56 3.20e-06 AAAGTTGAGT GCGCCATC TTTTGCTTGA chr3L:6264563-6264683 42 3.20e-06 AGATTTACTG GCGCCATC TAGGGCCTTA chr3L:10899350-10899470 32 4.73e-06 TGTTGTAGTG GCGCCCTC TTTTGTTTTT chr3R:16857141-16857261 61 4.73e-06 AAACAACACA GCGCCCTC TTTTGCGCTA chr2L:5771317-5771437 28 4.73e-06 TTCTACAGCA GCGCCCTC TCACAGATTT chrX:15653673-15653793 25 6.92e-06 AACGGCAAGA GCGACACC TATCGTCAGT chr2R:20906663-20906783 20 1.24e-05 ACACATTGCA GCGACATC TATCGTCAAA chr3L:13411165-13411285 39 1.24e-05 AACGTTTGCA GCGACATC TAGTGGTGGT chr3R:16748701-16748821 52 1.46e-05 CAACTCAGTG CCGCCATC TGACGTAAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:1479431-1479551 1.1e-06 6_[+2]_106 chr3R:16919194-16919314 1.1e-06 30_[+2]_82 chr2R:23652377-23652497 1.1e-06 48_[+2]_64 chr2R:12274356-12274476 1.1e-06 79_[+2]_33 chrX:7901720-7901840 1.1e-06 77_[+2]_35 chr2R:16800188-16800308 1.1e-06 31_[+2]_81 chr2R:15818632-15818752 1.1e-06 61_[+2]_51 chr2L:7258229-7258349 3.2e-06 83_[+2]_29 chr3R:16834789-16834909 3.2e-06 78_[+2]_34 chr2L:602469-602589 3.2e-06 1_[+2]_111 chr2R:25085517-25085637 3.2e-06 55_[+2]_57 chr3L:6264563-6264683 3.2e-06 41_[+2]_71 chr3L:10899350-10899470 4.7e-06 31_[+2]_81 chr3R:16857141-16857261 4.7e-06 60_[+2]_52 chr2L:5771317-5771437 4.7e-06 27_[+2]_85 chrX:15653673-15653793 6.9e-06 24_[+2]_88 chr2R:20906663-20906783 1.2e-05 19_[+2]_93 chr3L:13411165-13411285 1.2e-05 38_[+2]_74 chr3R:16748701-16748821 1.5e-05 51_[+2]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGCCAYC width=8 seqs=19 chr3L:1479431-1479551 ( 7) GCGCCACC 1 chr3R:16919194-16919314 ( 31) GCGCCACC 1 chr2R:23652377-23652497 ( 49) GCGCCACC 1 chr2R:12274356-12274476 ( 80) GCGCCACC 1 chrX:7901720-7901840 ( 78) GCGCCACC 1 chr2R:16800188-16800308 ( 32) GCGCCACC 1 chr2R:15818632-15818752 ( 62) GCGCCACC 1 chr2L:7258229-7258349 ( 84) GCGCCATC 1 chr3R:16834789-16834909 ( 79) GCGCCATC 1 chr2L:602469-602589 ( 2) GCGCCATC 1 chr2R:25085517-25085637 ( 56) GCGCCATC 1 chr3L:6264563-6264683 ( 42) GCGCCATC 1 chr3L:10899350-10899470 ( 32) GCGCCCTC 1 chr3R:16857141-16857261 ( 61) GCGCCCTC 1 chr2L:5771317-5771437 ( 28) GCGCCCTC 1 chrX:15653673-15653793 ( 25) GCGACACC 1 chr2R:20906663-20906783 ( 20) GCGACATC 1 chr3L:13411165-13411285 ( 39) GCGACATC 1 chr3R:16748701-16748821 ( 52) CCGCCATC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.9783 E= 9.1e-015 -1089 -163 253 -1089 -1089 261 -1089 -1089 -1089 -1089 260 -1089 -111 237 -1089 -1089 -1089 261 -1089 -1089 131 -5 -1089 -1089 -1089 137 -1089 80 -1089 261 -1089 -1089 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 9.1e-015 0.000000 0.052632 0.947368 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.157895 0.842105 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.842105 0.157895 0.000000 0.000000 0.000000 0.421053 0.000000 0.578947 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCCAYC MEME-2 regular expression -------------------------------------------------------------------------------- GCGCCA[TC]C -------------------------------------------------------------------------------- Time 13.77 secs. ******************************************************************************** ******************************************************************************** MOTIF RGCWGCAC MEME-3 width = 8 sites = 32 llr = 276 E-value = 9.2e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 Description -------------------------------------------------------------------------------- Simplified A 3::41:a: pos.