******************************************************************************** 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/Abd-B.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3R:16871445-16871565 1.0000 120 chr3R:16944443-16944563 1.0000 120 chr2R:5682001-5682121 1.0000 120 chr3R:5438906-5439026 1.0000 120 chr3R:16770925-16771045 1.0000 120 chr3R:16960268-16960388 1.0000 120 chr3R:5014802-5014922 1.0000 120 chr2L:7856522-7856642 1.0000 120 chrX:10170904-10171024 1.0000 120 chr3R:5028487-5028607 1.0000 120 chr3R:10554235-10554355 1.0000 120 chr3R:22794089-22794209 1.0000 120 chr3R:20005480-20005600 1.0000 120 chr3R:16915738-16915858 1.0000 120 chr3L:12305996-12306116 1.0000 120 chr3L:9047258-9047378 1.0000 120 chr2R:13043303-13043423 1.0000 120 chr2L:20005223-20005343 1.0000 120 chr2L:740170-740290 1.0000 120 chr2R:5090506-5090626 1.0000 120 chr3L:400405-400525 1.0000 120 chr3R:25754986-25755106 1.0000 120 chr3L:24976123-24976243 1.0000 120 chr2L:22579057-22579177 1.0000 120 chr3L:10909516-10909636 1.0000 120 chr2L:23068403-23068523 1.0000 120 chr2R:1264260-1264380 1.0000 120 chr3L:19446782-19446902 1.0000 120 chr3R:13986981-13987101 1.0000 120 chr3L:20097392-20097512 1.0000 120 chrX:23105811-23105931 1.0000 120 chr3R:6845736-6845856 1.0000 120 chr2L:6723385-6723505 1.0000 120 chr3L:4992995-4993115 1.0000 120 chrX:9283178-9283298 1.0000 120 chr3R:16821627-16821747 1.0000 120 chr3L:25120605-25120725 1.0000 120 chrX:18533369-18533489 1.0000 120 chr3L:432675-432795 1.0000 120 chr3R:18633266-18633386 1.0000 120 chr2L:709844-709964 1.0000 120 chr2R:4671718-4671838 1.0000 120 chr2R:11402159-11402279 1.0000 120 chr3R:7591326-7591446 1.0000 120 chr3R:3622996-3623116 1.0000 120 chr3L:2885707-2885827 1.0000 120 chr3R:10431181-10431301 1.0000 120 chrX:15310061-15310181 1.0000 120 chr3L:10334209-10334329 1.0000 120 chr3L:5979861-5979981 1.0000 120 chr2L:15272139-15272259 1.0000 120 chr3R:16484155-16484275 1.0000 120 chr2L:513221-513341 1.0000 120 chr3R:16743637-16743757 1.0000 120 chr3R:20057622-20057742 1.0000 120 chrX:8782255-8782375 1.0000 120 chr3L:11511379-11511499 1.0000 120 chr2R:18196818-18196938 1.0000 120 chr3R:25678610-25678730 1.0000 120 chr2R:8572686-8572806 1.0000 120 chr2L:21896180-21896300 1.0000 120 chrX:13287930-13288050 1.0000 120 chr3R:26007467-26007587 1.0000 120 chr2L:17921623-17921743 1.0000 120 chr3L:6807670-6807790 1.0000 120 chr3L:8160137-8160257 1.0000 120 chr3L:10392697-10392817 1.0000 120 chrX:20165941-20166061 1.0000 120 chr3R:6254596-6254716 1.0000 120 chr3L:17465825-17465945 1.0000 120 chr3R:16933822-16933942 1.0000 120 chr2R:2848442-2848562 1.0000 120 chrX:4399782-4399902 1.0000 120 chrX:14669343-14669463 1.0000 120 chr3R:6945195-6945315 1.0000 120 chr3L:27083944-27084064 1.0000 120 chr2L:8740986-8741106 1.0000 120 chr3L:12050757-12050877 1.0000 120 chr2R:10604153-10604273 1.0000 120 chr3L:15835337-15835457 1.0000 120 chr3R:16963574-16963694 1.0000 120 chr3R:14387340-14387460 1.0000 120 chr3L:11419630-11419750 1.0000 120 chr2R:4618881-4619001 1.0000 120 chrX:6796192-6796312 1.0000 120 chr3L:6454796-6454916 1.0000 120 chr3L:17846731-17846851 1.0000 120 chr3R:15330611-15330731 1.0000 120 chr3R:17449517-17449637 1.0000 120 chr2L:8612928-8613048 1.0000 120 chr3R:16743239-16743359 1.0000 120 chr3L:18460481-18460601 1.0000 120 chr3L:13008172-13008292 1.0000 120 chrX:18547885-18548005 1.0000 120 chrX:19796520-19796640 1.0000 120 chr3R:25165700-25165820 1.0000 120 chr3L:4553538-4553658 1.0000 120 chrX:9588048-9588168 1.0000 120 chr3R:17231713-17231833 1.0000 120 chrX:3058030-3058150 1.0000 120 chr3R:16978040-16978160 1.0000 120 chr3R:16939789-16939909 1.0000 120 chr2L:2348605-2348725 1.0000 120 chr2R:23051800-23051920 1.0000 120 chr2R:5604838-5604958 1.0000 120 chr3R:24360124-24360244 1.0000 120 chrX:2138528-2138648 1.0000 120 chr3R:10433557-10433677 1.0000 120 chr3L:8769828-8769948 1.0000 120 chr2L:19316673-19316793 1.0000 120 chr3R:9050636-9050756 1.0000 120 chr2L:6194053-6194173 1.0000 120 chr2L:8732913-8733033 1.0000 120 chr3R:31220568-31220688 1.0000 120 chr2R:20326865-20326985 1.0000 120 chr2L:17242573-17242693 1.0000 120 chr2L:5723992-5724112 1.0000 120 chr3L:6452529-6452649 1.0000 120 chr3L:20920701-20920821 1.0000 120 chrX:9911821-9911941 1.0000 120 chr2R:24779832-24779952 1.0000 120 chr2L:22247887-22248007 1.0000 120 chr3L:27136363-27136483 1.0000 120 chr2R:9972770-9972890 1.0000 120 chr2R:4130895-4131015 1.0000 120 chr3R:23716821-23716941 1.0000 120 chr3R:14308904-14309024 1.0000 120 chr3L:6694241-6694361 1.0000 120 chr2L:23174355-23174475 1.0000 120 chr2R:4471091-4471211 1.0000 120 chr2R:20396923-20397043 1.0000 120 chr2L:19358800-19358920 1.0000 120 chrX:15910125-15910245 1.0000 120 chr3R:3734822-3734942 1.0000 120 chr3R:3750288-3750408 1.0000 120 chr2L:15465267-15465387 1.0000 120 chr3R:26934658-26934778 1.0000 120 chr2R:12344745-12344865 1.0000 120 chrX:9692683-9692803 1.0000 120 chrX:15475534-15475654 1.0000 120 chr2L:14453226-14453346 1.0000 120 chr2R:4013939-4014059 1.0000 120 chr2R:7300793-7300913 1.0000 120 chr3R:20028007-20028127 1.0000 120 chrX:6026820-6026940 1.0000 120 chr3L:25115923-25116043 1.0000 120 chr2R:14480742-14480862 1.0000 120 chrX:13421193-13421313 1.0000 120 chr3L:4554340-4554460 1.0000 120 chr3L:10536366-10536486 1.0000 120 chrX:17305651-17305771 1.0000 120 chr2L:15179091-15179211 1.0000 120 chr2L:12520501-12520621 1.0000 120 chr3L:27279176-27279296 1.0000 120 chrX:6543727-6543847 