******************************************************************************** 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/Suvar2-HP2.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr3R:3974683-3974803 1.0000 120 chr2R:2562718-2562838 1.0000 120 chr3R:2566029-2566149 1.0000 120 chr2R:4472602-4472722 1.0000 120 chr2R:1347811-1347931 1.0000 120 chr2R:5410436-5410556 1.0000 120 chr2R:3003443-3003563 1.0000 120 chr2R:4190836-4190956 1.0000 120 chr2R:2952646-2952766 1.0000 120 chr3L:23103683-23103803 1.0000 120 chr3L:27860556-27860676 1.0000 120 chr3L:25175729-25175849 1.0000 120 chr2R:3003094-3003214 1.0000 120 chr2R:4186346-4186466 1.0000 120 chr3L:23343555-23343675 1.0000 120 chr2R:4426722-4426842 1.0000 120 chr2R:4515364-4515484 1.0000 120 chr3R:3103818-3103938 1.0000 120 chr2R:2953548-2953668 1.0000 120 chr3R:727235-727355 1.0000 120 chrY:3245904-3246024 1.0000 120 chr2R:5301506-5301626 1.0000 120 chr3R:864631-864751 1.0000 120 chr2R:4821614-4821734 1.0000 120 chr3L:25176668-25176788 1.0000 120 chr2R:5667349-5667469 1.0000 120 chr2R:5344736-5344856 1.0000 120 chr2L:22979961-22980081 1.0000 120 chr4:45577-45697 1.0000 120 chr2R:1366342-1366462 1.0000 120 chr2R:4596085-4596205 1.0000 120 chr4:182519-182639 1.0000 120 chr2L:23072076-23072196 1.0000 120 chr3L:24929438-24929558 1.0000 120 chr2R:1356558-1356678 1.0000 120 chr4:1198053-1198173 1.0000 120 chr4:315872-315992 1.0000 120 chr2L:22575452-22575572 1.0000 120 chr4:55029-55149 1.0000 120 chr2R:1350700-1350820 1.0000 120 chr2R:4222108-4222228 1.0000 120 chr2L:22798414-22798534 1.0000 120 chr3L:27171697-27171817 1.0000 120 chr3R:2134490-2134610 1.0000 120 chr3R:2198423-2198543 1.0000 120 chr3L:25118196-25118316 1.0000 120 chr2R:4248651-4248771 1.0000 120 chr3L:25122358-25122478 1.0000 120 chr2R:5262440-5262560 1.0000 120 chr2L:22572663-22572783 1.0000 120 chr3L:25121637-25121757 1.0000 120 chr3L:23728577-23728697 1.0000 120 chr2R:5666390-5666510 1.0000 120 chr2R:5095593-5095713 1.0000 120 chr2R:4297813-4297933 1.0000 120 chr3L:23726296-23726416 1.0000 120 chr2R:4633657-4633777 1.0000 120 chr3L:27105765-27105885 1.0000 120 chr2R:1578052-1578172 1.0000 120 chr2R:4617528-4617648 1.0000 120 chrX:22443598-22443718 1.0000 120 chr3R:1815896-1816016 1.0000 120 chr3L:25703321-25703441 1.0000 120 chr2R:4616609-4616729 1.0000 120 chr4:1554-1674 1.0000 120 chr2R:2495788-2495908 1.0000 120 chr2R:2960272-2960392 1.0000 120 chr3L:23568685-23568805 1.0000 120 chr2L:22336214-22336334 1.0000 120 chr2R:5068160-5068280 1.0000 120 chr2R:1211269-1211389 1.0000 120 chr3R:3788282-3788402 1.0000 120 chr2R:1211512-1211632 1.0000 120 chr4:60851-60971 1.0000 120 chr2R:5414949-5415069 1.0000 120 chr2R:2856719-2856839 1.0000 120 chr2R:5140486-5140606 1.0000 120 chr2R:5143801-5143921 1.0000 120 chr2L:22921208-22921328 1.0000 120 chr2R:4552266-4552386 1.0000 120 chr2L:23374213-23374333 1.0000 120 chr2R:1348587-1348707 1.0000 120 chr3R:2822979-2823099 1.0000 120 chr3L:23671206-23671326 1.0000 120 chr2L:23173053-23173173 1.0000 120 chr2L:22573525-22573645 1.0000 120 chr3L:23532202-23532322 1.0000 120 chr2R:1072913-1073033 1.0000 120 