-specific C ::a::9:7 probability G 57:191:3 matrix T 23:5:::: bits 2.6 * 2.4 * * 2.1 * ** 1.8 * ** * Relative 1.6 ** ** * Entropy 1.3 ** **** (12.4 bits) 1.0 ** **** 0.8 ** **** 0.5 *** **** 0.3 ******** 0.0 -------- Multilevel GGCTGCAC consensus AT A G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:18125806-18125926 46 2.16e-06 GAAGCGCCAG GGCTGCAC AATAGTCGAT chr2L:14701575-14701695 37 2.16e-06 GCTAACTCTT GGCTGCAC TGAGAAAAAT chr3L:21536969-21537089 75 4.36e-06 CGATAGTTCA GGCAGCAC AGCACCTGGC chr2R:16202904-16203024 105 4.36e-06 GCTAAAAGTT GGCAGCAC GGCCAGGG chr2L:9598573-9598693 24 6.53e-06 ATGTTTATAA GGCTGCAG AGCATGAACA chr3R:23028677-23028797 15 1.32e-05 GAAAAAAATT AGCTGCAC ACAGAAGATT chrX:18635418-18635538 48 1.32e-05 ATGGCGCATA AGCTGCAC ACCTAGACAC chrX:5883534-5883654 53 1.89e-05 TCCGCCAGAT GGCGGCAC AGCATGAAAT chr2R:11628159-11628279 75 2.32e-05 CCAGGGGCGC TGCTGCAC ACAAAATAAC chr3L:12501406-12501526 106 3.21e-05 TTTGGCAGCT TGCAGCAC TGGTTTA chr2L:19335260-19335380 71 4.10e-05 TTCACAGTGC AGCTGCAG CGCTGGCAAA chr3R:23346946-23347066 83 4.10e-05 AATGTGGGAA AGCTGCAG CTTGGGAAAA chr3L:8399227-8399347 37 4.10e-05 ACCGATTTCG GTCAGCAC TCGCTTTGCT chrX:2123083-2123203 29 4.10e-05 ATCACTTATA GTCAGCAC CGATTTGCAT chr2L:11950037-11950157 11 4.10e-05 GGGAAAAAAG AGCTGCAG ATGATGCAAT chr2R:12274356-12274476 19 4.56e-05 agaagcaaga agcagcag cagCATCCAC chr2L:4887544-4887664 27 5.11e-05 AAAAGGCATG TGCTGCAG AAAAACTACT chr3R:21856541-21856661 44 6.22e-05 CACTTTTAAC TGCAGCAG TTTTGAGAGG chr3R:16834789-16834909 44 7.10e-05 TCTGTTAGCC GTCAGCAG AAGCGATTGA chr3R:5251038-5251158 62 7.10e-05 CAGCCACTGA GGCTGGAC AGTTGACATC chr2L:8573028-8573148 26 7.10e-05 TGGTAAAAGA GTCAGCAG AGTAACAAAA chr3L:3852981-3853101 91 8.01e-05 CCATATTGAT ATCTGCAC AGTTGACATT chr3L:16385970-16386090 53 8.01e-05 TTGGCTAACG ATCTGCAC TACAACTTAT chr2R:21535594-21535714 19 8.45e-05 GGTGGCGCTT GGCAGGAC TGTGTAAGAT chr3R:18393547-18393667 23 8.45e-05 ATAAACAAGT CGCAGCAC TGAGGGAAAT chr3L:6743165-6743285 47 9.59e-05 TCACTAGAGA TGCGGCAC TCGGGGCAAA chrX:7728345-7728465 67 9.59e-05 TAGTGCACGT ATCAGCAC GGCTTGTAAT chr3R:26117716-26117836 24 1.09e-04 TTTATCTCCC TTCTGCAC ACTAGCCTAA chr2L:11338329-11338449 3 1.16e-04 GT GGCTACAC TGGAAGAAAA chr2L:15629911-15630031 14 1.45e-04 CGCTTATCTT ATCTGCAG TGGAAGTGTA chr3L:10845192-10845312 78 1.45e-04 TCGATGGCAG GGCAACAC TTGCGCTGTT chr3L:12336413-12336533 52 1.45e-04 ATTAACAGAT GGCAGCTC AGCTACTGCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:18125806-18125926 2.2e-06 45_[+3]_67 chr2L:14701575-14701695 2.2e-06 36_[+3]_76 chr3L:21536969-21537089 4.4e-06 74_[+3]_38 chr2R:16202904-16203024 4.4e-06 104_[+3]_8 chr2L:9598573-9598693 6.5e-06 23_[+3]_89 chr3R:23028677-23028797 1.3e-05 14_[+3]_98 chrX:18635418-18635538 1.3e-05 47_[+3]_65 chrX:5883534-5883654 1.9e-05 52_[+3]_60 chr2R:11628159-11628279 