1.0000 120 chr3L:19598833-19598953 1.0000 120 chr3R:6660094-6660214 1.0000 120 chr3L:8024361-8024481 1.0000 120 chr2R:4546603-4546723 1.0000 120 chr3L:19202444-19202564 1.0000 120 chr3R:10622350-10622470 1.0000 120 chr3R:16923599-16923719 1.0000 120 chr2L:16883694-16883814 1.0000 120 chr3R:6708991-6709111 1.0000 120 chrX:7104532-7104652 1.0000 120 chr3R:8938598-8938718 1.0000 120 chr3R:13208565-13208685 1.0000 120 chrX:16840011-16840131 1.0000 120 chr3R:22197810-22197930 1.0000 120 chr3R:6908198-6908318 1.0000 120 chr3L:13993799-13993919 1.0000 120 chr3R:21140642-21140762 1.0000 120 chr2R:1590376-1590496 1.0000 120 chr3R:5043040-5043160 1.0000 120 chr3R:12638042-12638162 1.0000 120 chr2L:6622752-6622872 1.0000 120 chr3R:4905904-4906024 1.0000 120 chr2R:5753349-5753469 1.0000 120 chr3R:8810987-8811107 1.0000 120 chrX:3109030-3109150 1.0000 120 chr2R:23865308-23865428 1.0000 120 chrX:6067711-6067831 1.0000 120 chr3L:9211417-9211537 1.0000 120 chr2L:12005490-12005610 1.0000 120 chrX:16671189-16671309 1.0000 120 chr2L:7998765-7998885 1.0000 120 chr2R:5350483-5350603 1.0000 120 chr3L:24536111-24536231 1.0000 120 chr3R:26717499-26717619 1.0000 120 chr2L:6967715-6967835 1.0000 120 chr2R:17205984-17206104 1.0000 120 chr3L:8652017-8652137 1.0000 120 chr2R:4188159-4188279 1.0000 120 chr3L:23339168-23339288 1.0000 120 chr3R:4400061-4400181 1.0000 120 chr2R:1527092-1527212 1.0000 120 chr2R:5260622-5260742 1.0000 120 chr2L:23176096-23176216 1.0000 120 chr3L:5622005-5622125 1.0000 120 chr3R:21619866-21619986 1.0000 120 chr3L:14003016-14003136 1.0000 120 chrX:6373041-6373161 1.0000 120 chr2L:10554701-10554821 1.0000 120 chrX:8075447-8075567 1.0000 120 chr3L:13845416-13845536 1.0000 120 chr3L:15104258-15104378 1.0000 120 chr2L:3435270-3435390 1.0000 120 chr3L:21738560-21738680 1.0000 120 chr2L:22129936-22130056 1.0000 120 chrX:19106952-19107072 1.0000 120 chr3L:27858264-27858384 1.0000 120 chr2L:10422782-10422902 1.0000 120 chr3R:22494674-22494794 1.0000 120 chr3R:17617305-17617425 1.0000 120 chr3R:10535890-10536010 1.0000 120 chr3L:21056105-21056225 1.0000 120 chr3L:6817050-6817170 1.0000 120 chr2R:8631886-8632006 1.0000 120 chr2R:11219238-11219358 1.0000 120 chrX:19748788-19748908 1.0000 120 chr3L:5280093-5280213 1.0000 120 chr3L:5608260-5608380 1.0000 120 chrX:7537902-7538022 1.0000 120 chrX:9600886-9601006 1.0000 120 chr3L:24028386-24028506 1.0000 120 chr2R:10075605-10075725 1.0000 120 chr3R:16996280-16996400 1.0000 120 chr2R:22554152-22554272 1.0000 120 chr3L:8449879-8449999 1.0000 120 chr3R:22526482-22526602 1.0000 120 chr3L:13387785-13387905 1.0000 120 chr3R:30734680-30734800 1.0000 120 chr3R:29076192-29076312 1.0000 120 chr3L:12861672-12861792 1.0000 120 chrX:9106809-9106929 1.0000 120 chr3R:14308064-14308184 1.0000 120 chr3R:23763248-23763368 1.0000 120 chr2L:22121675-22121795 1.0000 120 chr3R:25652235-25652355 1.0000 120 chr3R:9214370-9214490 1.0000 120 chrX:6542464-6542584 1.0000 120 chr2R:5340964-5341084 1.0000 120 chr3R:4846906-4847026 1.0000 120 chrX:3714137-3714257 1.0000 120 chr3L:1534174-1534294 1.0000 120 chr2R:15245049-15245169 1.0000 120 chr3L:441876-441996 1.0000 120 chr2L:12586950-12587070 1.0000 120 chr3R:24585210-24585330 1.0000 120 chr2L:14490183-14490303 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_Abd-B/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Abd-B.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 30000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 30000 norand= no csites= 1000 Letter frequencies in dataset: A 0.312 C 0.193 G 0.187 T 0.308 Background letter frequencies (from file dataset with add-one prior applied): A 0.312 C 0.193 G 0.187 T 0.308 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GSNGSSGC MEME-1 width = 8 sites = 30 llr = 278 E-value = 7.0e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::3::::: pos.-specific C :42:54:9 probability G a63a56a1 matrix T ::2::::: bits 2.4 * * * 2.2 * * * 1.9 * * ** 1.7 * * ** Relative 1.5 ** ***** Entropy 1.2 ** ***** (13.3 bits) 1.0 ** ***** 0.7 ** ***** 0.5 ** ***** 0.2 ** ***** 0.0 -------- Multilevel GGAGGGGC consensus CG CC sequence T C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:6454796-6454916 34 1.54e-06 GTCACTAAAT GGGGGGGC ATAAAAGCCT chr3R:14387340-14387460 75 1.54e-06 ATGGCTCATT GGGGGGGC AGTAAATAGA chr3R:16915738-16915858 71 6.32e-06 CCCGTAGGCT GGCGGGGC AGAGATGTTT chr3R:5014802-5014922 101 6.32e-06 CGGGGGGTCG GCGGGGGC AGCGTTTAGC chr3R:16923599-16923719 37 1.22e-05 GCCAAGAGAA GCGGCGGC AAAAGGCAAC chr2L:14453226-14453346 64 1.22e-05 ACTGCCAACT GGCGCGGC AAATGATCAA chr3R:17231713-17231833 2 1.22e-05 A GGCGCGGC AAGCTTAAGT chr3L:10909516-10909636 10 1.22e-05 ATGGGGGGG GGAGGGGC GGTGCGAGGA chr3R:5028487-5028607 64 1.64e-05 GCAAGGGAAA GGAGCGGC CCCGCGATAA chr3L:4992995-4993115 74 2.23e-05 TCTAAAGTCA GGTGGGGC ATAAACCAAC chr3L:400405-400525 36 2.23e-05 TTTGAGATAA GGTGGGGC ATCAGGTACC chr3R:6945195-6945315 13 2.92e-05 tggaagtgga GCAGGGGC TGGGCCACAC chr3R:10535890-10536010 79 3.53e-05 TCCCCGCCTC GCAGCGGC TCTGCTCTCT chr3R:21619866-21619986 75 3.53e-05 TTCCGAGTTG GCGGGCGC ATTAAAATGC chrX:6067711-6067831 94 3.53e-05 ACATAACTAT GCAGCGGC TCCACGAGGC chr3R:16963574-16963694 37 3.53e-05 TAAATACTCG GGCGGCGC ACCGTAAAAA chr3L:8652017-8652137 7 4.39e-05 ATATGT GGCGCCGC CTATCGGTAG chr3R:20028007-20028127 65 4.94e-05 CATTCGCCCC GGAGCCGC ACAAATTTTA chr2L:7856522-7856642 51 4.94e-05 TTGGAGGCTA GCTGCGGC GCCATCTGGC chr3R:16944443-16944563 91 4.94e-05 