chr2R:5398919-5399039 1.0000 120 chr3L:27269035-27269155 1.0000 120 chr2R:5360049-5360169 1.0000 120 chr2R:2944986-2945106 1.0000 120 chr2R:5299243-5299363 1.0000 120 chr2R:4517286-4517406 1.0000 120 chr2L:22292923-22293043 1.0000 120 chr2R:5341952-5342072 1.0000 120 chr2R:5649047-5649167 1.0000 120 chr3R:2858589-2858709 1.0000 120 chr2R:3960792-3960912 1.0000 120 chr2R:5397768-5397888 1.0000 120 chr2R:2771110-2771230 1.0000 120 chr2R:4785125-4785245 1.0000 120 chr2L:22248095-22248215 1.0000 120 chr2R:5670572-5670692 1.0000 120 chr3L:28010726-28010846 1.0000 120 chr3L:27135155-27135275 1.0000 120 chr3L:27174709-27174829 1.0000 120 chr4:66023-66143 1.0000 120 chr3R:7080662-7080782 1.0000 120 chr2R:5124973-5125093 1.0000 120 chr2L:22567536-22567656 1.0000 120 chr3L:27265754-27265874 1.0000 120 chr3L:25106976-25107096 1.0000 120 chr2R:5304293-5304413 1.0000 120 chr4:1234869-1234989 1.0000 120 chr2R:4221336-4221456 1.0000 120 chr4:1156404-1156524 1.0000 120 chr2L:22548858-22548978 1.0000 120 chr2R:4017440-4017560 1.0000 120 chr4:306732-306852 1.0000 120 chr3L:25175928-25176048 1.0000 120 chr3L:23260063-23260183 1.0000 120 chr3L:23262707-23262827 1.0000 120 chr4:130650-130770 1.0000 120 chr2L:22993369-22993489 1.0000 120 chr3L:24927026-24927146 1.0000 120 chr2R:4268907-4269027 1.0000 120 chr2R:4550521-4550641 1.0000 120 chr3L:23738043-23738163 1.0000 120 chr2R:5183896-5184016 1.0000 120 chr2R:5185784-5185904 1.0000 120 chr3L:25196270-25196390 1.0000 120 chr2R:1523110-1523230 1.0000 120 chr2L:22569708-22569828 1.0000 120 chr2R:4615461-4615581 1.0000 120 chr2R:1071583-1071703 1.0000 120 chr2R:5089440-5089560 1.0000 120 chr2R:2109382-2109502 1.0000 120 chr3R:1212979-1213099 1.0000 120 chr2R:1994747-1994867 1.0000 120 chrX:21634439-21634559 1.0000 120 chr3L:26528422-26528542 1.0000 120 chr2L:22172996-22173116 1.0000 120 chr3L:23245093-23245213 1.0000 120 chr2R:3500688-3500808 1.0000 120 chr3L:25849855-25849975 1.0000 120 chr3L:25675651-25675771 1.0000 120 chr4:315673-315793 1.0000 120 chr3L:27865655-27865775 1.0000 120 chr2L:21558488-21558608 1.0000 120 chr3L:23081349-23081469 1.0000 120 chr2R:1995682-1995802 1.0000 120 chr2R:4594379-4594499 1.0000 120 chr2L:22570209-22570329 1.0000 120 chr2L:22551824-22551944 1.0000 120 chr3R:3845888-3846008 1.0000 120 chr4:62623-62743 1.0000 120 chr2R:4123193-4123313 1.0000 120 chr3L:23123818-23123938 1.0000 120 chr2R:4124714-4124834 1.0000 120 chrY:380271-380391 1.0000 120 chr3L:24029927-24030047 1.0000 120 chr2R:2848242-2848362 1.0000 120 chr4:467114-467234 1.0000 120 chr4:184706-184826 1.0000 120 chr3R:3589775-3589895 1.0000 120 chr4:1166071-1166191 1.0000 120 chr3L:23589433-23589553 1.0000 120 chr2R:5145374-5145494 1.0000 120 chr3R:2198623-2198743 1.0000 120 chr2R:4801954-4802074 1.0000 120 chr2R:3582001-3582121 1.0000 120 chr3L:24975032-24975152 1.0000 120 chr2R:4309754-4309874 1.0000 120 chr2R:4547380-4547500 1.0000 120 chr2R:4225052-4225172 1.0000 120 chr2R:5669677-5669797 1.0000 120 chr2L:23372712-23372832 1.0000 120 chr4:1260516-1260636 1.0000 120 chr2R:2118403-2118523 1.0000 120 chr2L:10231734-10231854 1.0000 120 chr2R:4701363-4701483 