2.3e-05 74_[+3]_38 chr3L:12501406-12501526 3.2e-05 105_[+3]_7 chr2L:19335260-19335380 4.1e-05 70_[+3]_42 chr3R:23346946-23347066 4.1e-05 82_[+3]_30 chr3L:8399227-8399347 4.1e-05 36_[+3]_76 chrX:2123083-2123203 4.1e-05 28_[+3]_84 chr2L:11950037-11950157 4.1e-05 10_[+3]_102 chr2R:12274356-12274476 4.6e-05 18_[+3]_94 chr2L:4887544-4887664 5.1e-05 26_[+3]_86 chr3R:21856541-21856661 6.2e-05 43_[+3]_69 chr3R:16834789-16834909 7.1e-05 43_[+3]_69 chr3R:5251038-5251158 7.1e-05 61_[+3]_51 chr2L:8573028-8573148 7.1e-05 25_[+3]_87 chr3L:3852981-3853101 8e-05 90_[+3]_22 chr3L:16385970-16386090 8e-05 52_[+3]_60 chr2R:21535594-21535714 8.4e-05 18_[+3]_94 chr3R:18393547-18393667 8.4e-05 22_[+3]_90 chr3L:6743165-6743285 9.6e-05 46_[+3]_66 chrX:7728345-7728465 9.6e-05 66_[+3]_46 chr3R:26117716-26117836 0.00011 23_[+3]_89 chr2L:11338329-11338449 0.00012 2_[+3]_110 chr2L:15629911-15630031 0.00014 13_[+3]_99 chr3L:10845192-10845312 0.00014 77_[+3]_35 chr3L:12336413-12336533 0.00014 51_[+3]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RGCWGCAC width=8 seqs=32 chr2R:18125806-18125926 ( 46) GGCTGCAC 1 chr2L:14701575-14701695 ( 37) GGCTGCAC 1 chr3L:21536969-21537089 ( 75) GGCAGCAC 1 chr2R:16202904-16203024 ( 105) GGCAGCAC 1 chr2L:9598573-9598693 ( 24) GGCTGCAG 1 chr3R:23028677-23028797 ( 15) AGCTGCAC 1 chrX:18635418-18635538 ( 48) AGCTGCAC 1 chrX:5883534-5883654 ( 53) GGCGGCAC 1 chr2R:11628159-11628279 ( 75) TGCTGCAC 1 chr3L:12501406-12501526 ( 106) TGCAGCAC 1 chr2L:19335260-19335380 ( 71) AGCTGCAG 1 chr3R:23346946-23347066 ( 83) AGCTGCAG 1 chr3L:8399227-8399347 ( 37) GTCAGCAC 1 chrX:2123083-2123203 ( 29) GTCAGCAC 1 chr2L:11950037-11950157 ( 11) AGCTGCAG 1 chr2R:12274356-12274476 ( 19) AGCAGCAG 1 chr2L:4887544-4887664 ( 27) TGCTGCAG 1 chr3R:21856541-21856661 ( 44) TGCAGCAG 1 chr3R:16834789-16834909 ( 44) GTCAGCAG 1 chr3R:5251038-5251158 ( 62) GGCTGGAC 1 chr2L:8573028-8573148 ( 26) GTCAGCAG 1 chr3L:3852981-3853101 ( 91) ATCTGCAC 1 chr3L:16385970-16386090 ( 53) ATCTGCAC 1 chr2R:21535594-21535714 ( 19) GGCAGGAC 1 chr3R:18393547-18393667 ( 23) CGCAGCAC 1 chr3L:6743165-6743285 ( 47) TGCGGCAC 1 chrX:7728345-7728465 ( 67) ATCAGCAC 1 chr3R:26117716-26117836 ( 24) TTCTGCAC 1 chr2L:11338329-11338449 ( 3) GGCTACAC 1 chr2L:15629911-15630031 ( 14) ATCTGCAG 1 chr3L:10845192-10845312 ( 78) GGCAACAC 1 chr3L:12336413-12336533 ( 52) GGCAGCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5219 E= 9.2e+001 -12 -238 151 -82 -1164 -1164 213 -24 -1164 261 -1164 -1164 36 -1164 -139 59 -244 -1164 251 -1164 -1164 252 -139 -1164 151 -1164 -1164 -341 -1164 207 93 -1164 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 9.2e+001 0.312500 0.031250 0.468750 0.187500 0.000000 0.000000 0.718750 0.281250 0.000000 1.000000 0.000000 0.000000 0.437500 0.000000 0.062500 0.500000 0.062500 0.000000 0.937500 0.000000 0.000000 0.937500 0.062500 0.000000 0.968750 0.000000 0.000000 0.031250 0.000000 0.687500 0.312500 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGCWGCAC MEME-3 regular expression -------------------------------------------------------------------------------- [GA][GT]C[TA]GCA[CG] -------------------------------------------------------------------------------- Time 19.99 secs. ******************************************************************************** ******************************************************************************** MOTIF GGSCAGGG MEME-4 width = 8 sites = 7 llr = 78 E-value = 2.2e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::1:6::: pos.