CATTCAAATG GGAGCCGC GATCGCGGAG chr2R:15245049-15245169 53 5.37e-05 TTTTACATTT GGTGGCGC CATCTAGGTT chrX:9283178-9283298 33 5.37e-05 ACTGTTCAGT GGTGGCGC AAACCATAGA chr3L:441876-441996 16 6.09e-05 AATATTCGCA GCAGGCGC GTGACGTCAG chr3L:15104258-15104378 71 6.09e-05 ttctgctgct GCCGCCGC TGCCTCCTGT chrX:19748788-19748908 50 6.37e-05 TGCGTTGATT GCAGCCGC TTAACTAAGC chr3R:16743637-16743757 103 6.93e-05 TGCCTCGGAA GCTGCCGC CGTTGGTTtg chrX:16840011-16840131 48 7.07e-05 TCTGATAGAT GGGGGGGG ATCGTGTCAA chr3L:6452529-6452649 73 7.23e-05 CCAAGGGAGT GGGGCGGG AAATGATTCA chr3R:20005480-20005600 83 7.54e-05 CATTAGATGC GCGGGGGG AAGCCTTATT chr3R:25652235-25652355 18 1.34e-04 AAGCACATCT GCTGGCGG TCAAAAGCTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:6454796-6454916 1.5e-06 33_[+1]_79 chr3R:14387340-14387460 1.5e-06 74_[+1]_38 chr3R:16915738-16915858 6.3e-06 70_[+1]_42 chr3R:5014802-5014922 6.3e-06 100_[+1]_12 chr3R:16923599-16923719 1.2e-05 36_[+1]_76 chr2L:14453226-14453346 1.2e-05 63_[+1]_49 chr3R:17231713-17231833 1.2e-05 1_[+1]_111 chr3L:10909516-10909636 1.2e-05 9_[+1]_103 chr3R:5028487-5028607 1.6e-05 63_[+1]_49 chr3L:4992995-4993115 2.2e-05 73_[+1]_39 chr3L:400405-400525 2.2e-05 35_[+1]_77 chr3R:6945195-6945315 2.9e-05 12_[+1]_100 chr3R:10535890-10536010 3.5e-05 78_[+1]_34 chr3R:21619866-21619986 3.5e-05 74_[+1]_38 chrX:6067711-6067831 3.5e-05 93_[+1]_19 chr3R:16963574-16963694 3.5e-05 36_[+1]_76 chr3L:8652017-8652137 4.4e-05 6_[+1]_106 chr3R:20028007-20028127 4.9e-05 64_[+1]_48 chr2L:7856522-7856642 4.9e-05 50_[+1]_62 chr3R:16944443-16944563 4.9e-05 90_[+1]_22 chr2R:15245049-15245169 5.4e-05 52_[+1]_60 chrX:9283178-9283298 5.4e-05 32_[+1]_80 chr3L:441876-441996 6.1e-05 15_[+1]_97 chr3L:15104258-15104378 6.1e-05 70_[+1]_42 chrX:19748788-19748908 6.4e-05 49_[+1]_63 chr3R:16743637-16743757 6.9e-05 102_[+1]_10 chrX:16840011-16840131 7.1e-05 47_[+1]_65 chr3L:6452529-6452649 7.2e-05 72_[+1]_40 chr3R:20005480-20005600 7.5e-05 82_[+1]_30 chr3R:25652235-25652355 0.00013 17_[+1]_95 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSNGSSGC width=8 seqs=30 chr3L:6454796-6454916 ( 34) GGGGGGGC 1 chr3R:14387340-14387460 ( 75) GGGGGGGC 1 chr3R:16915738-16915858 ( 71) GGCGGGGC 1 chr3R:5014802-5014922 ( 101) GCGGGGGC 1 chr3R:16923599-16923719 ( 37) GCGGCGGC 1 chr2L:14453226-14453346 ( 64) GGCGCGGC 1 chr3R:17231713-17231833 ( 2) GGCGCGGC 1 chr3L:10909516-10909636 ( 10) GGAGGGGC 1 chr3R:5028487-5028607 ( 64) GGAGCGGC 1 chr3L:4992995-4993115 ( 74) GGTGGGGC 1 chr3L:400405-400525 ( 36) GGTGGGGC 1 chr3R:6945195-6945315 ( 13) GCAGGGGC 1 chr3R:10535890-10536010 ( 79) GCAGCGGC 1 chr3R:21619866-21619986 ( 75) GCGGGCGC 1 chrX:6067711-6067831 ( 94) GCAGCGGC 1 chr3R:16963574-16963694 ( 37) GGCGGCGC 1 chr3L:8652017-8652137 ( 7) GGCGCCGC 1 chr3R:20028007-20028127 ( 65) GGAGCCGC 1 chr2L:7856522-7856642 ( 51) GCTGCGGC 1 chr3R:16944443-16944563 ( 91) GGAGCCGC 1 chr2R:15245049-15245169 ( 53) GGTGGCGC 1 chrX:9283178-9283298 ( 33) GGTGGCGC 1 chr3L:441876-441996 ( 16) GCAGGCGC 1 chr3L:15104258-15104378 ( 71) GCCGCCGC 1 chrX:19748788-19748908 ( 50) GCAGCCGC 1 chr3R:16743637-16743757 ( 103) GCTGCCGC 1 chrX:16840011-16840131 ( 48) GGGGGGGG 1 chr3L:6452529-6452649 ( 73) GGGGCGGG 1 chr3R:20005480-20005600 ( 83) GCGGGGGG 1 chr3R:25652235-25652355 ( 18) GCTGGCGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.8596 E= 7.0e-006 -1155 -1155 242 -1155 -1155 117 160 -1155 -6 6 51 -40 -1155 -1155 242 -1155 -1155 128 151 -1155 -1155 105 168 -1155 -1155 -1155 242 -1155 -1155 217 -49 -1155 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 30 E= 7.0e-006 0.000000 0.000000 1.000000 0.000000 0.000000 0.433333 0.566667 0.000000 0.300000 0.200000 0.266667 0.233333 0.000000 0.000000 1.000000 0.000000 0.000000 0.466667 0.533333 0.000000 0.000000 0.400000 0.600000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.866667 0.133333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSNGSSGC MEME-1 regular expression -------------------------------------------------------------------------------- G[GC][AGTC]G[GC][GC]GC -------------------------------------------------------------------------------- Time 7.42 secs. ******************************************************************************** ******************************************************************************** MOTIF GCMATAAA MEME-2 width = 8 sites = 19 llr = 189 E-value = 3.8e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::4a:aaa pos.-specific C :a6::::: probability G a::::::: matrix T ::::a::: bits 2.4 ** 2.2 ** 1.9 ** 1.7 ** ***** Relative 1.5 ** ***** Entropy 1.2 ******** (14.4 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCCATAAA consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:22494674-22494794 88 2.03e-05 AGAAGCAACA GCCATAAA GTCCGGCTGA chr2L:10554701-10554821 77 2.03e-05 ACGTATGCAA GCCATAAA AATACCTCAA chr3R:22197810-22197930 39 2.03e-05 CAATCAAGCG GCCATAAA ATAAAGTCAA chr2L:16883694-16883814 98 2.03e-05 TGCTTTAATG GCCATAAA GAAATTGCGT chr2L:17242573-17242693 35 2.03e-05 AAAGCCTTGC GCCATAAA AAATACACTT chr2L:19316673-19316793 109 2.03e-05 AAGCCGTGCA GCCATAAA AGAG chr3L:8769828-8769948 50 2.03e-05 TTGAATGGTC GCCATAAA ATCCAATGGT chr3R:25678610-25678730 19 2.03e-05 CCCGCTCTTA GCCATAAA TGTGAAGAAA chr2L:513221-513341 18 2.03e-05 GCTTGCCGTG GCCATAAA GCAGAAGTTT chr3L:10909516-10909636 95 2.03e-05 CCATTAAAAT GCCATAAA CTGGCGGCGT chr3R:16915738-16915858 4 2.03e-05 GAA GCCATAAA TTTATTTATG chr3R:16770925-16771045 113 2.03e-05 