1.0000 120 chr2R:4593708-4593828 1.0000 120 chr2R:5364792-5364912 1.0000 120 chr3R:566832-566952 1.0000 120 chr3L:27266008-27266128 1.0000 120 chr2L:21558695-21558815 1.0000 120 chr3L:23583585-23583705 1.0000 120 chr2R:5013795-5013915 1.0000 120 chr2R:5980800-5980920 1.0000 120 chr3L:23555713-23555833 1.0000 120 chr3R:3843039-3843159 1.0000 120 chr3L:23726500-23726620 1.0000 120 chr3L:23249190-23249310 1.0000 120 chr4:46592-46712 1.0000 120 chr2L:23315167-23315287 1.0000 120 chr2R:5125827-5125947 1.0000 120 chr3R:3118000-3118120 1.0000 120 chr3L:27134375-27134495 1.0000 120 chr2R:5529416-5529536 1.0000 120 chr2R:5305377-5305497 1.0000 120 chr3L:27082940-27083060 1.0000 120 chr3L:23686363-23686483 1.0000 120 chr3R:3786824-3786944 1.0000 120 chr2L:22918683-22918803 1.0000 120 chr4:1255841-1255961 1.0000 120 chr3R:2411940-2412060 1.0000 120 chr3L:27085022-27085142 1.0000 120 chr3L:27263099-27263219 1.0000 120 chr4:180855-180975 1.0000 120 chr2L:22578022-22578142 1.0000 120 chr2R:4549660-4549780 1.0000 120 chr2L:22918961-22919081 1.0000 120 chrX:11148898-11149018 1.0000 120 chr2R:5603001-5603121 1.0000 120 chr3R:3587119-3587239 1.0000 120 chr2R:5129767-5129887 1.0000 120 chr2L:22758288-22758408 1.0000 120 chr2L:23010163-23010283 1.0000 120 chr2R:5352849-5352969 1.0000 120 chr2R:5358799-5358919 1.0000 120 chr4:467348-467468 1.0000 120 chr3L:23688138-23688258 1.0000 120 chr3L:26015253-26015373 1.0000 120 chr3L:27085897-27086017 1.0000 120 chr2L:22574423-22574543 1.0000 120 chr3L:24205357-24205477 1.0000 120 chr2L:22293956-22294076 1.0000 120 chr3L:26224221-26224341 1.0000 120 chr4:1186977-1187097 1.0000 120 chr3L:24536355-24536475 1.0000 120 chr4:1144837-1144957 1.0000 120 chr2R:4776528-4776648 1.0000 120 chr2R:2947701-2947821 1.0000 120 chr4:42397-42517 1.0000 120 chr2R:4633865-4633985 1.0000 120 chr3L:23104641-23104761 1.0000 120 chr2R:5664597-5664717 1.0000 120 chr2R:4134225-4134345 1.0000 120 chr3R:3734131-3734251 1.0000 120 chr4:445577-445697 1.0000 120 chr2R:1071805-1071925 1.0000 120 chr2R:5417711-5417831 1.0000 120 chr3L:23688938-23689058 1.0000 120 chr4:1148109-1148229 1.0000 120 chr3L:23241065-23241185 1.0000 120 chr2R:5980999-5981119 1.0000 120 chr2R:4192231-4192351 1.0000 120 chr2R:4519640-4519760 1.0000 120 chr3L:27358871-27358991 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_Suvar2-HP2/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Suvar2-HP2.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 0.309 C 0.19 G 0.191 T 0.31 Background letter frequencies (from file dataset with add-one prior applied): A 0.309 C 0.19 G 0.191 T 0.31 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GTGTGVRC MEME-1 width = 8 sites = 43 llr = 355 E-value = 2.7e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::35: pos.