-specific C 1:6a:::1 probability G 9a3:3aa9 matrix T ::::1::: bits 2.6 * * ** 2.4 * * ** 2.1 ** * *** 1.8 ** * *** Relative 1.6 ** * *** Entropy 1.3 ** * *** (16.0 bits) 1.0 **** *** 0.8 **** *** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GGCCAGGG consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:16202904-16203024 113 1.59e-06 TTGGCAGCAC GGCCAGGG chrX:7162646-7162766 58 1.59e-06 GCCACCTGTT GGCCGGGG CAGTTTCAGC chr2L:15248678-15248798 35 3.19e-06 AAAATGTTTT GGGCAGGG TATATAATAA chr2R:11628159-11628279 63 7.39e-06 CGAAAACCGC CGCCAGGG GCGCTGCTGC chr2R:20906663-20906783 65 7.39e-06 TTCCAGGAAC GGCCGGGC TCATCGTTAC chr2L:1145085-1145205 55 1.18e-05 ACAAGCAGAC GGACAGGG TCAGTTTGTT chrX:20507859-20507979 20 1.18e-05 CTGAGAGAAA GGGCTGGG CCACTTTACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:16202904-16203024 1.6e-06 112_[+4] chrX:7162646-7162766 1.6e-06 57_[+4]_55 chr2L:15248678-15248798 3.2e-06 34_[+4]_78 chr2R:11628159-11628279 7.4e-06 62_[+4]_50 chr2R:20906663-20906783 7.4e-06 64_[+4]_48 chr2L:1145085-1145205 1.2e-05 54_[+4]_58 chrX:20507859-20507979 1.2e-05 19_[+4]_93 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGSCAGGG width=8 seqs=7 chr2R:16202904-16203024 ( 113) GGCCAGGG 1 chrX:7162646-7162766 ( 58) GGCCGGGG 1 chr2L:15248678-15248798 ( 35) GGGCAGGG 1 chr2R:11628159-11628279 ( 63) CGCCAGGG 1 chr2R:20906663-20906783 ( 65) GGCCGGGC 1 chr2L:1145085-1145205 ( 55) GGACAGGG 1 chrX:20507859-20507979 ( 20) GGGCTGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.2008 E= 2.2e+004 -945 -19 238 -945 -945 -945 260 -945 -125 181 80 -945 -945 261 -945 -945 75 -945 80 -121 -945 -945 260 -945 -945 -945 260 -945 -945 -19 238 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 2.2e+004 0.000000 0.142857 0.857143 0.000000 0.000000 0.000000 1.000000 0.000000 0.142857 0.571429 0.285714 0.000000 0.000000 1.000000 0.000000 0.000000 0.571429 0.000000 0.285714 0.142857 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.142857 0.857143 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGSCAGGG MEME-4 regular expression -------------------------------------------------------------------------------- GG[CG]C[AG]GGG -------------------------------------------------------------------------------- Time 26.14 secs. ******************************************************************************** ******************************************************************************** MOTIF CSCCAGCC MEME-5 width = 8 sites = 4 llr = 50 E-value = 3.2e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::a::: pos.