CGGACACCAA GCCATAAA chr3L:13993799-13993919 95 5.32e-05 CCCTGTGCAC GCAATAAA AATTGTAATT chr2R:12344745-12344865 100 5.32e-05 TTCTTAGGGA GCAATAAA AGATTGATGC chr2R:20396923-20397043 41 5.32e-05 GGGTGTCAGG GCAATAAA AACTTCGCAC chr3L:6694241-6694361 71 5.32e-05 TACGAGAGCA GCAATAAA AACTGTCGTT chr3R:15330611-15330731 2 5.32e-05 T GCAATAAA AAAACTAAAT chr3L:4992995-4993115 107 5.32e-05 CACCGCCCAC GCAATAAA AAAACA chrX:10170904-10171024 40 5.32e-05 ACTGTGGCCA GCAATAAA AATTTTACAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:22494674-22494794 2e-05 87_[+2]_25 chr2L:10554701-10554821 2e-05 76_[+2]_36 chr3R:22197810-22197930 2e-05 38_[+2]_74 chr2L:16883694-16883814 2e-05 97_[+2]_15 chr2L:17242573-17242693 2e-05 34_[+2]_78 chr2L:19316673-19316793 2e-05 108_[+2]_4 chr3L:8769828-8769948 2e-05 49_[+2]_63 chr3R:25678610-25678730 2e-05 18_[+2]_94 chr2L:513221-513341 2e-05 17_[+2]_95 chr3L:10909516-10909636 2e-05 94_[+2]_18 chr3R:16915738-16915858 2e-05 3_[+2]_109 chr3R:16770925-16771045 2e-05 112_[+2] chr3L:13993799-13993919 5.3e-05 94_[+2]_18 chr2R:12344745-12344865 5.3e-05 99_[+2]_13 chr2R:20396923-20397043 5.3e-05 40_[+2]_72 chr3L:6694241-6694361 5.3e-05 70_[+2]_42 chr3R:15330611-15330731 5.3e-05 1_[+2]_111 chr3L:4992995-4993115 5.3e-05 106_[+2]_6 chrX:10170904-10171024 5.3e-05 39_[+2]_73 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCMATAAA width=8 seqs=19 chr3R:22494674-22494794 ( 88) GCCATAAA 1 chr2L:10554701-10554821 ( 77) GCCATAAA 1 chr3R:22197810-22197930 ( 39) GCCATAAA 1 chr2L:16883694-16883814 ( 98) GCCATAAA 1 chr2L:17242573-17242693 ( 35) GCCATAAA 1 chr2L:19316673-19316793 ( 109) GCCATAAA 1 chr3L:8769828-8769948 ( 50) GCCATAAA 1 chr3R:25678610-25678730 ( 19) GCCATAAA 1 chr2L:513221-513341 ( 18) GCCATAAA 1 chr3L:10909516-10909636 ( 95) GCCATAAA 1 chr3R:16915738-16915858 ( 4) GCCATAAA 1 chr3R:16770925-16771045 ( 113) GCCATAAA 1 chr3L:13993799-13993919 ( 95) GCAATAAA 1 chr2R:12344745-12344865 ( 100) GCAATAAA 1 chr2R:20396923-20397043 ( 41) GCAATAAA 1 chr3L:6694241-6694361 ( 71) GCAATAAA 1 chr3R:15330611-15330731 ( 2) GCAATAAA 1 chr3L:4992995-4993115 ( 107) GCAATAAA 1 chrX:10170904-10171024 ( 40) GCAATAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 9.90672 E= 3.8e-001 -1089 -1089 242 -1089 -1089 238 -1089 -1089 24 171 -1089 -1089 168 -1089 -1089 -1089 -1089 -1089 -1089 170 168 -1089 -1089 -1089 168 -1089 -1089 -1089 168 -1089 -1089 -1089 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.8e-001 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.368421 0.631579 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCMATAAA MEME-2 regular expression -------------------------------------------------------------------------------- GC[CA]ATAAA -------------------------------------------------------------------------------- Time 14.48 secs. ******************************************************************************** ******************************************************************************** MOTIF TTTTTATG MEME-3 width = 8 sites = 22 llr = 208 E-value = 4.3e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::a:: pos.-specific C :::::::: probability G 3::::::a matrix T 7aaaa:a: bits 2.4 * 2.2 * 1.9 * 1.7 ******* Relative 1.5 ******* Entropy 1.2 ******* (13.6 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTTTTATG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:8075447-8075567 27 4.98e-05 TTTTAATATT TTTTTATG ATATGTTATC chr3L:23339168-23339288 74 4.98e-05 AATACATATA TTTTTATG TTTGAGTCAA chr3R:8810987-8811107 15 4.98e-05 ACTGTTGATA TTTTTATG AGCACGAAAG chr3L:19202444-19202564 23 4.98e-05 CGGGAAGTTA TTTTTATG CGCTTTTAAT chr3L:19598833-19598953 84 4.98e-05 AATATGACAT TTTTTATG AATTAAAAAT chrX:18547885-18548005 65 4.98e-05 ACTCTGACAC TTTTTATG ACCGCCGTCT chr3R:6945195-6945315 85 4.98e-05 AAATGATTGC TTTTTATG ACCTCATAAA chr3R:16933822-16933942 13 4.98e-05 TGGCGTTCGC TTTTTATG TTGCTGGTCA chr3R:16484155-16484275 29 4.98e-05 CTAGCTTTTA TTTTTATG ACCAAGGTTA chr3R:18633266-18633386 59 4.98e-05 ATGTATAATA TTTTTATG AAGTGGTTTT chrX:23105811-23105931 97 4.98e-05 ATTAAAGTTT TTTTTATG GACCACTGAT chr3R:13986981-13987101 11 4.98e-05 ACTGTATAAC TTTTTATG AAGTCATAAA chr3R:20005480-20005600 26 4.98e-05 CTCGGTTCGG TTTTTATG GCCCACGAAT chr3R:5014802-5014922 34 4.98e-05 ATATTACTTA TTTTTATG CAGCTCACAG chr2R:5682001-5682121 10 4.98e-05 ACGAAACAA TTTTTATG ACTGCATTAA chr3R:16871445-16871565 20 4.98e-05 ATCATAAACA TTTTTATG GGCACTCGCA chr3L:21056105-21056225 39 8.00e-05 AAAAGTTTTG GTTTTATG TGTGCATATG chrX:6026820-6026940 75 8.00e-05 GTATTTGTTT GTTTTATG GCCGCATAAA chr3R:26934658-26934778 90 8.00e-05 CCACATTTAG GTTTTATG AGTTAAGTTC chr3L:8160137-8160257 7 8.00e-05 TGTACT GTTTTATG GTTGGTTTTA chr2R:18196818-18196938 45 8.00e-05 AACGAGCGCG GTTTTATG AGTCACGGCG chr3R:16944443-16944563 27 8.00e-05 ATTATTTTGG GTTTTATG GCCCCACTGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:8075447-8075567 5e-05 26_[+3]_86 chr3L:23339168-23339288 5e-05 73_[+3]_39 chr3R:8810987-8811107 5e-05 14_[+3]_98 chr3L:19202444-19202564 5e-05 22_[+3]_90 chr3L:19598833-19598953 5e-05 83_[+3]_29 chrX:18547885-18548005 5e-05 64_[+3]_48 chr3R:6945195-6945315 5e-05 84_[+3]_28 chr3R:16933822-16933942 5e-05 12_[+3]_100 chr3R:16484155-16484275 5e-05 28_[+3]_84 chr3R:18633266-18633386 5e-05 58_[+3]_54 chrX:23105811-23105931 5e-05 96_[+3]_16 chr3R:13986981-13987101 5e-05 10_[+3]_102 chr3R:20005480-20005600 5e-05 25_[+3]_87 chr3R:5014802-5014922 5e-05 33_[+3]_79 chr2R:5682001-5682121 5e-05 9_[+3]_103 