-specific C a5aa::a8 probability G :5:::a:3 matrix T :::::::: bits 2.6 * ** ** 2.4 * ** ** 2.1 * ** ** 1.8 * ** *** Relative 1.6 ******** Entropy 1.3 ******** (18.0 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CCCCAGCC consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:557445-557565 46 2.10e-06 CAAACTTCTC CCCCAGCC CACTCGACGA chr3L:6743165-6743285 20 2.10e-06 TTCGTCAACA CGCCAGCC ATCGATGGTT chr2L:3472397-3472517 37 2.10e-06 TCACGCCAAT CCCCAGCC CAGTTCAAAG chr2R:16202904-16203024 7 4.21e-06 AAATAC CGCCAGCG ATCAGTGTTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:557445-557565 2.1e-06 45_[+5]_67 chr3L:6743165-6743285 2.1e-06 19_[+5]_93 chr2L:3472397-3472517 2.1e-06 36_[+5]_76 chr2R:16202904-16203024 4.2e-06 6_[+5]_106 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CSCCAGCC width=8 seqs=4 chr3L:557445-557565 ( 46) CCCCAGCC 1 chr3L:6743165-6743285 ( 20) CGCCAGCC 1 chr2L:3472397-3472517 ( 37) CCCCAGCC 1 chr2R:16202904-16203024 ( 7) CGCCAGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.5228 E= 3.2e+003 -865 261 -865 -865 -865 161 160 -865 -865 261 -865 -865 -865 261 -865 -865 155 -865 -865 -865 -865 -865 260 -865 -865 261 -865 -865 -865 220 60 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 3.2e+003 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 1.000000 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 1.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCCAGCC MEME-5 regular expression -------------------------------------------------------------------------------- C[CG]CCAGC[CG] -------------------------------------------------------------------------------- Time 32.23 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:5771317-5771437 9.14e-05 27_[+2(4.73e-06)]_32_[+1(4.00e-05)]_\ 45 chr3L:13411165-13411285 1.58e-02 38_[+2(1.24e-05)]_74 chr2R:15818632-15818752 3.77e-04 61_[+2(1.05e-06)]_51 chr3R:23300760-23300880 7.93e-01 120 chr2L:12351098-12351218 4.18e-01 120 chr2R:20906663-20906783 4.97e-08 19_[+2(1.24e-05)]_37_[+4(7.39e-06)]_\ 18_[+1(3.22e-06)]_22 chrX:12015084-12015204 4.56e-01 120 chrX:7166438-7166558 9.99e-01 120 chr3R:31704638-31704758 8.93e-01 120 chr3R:16857141-16857261 1.76e-04 60_[+2(4.73e-06)]_52 chr3R:21612992-21613112 3.26e-01 120 chr2R:20091315-20091435 5.53e-02 120 chr3L:16385970-16386090 7.18e-02 52_[+3(8.01e-05)]_60 chr2L:1491990-1492110 8.07e-05 45_[+1(1.05e-06)]_67 chr3L:13929255-13929375 4.86e-01 120 chr2L:11394262-11394382 9.67e-01 120 chr2L:21619216-21619336 1.45e-02 120 chr2R:14312298-14312418 9.33e-01 120 chr2L:11189215-11189335 2.32e-01 120 chrX:3108988-3109108 7.26e-01 120 chr3R:21993044-21993164 5.69e-01 120 chr2L:11091228-11091348 2.51e-01 120 chr2L:7494424-7494544 9.98e-01 120 chrX:19164866-19164986 9.31e-02 120 chr2L:838154-838274 1.07e-01 120 chr3R:14470784-14470904 1.00e+00 120 chr3L:3875155-3875275 6.30e-01 120 chr2L:11331810-11331930 9.57e-01 120 chr2L:493378-493498 9.82e-01 120 chrX:3367426-3367546 6.71e-01 120 chr3R:19339376-19339496 2.83e-01 120 chr2L:21263888-21264008 8.00e-01 120 chr2L:7635354-7635474 9.06e-01 120 chr3L:12336413-12336533 1.36e-01 120 chr3R:11806945-11807065 1.12e-02 120 chr3L:20630707-20630827 8.23e-01 120 chr2L:6540171-6540291 9.55e-02 120 chr2L:889977-890097 8.23e-01 120 chr3L:295208-295328 2.45e-01 120 chr3R:23303341-23303461 1.00e+00 120 chr2R:16800188-16800308 1.68e-06 