chr3R:16871445-16871565 5e-05 19_[+3]_93 chr3L:21056105-21056225 8e-05 38_[+3]_74 chrX:6026820-6026940 8e-05 74_[+3]_38 chr3R:26934658-26934778 8e-05 89_[+3]_23 chr3L:8160137-8160257 8e-05 6_[+3]_106 chr2R:18196818-18196938 8e-05 44_[+3]_68 chr3R:16944443-16944563 8e-05 26_[+3]_86 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTTTTATG width=8 seqs=22 chrX:8075447-8075567 ( 27) TTTTTATG 1 chr3L:23339168-23339288 ( 74) TTTTTATG 1 chr3R:8810987-8811107 ( 15) TTTTTATG 1 chr3L:19202444-19202564 ( 23) TTTTTATG 1 chr3L:19598833-19598953 ( 84) TTTTTATG 1 chrX:18547885-18548005 ( 65) TTTTTATG 1 chr3R:6945195-6945315 ( 85) TTTTTATG 1 chr3R:16933822-16933942 ( 13) TTTTTATG 1 chr3R:16484155-16484275 ( 29) TTTTTATG 1 chr3R:18633266-18633386 ( 59) TTTTTATG 1 chrX:23105811-23105931 ( 97) TTTTTATG 1 chr3R:13986981-13987101 ( 11) TTTTTATG 1 chr3R:20005480-20005600 ( 26) TTTTTATG 1 chr3R:5014802-5014922 ( 34) TTTTTATG 1 chr2R:5682001-5682121 ( 10) TTTTTATG 1 chr3R:16871445-16871565 ( 20) TTTTTATG 1 chr3L:21056105-21056225 ( 39) GTTTTATG 1 chrX:6026820-6026940 ( 75) GTTTTATG 1 chr3R:26934658-26934778 ( 90) GTTTTATG 1 chr3L:8160137-8160257 ( 7) GTTTTATG 1 chr2R:18196818-18196938 ( 45) GTTTTATG 1 chr3R:16944443-16944563 ( 27) GTTTTATG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.6807 E= 4.3e+001 -1110 -1110 54 124 -1110 -1110 -1110 170 -1110 -1110 -1110 170 -1110 -1110 -1110 170 -1110 -1110 -1110 170 168 -1110 -1110 -1110 -1110 -1110 -1110 170 -1110 -1110 242 -1110 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 4.3e+001 0.000000 0.000000 0.272727 0.727273 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTTTATG MEME-3 regular expression -------------------------------------------------------------------------------- [TG]TTTTATG -------------------------------------------------------------------------------- Time 20.74 secs. ******************************************************************************** ******************************************************************************** MOTIF WGCAGTGC MEME-4 width = 8 sites = 19 llr = 184 E-value = 4.5e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 Description -------------------------------------------------------------------------------- Simplified A 4::a:::: pos.-specific C 1:a:3::a probability G :8::7:a: matrix T 52:::a:: bits 2.4 * ** 2.2 * ** 1.9 * ** 1.7 ** *** Relative 1.5 ******* Entropy 1.2 ******* (14.0 bits) 1.0 ******* 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGCAGTGC consensus AT C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:31220568-31220688 104 7.21e-06 AGCCCGAGAA TGCAGTGC AGCCCTGGT chr3R:21619866-21619986 43 1.45e-05 GTAAATTGCA AGCAGTGC TACGTTTTAC chr2L:23176096-23176216 81 1.45e-05 TTTTATCTTT AGCAGTGC CGGTAGCTTA chr2L:12520501-12520621 104 1.45e-05 CATTCATATA AGCAGTGC TCTCAAGAT chr3R:14308904-14309024 101 1.45e-05 TAATTAAAAT AGCAGTGC TCACAAGGGT chr3L:18460481-18460601 38 1.45e-05 GTGAACAACA AGCAGTGC TGATAGTGGT chr3R:17449517-17449637 30 1.45e-05 GTTACTTGAA AGCAGTGC ATATCGACCT chr3L:2885707-2885827 37 1.45e-05 TGCACGTTCA AGCAGTGC ACAATACGAT chr3L:13845416-13845536 79 2.20e-05 ATTCAGCATT TGCACTGC TTGAACCGAT chr3L:8652017-8652137 64 2.20e-05 TCTACATACA TGCACTGC TTGCGAATAC chr2L:15179091-15179211 49 2.20e-05 AAAGAAAATA TGCACTGC GGGAAAAATG chr2L:17921623-17921743 36 2.20e-05 TATGTGTGAG TGCACTGC AAGAAAACAT chrX:17305651-17305771 73 2.95e-05 ATGCTTTGGC AGCACTGC GTTTATATAT chr3L:21056105-21056225 102 3.40e-05 TGACAGCGTC CGCAGTGC AGAGAGATAA chr3R:30734680-30734800 31 4.59e-05 ATACATATCT TTCAGTGC ACCTGAAGAA chr2L:10554701-10554821 33 4.59e-05 TACTTGAGCA TTCAGTGC CGCACGAGGG chr2L:7998765-7998885 95 4.59e-05 TTAGTACATT TTCAGTGC CACCACAACA chr3R:6254596-6254716 64 4.59e-05 TCTGCTTTCG TTCAGTGC AATCAAGTTC chr3R:12638042-12638162 61 6.26e-05 TCTTCCTTTA CGCACTGC TTGGCAAGCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:31220568-31220688 7.2e-06 103_[+4]_9 chr3R:21619866-21619986 1.5e-05 42_[+4]_70 chr2L:23176096-23176216 1.5e-05 80_[+4]_32 chr2L:12520501-12520621 1.5e-05 103_[+4]_9 chr3R:14308904-14309024 1.5e-05 100_[+4]_12 chr3L:18460481-18460601 1.5e-05 37_[+4]_75 chr3R:17449517-17449637 1.5e-05 29_[+4]_83 chr3L:2885707-2885827 1.5e-05 36_[+4]_76 chr3L:13845416-13845536 2.2e-05 78_[+4]_34 chr3L:8652017-8652137 2.2e-05 63_[+4]_49 chr2L:15179091-15179211 2.2e-05 48_[+4]_64 chr2L:17921623-17921743 2.2e-05 35_[+4]_77 chrX:17305651-17305771 2.9e-05 72_[+4]_40 chr3L:21056105-21056225 3.4e-05 101_[+4]_11 chr3R:30734680-30734800 4.6e-05 30_[+4]_82 chr2L:10554701-10554821 4.6e-05 32_[+4]_80 chr2L:7998765-7998885 4.6e-05 94_[+4]_18 chr3R:6254596-6254716 4.6e-05 63_[+4]_49 chr3R:12638042-12638162 6.3e-05 60_[+4]_52 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF WGCAGTGC width=8 seqs=19 chr3R:31220568-31220688 ( 104) TGCAGTGC 1 chr3R:21619866-21619986 ( 43) AGCAGTGC 1 chr2L:23176096-23176216 ( 81) AGCAGTGC 1 chr2L:12520501-12520621 ( 104) AGCAGTGC 1 chr3R:14308904-14309024 ( 101) AGCAGTGC 1 chr3L:18460481-18460601 ( 38) AGCAGTGC 1 chr3R:17449517-17449637 ( 30) AGCAGTGC 1 chr3L:2885707-2885827 ( 37) AGCAGTGC 1 chr3L:13845416-13845536 ( 79) TGCACTGC 1 chr3L:8652017-8652137 ( 64) TGCACTGC 1 chr2L:15179091-15179211 ( 49) TGCACTGC 1 chr2L:17921623-17921743 ( 36) TGCACTGC 1 chrX:17305651-17305771 ( 73) AGCACTGC 1 chr3L:21056105-21056225 ( 102) CGCAGTGC 1 chr3R:30734680-30734800 ( 31) TTCAGTGC 1 chr2L:10554701-10554821 ( 33) TTCAGTGC 1 chr2L:7998765-7998885 ( 95) TTCAGTGC 1 chr3R:6254596-6254716 ( 64) TTCAGTGC 1 chr3R:12638042-12638162 ( 61) CGCACTGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4349 E= 4.5e+001 43 -87 -1089 62 -1089 -1089 208 -55 -1089 238 -1089 -1089 168 -1089 -1089 -1089 -1089 71 187 -1089 -1089 -1089 -1089 170 -1089 -1089 242 -1089 -1089 238 -1089 -1089 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.5e+001 0.421053 0.105263 0.000000 0.473684 0.000000 0.000000 0.789474 0.210526 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.315789 0.684211 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGCAGTGC MEME-4 regular expression -------------------------------------------------------------------------------- [TA][GT]CA[GC]TGC -------------------------------------------------------------------------------- Time 26.96 secs. ******************************************************************************** ******************************************************************************** MOTIF KKGCGCCA MEME-5 width = 8 sites = 19 llr = 181 E-value = 2.5e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::a pos.-specific C :1:6:a9: probability G 55a2a:1: matrix T 54:3:::: bits 2.4 * ** 2.2 * *** 1.9 * *** 1.7 * **** Relative 1.5 * **** Entropy 1.2 * **** (13.7 bits) 1.0 *** **** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGGCGCCA consensus GT T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:513221-513341 80 2.74e-06 TTTAGTCATG GGGCGCCA ACTCGATTCC chr2L:740170-740290 102 2.74e-06 CACATGTAGA GGGCGCCA CTGAGGATGC chr3R:25165700-25165820 43 7.26e-06 AAAAATTTAT TGGCGCCA GGACAGGCTC chr3R:16484155-16484275 72 7.26e-06 CTAGTGACAC TGGCGCCA GATATCGATA chr3L:20097392-20097512 48 7.26e-06 ATTCATTTGA TGGCGCCA TCTAGCAGAT chr3R:10535890-10536010 101 1.18e-05 CTCTCTCTTG GTGCGCCA GAGCGAGACG chr3R:21619866-21619986 13 1.18e-05 TTTAAAGATA GTGCGCCA TACTTGAATA chr3L:400405-400525 99 1.18e-05 CACTACTTCT GTGCGCCA TTAAAGCCCT chr2R:2848442-2848562 105 1.92e-05 agtattcagc ttgcgcca tgtgaaaa chr2R:20396923-20397043 11 2.63e-05 GCGGGTCAAA GGGTGCCA CCTAGAATGA chr3L:17846731-17846851 74 2.63e-05 ATTAATTAAT GGGTGCCA AAACTATAAA chr3R:17617305-17617425 98 3.78e-05 ATAACATAGA TGGTGCCA CGGATAATTT chr2R:18196818-18196938 88 3.78e-05 CTTTTATTAG TGGTGCCA ATTTATTGGT chr3R:16939789-16939909 41 4.94e-05 TTTATGGCCA GTGGGCCA AAGTGTTAAT chr3R:16996280-16996400 110 5.23e-05 CATTTGAAAA GCGCGCCA ACG chr3L:14003016-14003136 110 7.13e-05 CTTCTGCTTC TTGTGCCA TAC chr3L:10536366-10536486 33 7.13e-05 ACAGGATGAT TTGGGCCA ACGGGAAGTG chr2L:20005223-20005343 30 7.13e-05 TTGGATCAAG TTGGGCCA TCAAACAAGG chrX:9588048-9588168 89 8.30e-05 ATTTGTGAGT TGGCGCGA CTTGGCTTTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:513221-513341 2.7e-06 79_[+5]_33 chr2L:740170-740290 2.7e-06 101_[+5]_11 chr3R:25165700-25165820 7.3e-06 42_[+5]_70 chr3R:16484155-16484275 7.3e-06 71_[+5]_41 chr3L:20097392-20097512 7.3e-06 47_[+5]_65 chr3R:10535890-10536010 1.2e-05 100_[+5]_12 chr3R:21619866-21619986 1.2e-05 12_[+5]_100 chr3L:400405-400525 1.2e-05 98_[+5]_14 chr2R:2848442-2848562 1.9e-05 104_[+5]_8 chr2R:20396923-20397043 2.6e-05 10_[+5]_102 chr3L:17846731-17846851 2.6e-05 73_[+5]_39 chr3R:17617305-17617425 3.8e-05 97_[+5]_15 chr2R:18196818-18196938 3.8e-05 87_[+5]_25 chr3R:16939789-16939909 4.9e-05 40_[+5]_72 chr3R:16996280-16996400 5.2e-05 109_[+5]_3 chr3L:14003016-14003136 7.1e-05 109_[+5]_3 chr3L:10536366-10536486 7.1e-05 32_[+5]_80 chr2L:20005223-20005343 7.1e-05 29_[+5]_83 chrX:9588048-9588168 8.3e-05 88_[+5]_24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KKGCGCCA width=8 seqs=19 chr2L:513221-513341 ( 80) GGGCGCCA 1 chr2L:740170-740290 ( 102) GGGCGCCA 1 chr3R:25165700-25165820 ( 43) TGGCGCCA 1 chr3R:16484155-16484275 ( 72) TGGCGCCA 1 chr3L:20097392-20097512 ( 48) TGGCGCCA 1 chr3R:10535890-10536010 ( 101) GTGCGCCA 1 chr3R:21619866-21619986 ( 13) GTGCGCCA 1 chr3L:400405-400525 ( 99) GTGCGCCA 1 chr2R:2848442-2848562 ( 105) TTGCGCCA 1 chr2R:20396923-20397043 ( 11) GGGTGCCA 1 chr3L:17846731-17846851 ( 74) GGGTGCCA 1 chr3R:17617305-17617425 ( 98) TGGTGCCA 1 chr2R:18196818-18196938 ( 88) TGGTGCCA 1 chr3R:16939789-16939909 ( 41) GTGGGCCA 1 chr3R:16996280-16996400 ( 110) GCGCGCCA 1 chr3L:14003016-14003136 ( 110) TTGTGCCA 1 chr3L:10536366-10536486 ( 33) TTGGGCCA 1 chr2L:20005223-20005343 ( 30) TTGGGCCA 1 chrX:9588048-9588168 ( 89) TGGCGCGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4349 E= 2.5e+003 -1089 -1089 134 77 -1089 -187 149 45 -1089 -1089 242 -1089 -1089 159 -25 -23 -1089 -1089 242 -1089 -1089 238 -1089 -1089 -1089 230 -183 -1089 168 -1089 -1089 -1089 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 2.5e+003 0.000000 0.000000 0.473684 0.526316 0.000000 0.052632 0.526316 0.421053 0.000000 0.000000 1.000000 0.000000 0.000000 0.578947 0.157895 0.263158 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.947368 0.052632 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KKGCGCCA MEME-5 regular expression -------------------------------------------------------------------------------- [TG][GT]G[CT]GCCA -------------------------------------------------------------------------------- Time 33.10 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:16871445-16871565 2.06e-03 19_[+3(4.98e-05)]_93 chr3R:16944443-16944563 1.60e-03 26_[+3(8.00e-05)]_56_[+1(4.94e-05)]_\ 6_[+1(8.11e-05)]_8 chr2R:5682001-5682121 1.78e-02 9_[+3(4.98e-05)]_103 chr3R:5438906-5439026 7.70e-01 120 chr3R:16770925-16771045 1.62e-02 