31_[+2(1.05e-06)]_25_[+1(3.02e-05)]_\ 30_[+1(1.05e-06)]_10 chrX:5969965-5970085 3.35e-01 120 chrX:15594648-15594768 4.93e-03 40_[+1(4.26e-06)]_72 chr3L:20771160-20771280 6.18e-01 120 chr2L:11417642-11417762 8.96e-01 120 chr3R:8171691-8171811 3.66e-01 120 chr2L:3587475-3587595 1.71e-01 120 chrX:5883534-5883654 5.95e-05 52_[+3(1.89e-05)]_19_[+1(4.00e-05)]_\ 33 chrX:7162646-7162766 1.16e-07 45_[+2(4.45e-05)]_4_[+4(1.59e-06)]_\ 22_[+1(1.63e-05)]_25 chr2L:4055547-4055667 9.95e-01 120 chr2L:8554454-8554574 2.67e-01 120 chr2R:14411694-14411814 2.40e-01 120 chr3L:6817124-6817244 9.99e-01 120 chr2L:14160976-14161096 1.20e-05 62_[+1(3.22e-06)]_50 chrX:5564070-5564190 1.33e-01 120 chr2L:18505634-18505754 8.44e-01 120 chr3L:21821827-21821947 2.93e-01 120 chrX:20507859-20507979 1.92e-04 19_[+4(1.18e-05)]_35_[+1(1.63e-05)]_\ 50 chr2R:9660204-9660324 1.00e+00 120 chr3R:10628409-10628529 9.80e-01 120 chr3L:10899350-10899470 1.09e-05 31_[+2(4.73e-06)]_49_[+1(7.42e-06)]_\ 24 chrX:7901720-7901840 1.87e-05 77_[+2(1.05e-06)]_27_[+5(7.50e-05)] chr3R:31060350-31060470 7.14e-03 80_[+1(4.43e-05)]_32 chr3L:1414168-1414288 6.72e-01 120 chr3L:19898925-19899045 1.00e+00 120 chr2R:12537624-12537744 7.76e-01 120 chrX:3068439-3068559 6.05e-02 120 chrX:10825501-10825621 8.17e-02 16_[+1(2.26e-05)]_96 chrX:15653673-15653793 4.88e-05 24_[+2(6.92e-06)]_49_[+1(2.04e-05)]_\ 31 chr3R:14589644-14589764 4.81e-01 120 chr2R:6668893-6669013 8.49e-01 120 chr2R:16202904-16203024 3.41e-09 6_[+5(4.21e-06)]_90_[+3(4.36e-06)]_\ [+4(1.59e-06)] chr4:980225-980345 2.31e-01 120 chr3R:16748701-16748821 2.04e-05 30_[+1(3.22e-06)]_13_[+2(1.46e-05)]_\ 61 chrX:18517524-18517644 7.71e-07 92_[+2(4.73e-06)]_20 chr3L:11552051-11552171 9.98e-01 120 chr2L:1145085-1145205 9.03e-03 54_[+4(1.18e-05)]_58 chr3L:5857049-5857169 9.51e-01 120 chr2L:1462201-1462321 6.57e-02 120 chr3R:19164998-19165118 7.28e-02 120 chr3L:613674-613794 7.17e-01 120 chr3L:16768434-16768554 6.37e-01 120 chr3R:10641361-10641481 5.02e-01 120 chr2L:3776038-3776158 9.99e-01 120 chr2R:18209776-18209896 5.92e-02 120 chr2L:11338329-11338449 3.16e-01 120 chr3L:20517046-20517166 9.14e-01 120 chr3R:18393547-18393667 9.62e-02 22_[+3(8.45e-05)]_90 chrX:12029118-12029238 7.91e-02 35_[+1(7.27e-05)]_77 chr3R:11368881-11369001 9.90e-01 120 chr2L:19377519-19377639 2.07e-01 120 chr3R:18215465-18215585 4.42e-01 120 chr2R:12174595-12174715 9.94e-01 120 chr3L:745661-745781 6.36e-01 120 chr3R:10626188-10626308 3.83e-01 120 chr3R:21856541-21856661 1.25e-04 43_[+3(6.22e-05)]_8_[+1(1.05e-06)]_\ 53 chrX:18635418-18635538 7.73e-05 36_[+1(3.22e-06)]_3_[+3(1.32e-05)]_\ 21_[+1(1.05e-06)]_36 chr2L:11950037-11950157 1.22e-01 10_[+3(4.10e-05)]_102 chr3R:23293551-23293671 9.93e-01 120 chr2L:18900027-18900147 9.55e-01 120 chr2L:7270398-7270518 9.98e-01 120 chr3L:6264563-6264683 4.01e-04 41_[+2(3.20e-06)]_71 chr3R:6818735-6818855 7.53e-01 120 chr3L:11429847-11429967 7.50e-01 120 chr2L:3861540-3861660 8.77e-01 120 chrX:17751833-17751953 2.86e-03 93_[+1(7.42e-06)]_19 chr2R:13968062-13968182 7.21e-01 120 chr2R:25085517-25085637 7.72e-05 55_[+2(3.20e-06)]_57 chr2L:3472397-3472517 2.02e-08 18_[+1(3.22e-06)]_10_[+5(2.10e-06)]_\ 26_[+2(1.05e-06)]_42 chr3L:16061025-16061145 5.04e-01 120 chr2R:12274356-12274476 3.66e-08 18_[+3(4.56e-05)]_24_[+1(3.22e-06)]_\ 1_[+1(4.43e-05)]_12_[+2(1.05e-06)]_33 chr2R:9087727-9087847 9.11e-01 120 chrX:5639232-5639352 8.87e-01 120 chr3R:23345258-23345378 9.32e-01 120 chr3L:18349440-18349560 9.96e-01 120 chr3L:3450499-3450619 2.61e-01 120 chr3L:10845192-10845312 4.07e-03 120 chr3R:29522318-29522438 9.92e-01 120 chr3R:14357534-14357654 9.81e-01 120 chr3R:27440689-27440809 6.35e-01 120 chr3R:26542241-26542361 5.37e-01 120 chrX:7710940-7711060 3.13e-04 26_[+1(3.22e-06)]_38_[+1(3.22e-06)]_\ 40 chrX:2123083-2123203 1.05e-03 28_[+3(4.10e-05)]_74_[+1(4.00e-05)]_\ 2 chr2L:10856641-10856761 2.06e-01 120 chr3R:18242173-18242293 5.96e-01 120 chrX:7617076-7617196 7.37e-01 120 chr2L:8573028-8573148 2.75e-02 25_[+3(7.10e-05)]_87 chr2L:11199215-11199335 9.72e-01 120 chr2R:23652377-23652497 1.94e-07 9_[+2(3.20e-06)]_31_[+2(1.05e-06)]_\ 64 chr2L:827562-827682 8.99e-01 120 chr3R:23387104-23387224 9.98e-01 120 chr3L:5554525-5554645 7.27e-01 120 chr2L:15061492-15061612 9.92e-01 120 chr2L:7532796-7532916 9.74e-01 120 chr3R:15837203-15837323 9.96e-01 120 chr2L:9576780-9576900 1.52e-04 64_[+1(2.04e-05)]_23_[+1(1.05e-06)]_\ 17 chrX:11548842-11548962 7.37e-01 120 chr3L:6981940-6982060 9.90e-01 120 chr3L:3855327-3855447 9.98e-01 120 chr2R:21535594-21535714 1.58e-04 8_[+1(1.05e-06)]_2_[+3(8.45e-05)]_\ 48_[+1(3.02e-05)]_38 chr3L:699420-699540 9.95e-01 120 chr2L:1428524-1428644 2.16e-02 120 chr2L:6907877-6907997 9.07e-01 120 chrX:9193767-9193887 7.96e-02 120 chr3R:26117716-26117836 3.09e-02 120 chr3R:16837943-16838063 9.21e-01 120 chr2R:11628159-11628279 7.62e-08 19_[+1(4.00e-05)]_35_[+4(7.39e-06)]_\ 4_[+3(2.32e-05)]_38 chr3R:16919194-16919314 1.67e-06 30_[+2(1.05e-06)]_43_[+1(3.02e-05)]_\ 31 chr3L:21536969-21537089 1.50e-03 74_[+3(4.36e-06)]_38 chr2L:3533246-3533366 9.45e-04 35_[+1(5.08e-05)]_77 chr3L:8399227-8399347 1.46e-02 36_[+3(4.10e-05)]_76 chr2L:7632894-7633014 4.26e-01 120 chr2L:14701575-14701695 4.05e-03 36_[+3(2.16e-06)]_76 chr2R:12468443-12468563 9.99e-01 120 chr2L:4393987-4394107 9.84e-01 120 chr2L:4847341-4847461 3.38e-01 120 chr3L:5987751-5987871 4.92e-01 120 chr3R:9220173-9220293 9.87e-02 14_[+1(3.13e-05)]_98 chr3L:4158521-4158641 4.88e-01 120 chr3L:18223613-18223733 5.37e-01 120 chr3R:5636865-5636985 8.44e-01 120 chr3R:30058070-30058190 9.73e-01 120 chr2L:15248678-15248798 2.75e-02 34_[+4(3.19e-06)]_78 chr2L:3598612-3598732 2.11e-01 120 chr3L:12062977-12063097 5.14e-01 120 chrX:2536304-2536424 6.73e-01 120 chr3L:11993149-11993269 9.92e-03 11_[+4(9.26e-05)]_101 chr3L:11334159-11334279 5.51e-01 120 chr3R:23028677-23028797 1.74e-01 14_[+3(1.32e-05)]_98 chr2L:4887544-4887664 3.03e-02 26_[+3(5.11e-05)]_86 chr2L:15629911-15630031 2.55e-02 120 chr3L:14612941-14613061 1.06e-01 120 chrX:2978213-2978333 4.63e-01 120 chr2R:20257459-20257579 1.00e+00 120 chr2R:11095252-11095372 5.87e-01 120 chr2R:9286640-9286760 9.00e-01 120 chr2R:20601183-20601303 8.94e-03 24_[+1(9.54e-06)]_88 chr2L:21658570-21658690 4.11e-01 120 chr2R:18850623-18850743 9.16e-01 120 chr3R:5251038-5251158 2.38e-02 