112_[+2(2.03e-05)] chr3R:16960268-16960388 6.18e-01 120 chr3R:5014802-5014922 6.05e-05 33_[+3(4.98e-05)]_47_[+1(7.54e-05)]_\ 4_[+1(6.32e-06)]_12 chr2L:7856522-7856642 1.11e-02 50_[+1(4.94e-05)]_62 chrX:10170904-10171024 1.44e-03 39_[+2(5.32e-05)]_73 chr3R:5028487-5028607 5.26e-03 63_[+1(1.64e-05)]_49 chr3R:10554235-10554355 5.28e-01 120 chr3R:22794089-22794209 8.77e-02 120 chr3R:20005480-20005600 1.27e-03 25_[+3(4.98e-05)]_49_[+1(7.54e-05)]_\ 30 chr3R:16915738-16915858 8.20e-05 3_[+2(2.03e-05)]_59_[+1(6.32e-06)]_\ 42 chr3L:12305996-12306116 8.73e-01 120 chr3L:9047258-9047378 1.00e+00 120 chr2R:13043303-13043423 1.89e-01 120 chr2L:20005223-20005343 7.45e-04 29_[+5(7.13e-05)]_83 chr2L:740170-740290 3.42e-03 101_[+5(2.74e-06)]_11 chr2R:5090506-5090626 8.16e-01 120 chr3L:400405-400525 4.73e-05 35_[+1(2.23e-05)]_55_[+5(1.18e-05)]_\ 14 chr3R:25754986-25755106 9.96e-01 120 chr3L:24976123-24976243 5.61e-01 120 chr2L:22579057-22579177 8.90e-01 120 chr3L:10909516-10909636 2.32e-04 9_[+1(1.22e-05)]_12_[+1(9.76e-05)]_\ 57_[+2(2.03e-05)]_18 chr2L:23068403-23068523 2.82e-02 52_[+4(8.72e-05)]_60 chr2R:1264260-1264380 3.76e-01 120 chr3L:19446782-19446902 5.77e-01 120 chr3R:13986981-13987101 2.25e-02 10_[+3(4.98e-05)]_102 chr3L:20097392-20097512 4.18e-03 47_[+5(7.26e-06)]_65 chrX:23105811-23105931 2.70e-01 96_[+3(4.98e-05)]_16 chr3R:6845736-6845856 5.29e-02 120 chr2L:6723385-6723505 8.83e-01 120 chr3L:4992995-4993115 3.30e-04 73_[+1(2.23e-05)]_25_[+2(5.32e-05)]_\ 6 chrX:9283178-9283298 7.50e-04 32_[+1(5.37e-05)]_80 chr3R:16821627-16821747 1.66e-02 120 chr3L:25120605-25120725 3.65e-01 120 chrX:18533369-18533489 8.32e-01 120 chr3L:432675-432795 3.21e-01 120 chr3R:18633266-18633386 9.27e-02 58_[+3(4.98e-05)]_54 chr2L:709844-709964 6.45e-01 120 chr2R:4671718-4671838 5.78e-01 120 chr2R:11402159-11402279 8.60e-01 120 chr3R:7591326-7591446 9.97e-01 120 chr3R:3622996-3623116 6.50e-01 120 chr3L:2885707-2885827 2.85e-02 36_[+4(1.45e-05)]_76 chr3R:10431181-10431301 5.90e-01 120 chrX:15310061-15310181 9.91e-01 120 chr3L:10334209-10334329 2.01e-01 120 chr3L:5979861-5979981 3.43e-02 120 chr2L:15272139-15272259 6.49e-01 120 chr3R:16484155-16484275 4.40e-04 28_[+3(4.98e-05)]_35_[+5(7.26e-06)]_\ 41 chr2L:513221-513341 1.43e-05 17_[+2(2.03e-05)]_54_[+5(2.74e-06)]_\ 33 chr3R:16743637-16743757 5.65e-03 102_[+1(6.93e-05)]_10 chr3R:20057622-20057742 6.09e-01 120 chrX:8782255-8782375 3.79e-01 120 chr3L:11511379-11511499 9.63e-01 120 chr2R:18196818-18196938 1.27e-03 44_[+3(8.00e-05)]_35_[+5(3.78e-05)]_\ 25 chr3R:25678610-25678730 5.21e-04 18_[+2(2.03e-05)]_94 chr2R:8572686-8572806 5.89e-01 120 chr2L:21896180-21896300 6.43e-01 120 chrX:13287930-13288050 3.19e-01 120 chr3R:26007467-26007587 1.10e-02 120 chr2L:17921623-17921743 7.80e-03 35_[+4(2.20e-05)]_77 chr3L:6807670-6807790 8.07e-01 120 chr3L:8160137-8160257 1.85e-01 6_[+3(8.00e-05)]_106 chr3L:10392697-10392817 2.41e-01 120 chrX:20165941-20166061 7.93e-02 120 chr3R:6254596-6254716 6.23e-03 63_[+4(4.59e-05)]_49 chr3L:17465825-17465945 6.43e-01 120 chr3R:16933822-16933942 2.10e-02 12_[+3(4.98e-05)]_100 chr2R:2848442-2848562 1.38e-02 104_[+5(1.92e-05)]_8 chrX:4399782-4399902 3.33e-02 120 chrX:14669343-14669463 6.02e-01 120 chr3R:6945195-6945315 3.68e-04 12_[+1(2.92e-05)]_64_[+3(4.98e-05)]_\ 28 chr3L:27083944-27084064 7.56e-01 120 chr2L:8740986-8741106 1.10e-01 120 chr3L:12050757-12050877 2.59e-01 120 chr2R:10604153-10604273 3.95e-01 120 chr3L:15835337-15835457 7.49e-02 120 chr3R:16963574-16963694 6.28e-02 36_[+1(3.53e-05)]_76 chr3R:14387340-14387460 3.73e-04 33_[+1(2.23e-05)]_33_[+1(1.54e-06)]_\ 38 chr3L:11419630-11419750 2.31e-02 120 chr2R:4618881-4619001 3.35e-01 120 chrX:6796192-6796312 3.38e-01 120 chr3L:6454796-6454916 5.65e-04 33_[+1(1.54e-06)]_79 chr3L:17846731-17846851 7.81e-02 73_[+5(2.63e-05)]_39 chr3R:15330611-15330731 4.60e-02 1_[+2(5.32e-05)]_111 chr3R:17449517-17449637 1.18e-01 29_[+4(1.45e-05)]_83 chr2L:8612928-8613048 2.73e-01 120 chr3R:16743239-16743359 3.34e-01 120 chr3L:18460481-18460601 1.16e-01 37_[+4(1.45e-05)]_75 chr3L:13008172-13008292 9.50e-01 120 chrX:18547885-18548005 1.95e-03 64_[+3(4.98e-05)]_48 chrX:19796520-19796640 8.17e-01 120 chr3R:25165700-25165820 1.08e-03 42_[+5(7.26e-06)]_70 chr3L:4553538-4553658 3.58e-01 120 chrX:9588048-9588168 4.27e-02 88_[+5(8.30e-05)]_24 chr3R:17231713-17231833 7.91e-04 1_[+1(1.22e-05)]_111 chrX:3058030-3058150 7.37e-02 120 chr3R:16978040-16978160 8.69e-01 120 chr3R:16939789-16939909 1.27e-02 40_[+5(4.94e-05)]_72 chr2L:2348605-2348725 8.75e-01 120 chr2R:23051800-23051920 8.40e-01 120 chr2R:5604838-5604958 9.69e-01 120 chr3R:24360124-24360244 3.36e-01 120 chrX:2138528-2138648 7.81e-01 120 chr3R:10433557-10433677 1.34e-01 120 chr3L:8769828-8769948 4.86e-03 49_[+2(2.03e-05)]_63 chr2L:19316673-19316793 2.82e-04 108_[+2(2.03e-05)]_4 chr3R:9050636-9050756 8.22e-01 120 chr2L:6194053-6194173 5.69e-01 120 chr2L:8732913-8733033 9.93e-01 120 chr3R:31220568-31220688 1.02e-02 103_[+4(7.21e-06)]_9 chr2R:20326865-20326985 6.90e-01 120 chr2L:17242573-17242693 5.28e-04 30_[+5(1.92e-05)]_82 chr2L:5723992-5724112 3.94e-01 120 chr3L:6452529-6452649 4.85e-02 72_[+1(7.23e-05)]_40 chr3L:20920701-20920821 2.04e-01 120 chrX:9911821-9911941 6.40e-01 120 chr2R:24779832-24779952 5.81e-01 120 chr2L:22247887-22248007 6.42e-01 120 chr3L:27136363-27136483 4.03e-01 120 chr2R:9972770-9972890 2.85e-01 120 chr2R:4130895-4131015 1.09e-01 120 chr3R:23716821-23716941 2.36e-01 120 chr3R:14308904-14309024 1.37e-01 100_[+4(1.45e-05)]_12 