61_[+3(7.10e-05)]_51 chr3R:31793764-31793884 9.38e-01 120 chrX:9356447-9356567 6.97e-01 120 chr2L:1629696-1629816 2.41e-02 120 chr3R:21200037-21200157 3.41e-01 120 chrX:12463119-12463239 8.76e-02 120 chr3L:1479431-1479551 1.03e-03 6_[+2(1.05e-06)]_106 chrX:9664582-9664702 9.97e-01 120 chr2L:6797576-6797696 5.67e-03 84_[+1(2.04e-05)]_28 chr2L:3566672-3566792 1.27e-01 120 chr3L:3852981-3853101 1.63e-01 90_[+3(8.01e-05)]_22 chr2R:9971136-9971256 4.03e-01 120 chr3R:18274473-18274593 4.92e-01 120 chr2R:23554587-23554707 8.25e-01 120 chr2L:522917-523037 4.62e-01 120 chr2L:602469-602589 4.24e-04 1_[+2(3.20e-06)]_49_[+2(8.29e-05)]_\ 54 chr3L:11074581-11074701 8.32e-01 120 chr3R:21151516-21151636 9.23e-01 120 chr2L:606338-606458 7.98e-01 120 chrX:19770237-19770357 5.13e-01 120 chr2R:15201327-15201447 9.94e-01 120 chr2L:16302929-16303049 6.39e-01 120 chr3L:18226111-18226231 9.65e-01 120 chr2R:13926305-13926425 8.74e-01 120 chrX:9652109-9652229 6.81e-02 120 chr2R:17461219-17461339 8.13e-01 120 chr2L:8528469-8528589 1.98e-01 120 chr2L:10356607-10356727 8.06e-01 120 chr3R:27677243-27677363 9.66e-01 120 chr3R:25004877-25004997 8.49e-01 120 chr2L:1729718-1729838 4.36e-01 120 chrX:8777203-8777323 4.54e-01 120 chr3R:16834789-16834909 4.95e-05 27_[+2(1.24e-05)]_8_[+3(7.10e-05)]_\ 27_[+2(3.20e-06)]_34 chr3L:9066166-9066286 6.24e-01 120 chrX:20394143-20394263 9.94e-01 120 chr3R:31064730-31064850 6.17e-01 120 chr3R:8960546-8960666 2.99e-01 120 chr3L:16021433-16021553 9.88e-01 120 chrX:7728345-7728465 5.27e-03 66_[+3(9.59e-05)]_46 chr3R:16469728-16469848 9.99e-01 120 chr2R:18125806-18125926 2.51e-07 45_[+3(2.16e-06)]_67 chr2R:23176749-23176869 8.19e-02 120 chr2L:1150682-1150802 6.74e-05 18_[+1(5.08e-05)]_42_[+5(1.26e-05)]_\ 44 chr2L:9598573-9598693 9.37e-04 23_[+3(6.53e-06)]_89 chr3L:15563036-15563156 4.37e-02 120 chr3R:24830072-24830192 4.89e-01 120 chr3L:12501406-12501526 1.34e-02 105_[+3(3.21e-05)]_7 chr3L:3391990-3392110 8.36e-01 120 chr3R:23346946-23347066 1.62e-02 82_[+3(4.10e-05)]_30 chr3R:19024020-19024140 8.91e-04 6_[+1(1.73e-05)]_106 chr3R:17551225-17551345 1.09e-01 120 chr2R:11738677-11738797 9.97e-01 120 chr2L:18921418-18921538 9.46e-02 93_[+1(5.63e-05)]_19 chr2L:19335260-19335380 1.29e-02 70_[+3(4.10e-05)]_42 chrX:9349340-9349460 7.48e-01 120 chr2L:19867124-19867244 9.98e-01 120 chr2L:14519381-14519501 9.92e-01 120 chr2L:7258229-7258349 1.15e-04 29_[+2(6.92e-06)]_46_[+2(3.20e-06)]_\ 29 chr3L:7151924-7152044 9.89e-01 120 chr3L:3384626-3384746 7.36e-01 120 chr3L:6743165-6743285 9.28e-06 19_[+5(2.10e-06)]_19_[+3(9.59e-05)]_\ 66 chr3L:17912615-17912735 9.59e-01 120 chr2L:20649991-20650111 8.90e-01 120 chr3L:557445-557565 3.08e-07 27_[+1(7.42e-06)]_10_[+5(2.10e-06)]_\ 67 chr2R:7254294-7254414 9.72e-01 120 chr2R:18676515-18676635 9.57e-01 120 chr2R:16691365-16691485 4.20e-01 120 chr3R:17943530-17943650 3.47e-02 34_[+5(2.12e-05)]_78 chr2L:11037966-11038086 1.87e-01 120 chr3R:21937229-21937349 9.51e-01 120 chr3L:11350867-11350987 1.00e+00 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n04.farnam.hpc.yale.internal ********************************************************************************