chr3L:6694241-6694361 2.64e-02 70_[+2(5.32e-05)]_42 chr2L:23174355-23174475 8.27e-01 120 chr2R:4471091-4471211 6.27e-01 120 chr2R:20396923-20397043 8.49e-04 10_[+5(2.63e-05)]_22_[+2(5.32e-05)]_\ 72 chr2L:19358800-19358920 5.79e-02 120 chrX:15910125-15910245 5.11e-01 120 chr3R:3734822-3734942 3.85e-01 120 chr3R:3750288-3750408 6.52e-01 120 chr2L:15465267-15465387 7.63e-01 120 chr3R:26934658-26934778 1.28e-02 89_[+3(8.00e-05)]_23 chr2R:12344745-12344865 4.49e-02 99_[+2(5.32e-05)]_13 chrX:9692683-9692803 1.20e-01 120 chrX:15475534-15475654 2.56e-01 120 chr2L:14453226-14453346 1.96e-02 63_[+1(1.22e-05)]_49 chr2R:4013939-4014059 2.19e-01 120 chr2R:7300793-7300913 5.68e-01 120 chr3R:20028007-20028127 8.88e-02 64_[+1(4.94e-05)]_48 chrX:6026820-6026940 3.11e-02 74_[+3(8.00e-05)]_38 chr3L:25115923-25116043 1.24e-01 120 chr2R:14480742-14480862 1.00e+00 120 chrX:13421193-13421313 8.30e-01 120 chr3L:4554340-4554460 6.38e-01 120 chr3L:10536366-10536486 1.64e-01 32_[+5(7.13e-05)]_80 chrX:17305651-17305771 7.82e-02 72_[+4(2.95e-05)]_40 chr2L:15179091-15179211 1.10e-02 48_[+4(2.20e-05)]_64 chr2L:12520501-12520621 2.05e-01 103_[+4(1.45e-05)]_9 chr3L:27279176-27279296 5.43e-01 120 chrX:6543727-6543847 9.96e-01 120 chr3L:19598833-19598953 3.36e-01 83_[+3(4.98e-05)]_29 chr3R:6660094-6660214 6.80e-02 120 chr3L:8024361-8024481 1.85e-01 120 chr2R:4546603-4546723 6.41e-02 120 chr3L:19202444-19202564 2.24e-01 22_[+3(4.98e-05)]_90 chr3R:10622350-10622470 3.06e-01 120 chr3R:16923599-16923719 3.77e-02 36_[+1(1.22e-05)]_76 chr2L:16883694-16883814 6.03e-03 97_[+2(2.03e-05)]_15 chr3R:6708991-6709111 2.34e-01 120 chrX:7104532-7104652 2.06e-01 120 chr3R:8938598-8938718 8.98e-01 120 chr3R:13208565-13208685 9.28e-01 120 chrX:16840011-16840131 7.67e-02 47_[+1(7.07e-05)]_65 chr3R:22197810-22197930 2.06e-02 38_[+2(2.03e-05)]_74 chr3R:6908198-6908318 1.14e-01 120 chr3L:13993799-13993919 2.04e-01 94_[+2(5.32e-05)]_18 chr3R:21140642-21140762 8.09e-01 120 chr2R:1590376-1590496 5.95e-01 120 chr3R:5043040-5043160 7.40e-02 120 chr3R:12638042-12638162 1.04e-01 60_[+4(6.26e-05)]_52 chr2L:6622752-6622872 7.19e-01 120 chr3R:4905904-4906024 2.54e-01 120 chr2R:5753349-5753469 9.91e-01 120 chr3R:8810987-8811107 1.08e-01 14_[+3(4.98e-05)]_98 chrX:3109030-3109150 1.24e-01 120 chr2R:23865308-23865428 1.90e-01 120 chrX:6067711-6067831 7.05e-03 93_[+1(3.53e-05)]_19 chr3L:9211417-9211537 6.12e-01 120 chr2L:12005490-12005610 1.19e-02 120 chrX:16671189-16671309 3.81e-01 120 chr2L:7998765-7998885 6.95e-02 94_[+4(4.59e-05)]_18 chr2R:5350483-5350603 5.83e-01 120 chr3L:24536111-24536231 5.92e-01 120 chr3R:26717499-26717619 5.24e-01 120 chr2L:6967715-6967835 8.37e-01 120 chr2R:17205984-17206104 5.01e-01 120 chr3L:8652017-8652137 4.59e-04 6_[+1(4.39e-05)]_49_[+4(2.20e-05)]_\ 24_[+4(2.20e-05)]_17 chr2R:4188159-4188279 8.14e-02 120 chr3L:23339168-23339288 1.27e-01 73_[+3(4.98e-05)]_39 chr3R:4400061-4400181 2.94e-01 120 chr2R:1527092-1527212 1.44e-01 120 chr2R:5260622-5260742 5.78e-01 120 chr2L:23176096-23176216 2.29e-02 80_[+4(1.45e-05)]_32 chr3L:5622005-5622125 8.87e-01 120 chr3R:21619866-21619986 4.30e-06 12_[+5(1.18e-05)]_22_[+4(1.45e-05)]_\ 24_[+1(3.53e-05)]_7_[+4(2.20e-05)]_23 chr3L:14003016-14003136 1.33e-01 109_[+5(7.13e-05)]_3 chrX:6373041-6373161 2.84e-01 120 chr2L:10554701-10554821 4.42e-04 32_[+4(4.59e-05)]_36_[+2(2.03e-05)]_\ 36 chrX:8075447-8075567 2.62e-02 26_[+3(4.98e-05)]_86 chr3L:13845416-13845536 1.43e-02 78_[+4(2.20e-05)]_34 chr3L:15104258-15104378 3.56e-02 70_[+1(6.09e-05)]_42 chr2L:3435270-3435390 3.65e-01 120 chr3L:21738560-21738680 5.97e-01 120 chr2L:22129936-22130056 3.82e-01 120 chrX:19106952-19107072 4.54e-01 120 chr3L:27858264-27858384 9.20e-01 120 chr2L:10422782-10422902 8.70e-01 120 chr3R:22494674-22494794 1.25e-01 87_[+2(2.03e-05)]_25 chr3R:17617305-17617425 4.19e-03 97_[+5(3.78e-05)]_15 chr3R:10535890-10536010 7.50e-04 78_[+1(3.53e-05)]_14_[+5(1.18e-05)]_\ 12 chr3L:21056105-21056225 9.58e-05 38_[+3(8.00e-05)]_55_[+4(3.40e-05)]_\ 11 chr3L:6817050-6817170 7.56e-01 120 chr2R:8631886-8632006 5.38e-01 120 chr2R:11219238-11219358 3.48e-01 120 chrX:19748788-19748908 6.54e-03 49_[+1(6.37e-05)]_63 chr3L:5280093-5280213 4.02e-01 120 chr3L:5608260-5608380 8.24e-01 120 chrX:7537902-7538022 1.26e-01 120 chrX:9600886-9601006 8.35e-01 120 chr3L:24028386-24028506 5.65e-01 120 chr2R:10075605-10075725 5.11e-01 120 chr3R:16996280-16996400 1.17e-02 109_[+5(5.23e-05)]_3 chr2R:22554152-22554272 5.19e-01 120 chr3L:8449879-8449999 2.93e-01 120 chr3R:22526482-22526602 7.16e-02 120 chr3L:13387785-13387905 3.71e-01 120 chr3R:30734680-30734800 1.49e-01 30_[+4(4.59e-05)]_82 chr3R:29076192-29076312 3.28e-01 120 chr3L:12861672-12861792 1.95e-01 120 chrX:9106809-9106929 4.34e-01 120 chr3R:14308064-14308184 1.32e-01 120 chr3R:23763248-23763368 3.80e-01 120 chr2L:22121675-22121795 6.57e-01 120 chr3R:25652235-25652355 2.95e-01 120 chr3R:9214370-9214490 2.34e-02 120 chrX:6542464-6542584 4.00e-01 120 chr2R:5340964-5341084 7.63e-01 120 chr3R:4846906-4847026 6.57e-01 120 chrX:3714137-3714257 9.44e-01 120 chr3L:1534174-1534294 7.23e-01 120 chr2R:15245049-15245169 1.07e-04 54_[+5(7.26e-06)]_58 chr3L:441876-441996 8.38e-02 15_[+1(6.09e-05)]_97 chr2L:12586950-12587070 5.62e-02 120 chr3R:24585210-24585330 8.42e-01 120 chr2L:14490183-14490303 2.87e-02 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n07.farnam.hpc.yale.internal ********************************************************************************