-specific C :::3:22a probability G a:a:743: matrix T :a:731:: bits 2.4 * * * 2.2 * * * 1.9 * * * 1.7 *** * Relative 1.4 *** * * Entropy 1.2 *** * * (11.9 bits) 1.0 ***** * 0.7 ***** * 0.5 ****** * 0.2 ******** 0.0 -------- Multilevel GTGTGGAC consensus CTAG sequence CC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:23262707-23262827 53 7.51e-06 GTTGCTGTGG GTGTGGAC CTATCTGAAT chr2R:5305377-5305497 60 1.68e-05 GGACTTTAAC GTGTGGGC CGCTCTAGTG chr3L:27265754-27265874 45 1.68e-05 gaggcactga gtgcggac acaagctatc chr2R:1211512-1211632 105 1.68e-05 ACttgcaaaa gtgtgggc gcggcaga chr4:55029-55149 103 1.68e-05 tttttcaaaa gtgtgggc gtgatagttt chr2R:2562718-2562838 34 1.68e-05 tcgAGCGGCG GTGCGGAC TAACGATCGA chr3L:28010726-28010846 9 2.42e-05 aagtgtgg gtgtggcc gtgttggtaa chr2R:4297813-4297933 68 2.42e-05 GCCTCCATCG GTGCGGGC CACGTCCACG chr3L:23343555-23343675 30 2.42e-05 AAGTACGGTT GTGTGGCC AACGGTTCCT chr2R:4615461-4615581 87 3.45e-05 acaactgtat gtgtgcac acgcatgctc chr4:306732-306852 81 3.45e-05 acatctgtat gtgtgcac acgtatgctc chr2R:4617528-4617648 1 3.45e-05 . gtgtgcac acatgcagtt chr3L:23123818-23123938 31 4.37e-05 atgcatccgg gtgtgcgc gcacccgaat chr3L:25849855-25849975 86 4.37e-05 attgattcgg gtgcgcac acaacggggt chr2R:2771110-2771230 62 4.37e-05 aaaatgatat gtgcgcac attatgtatg chr4:1148109-1148229 37 5.59e-05 cccgttacta gtgtgaac gcgaactcga chr2R:2109382-2109502 75 5.59e-05 tactcagctt gtgtgaac gcgaacgcga chr2R:5068160-5068280 73 5.59e-05 TCAGCTGGAA GTGTGAAC GAGACATTTT chr3L:27171697-27171817 20 5.59e-05 TCAAGTGTGA GTGTGAac acttttaaac chr3L:27082940-27083060 14 6.33e-05 tttaaaaaat gtgcgcgc ggtaattttg chr2R:2495788-2495908 22 6.33e-05 gcacccggtt gtgcgcgc acccgaatca chr2R:5414949-5415069 75 7.82e-05 AATTACGAAA GTGCGAAC ACTTCAACAA chr2R:2947701-2947821 10 9.31e-05 CAAATACAA GTGTGACC GTTACATAAC chr2R:5140486-5140606 42 9.31e-05 TGTACCAGCA GTGTGACC GCCTTACTTT chr3R:864631-864751 1 9.31e-05 . gtgtgacc aagctgactg chrY:3245904-3246024 25 9.31e-05 ctttacattg gtgtgacc aagctgactg chr2R:4633865-4633985 94 1.05e-04 AGATCAAGAA GTGTTGAC ACGAGTCATC chr3L:23589433-23589553 96 1.25e-04 acgaattttt gtgctgac tccaggctcg chr2R:5089440-5089560 20 1.25e-04 TAAATGATCC GTGTTGGC TTTCTGAGCT chr2R:5095593-5095713 89 1.25e-04 CTGTCGTCCG GTGCTGAC GTTGCGATGG chr2R:4785125-4785245 56 1.37e-04 TTGTGGGGAT GTGTTGCC TACAATGGGT chr3L:23103683-23103803 12 1.37e-04 tgattttttt gtgctggc ttcagggtct chr3L:24205357-24205477 46 1.42e-04 GTTTCATGCA GTGCTGCC ACCTGTGCTA chr3L:23249190-23249310 98 1.42e-04 TCGAGTTGAA GTGCTGCC ACAAGAAGGA chr2R:4701363-4701483 107 1.73e-04 ttgttccaca gtgtgtac gtgatt chr3R:3589775-3589895 107 1.73e-04 CAGTTGGACG GTGTGGTC ATATTA chr2R:5124973-5125093 47 1.73e-04 ttgtttaaaa gtgtggtc gggactgttt chr2L:23374213-23374333 65 1.73e-04 ATATAAGTCC GTGTGTAC TATATTTAAT chr3L:23583585-23583705 37 1.88e-04 CTATAGTCCA GTGCTCAC CAAAAAGAAG chr2R:2960272-2960392 15 1.88e-04 aggaaatttc gtgttcgc attcccccta chr2R:5125827-5125947 71 2.28e-04 acacttgctt gtgtgtgc taaaagaata chr2L:21558488-21558608 10 2.28e-04 AAATACTAA GTGTTAAC GCCAAAGAGA chr4:130650-130770 74 2.28e-04 atgctctaag gtgttaac gggatatatt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:23262707-23262827 7.5e-06 52_[+1]_60 chr2R:5305377-5305497 1.7e-05 59_[+1]_53 chr3L:27265754-27265874 1.7e-05 44_[+1]_68 chr2R:1211512-1211632 1.7e-05 104_[+1]_8 chr4:55029-55149 1.7e-05 102_[+1]_10 chr2R:2562718-2562838 1.7e-05 33_[+1]_79 chr3L:28010726-28010846 2.4e-05 8_[+1]_104 chr2R:4297813-4297933 2.4e-05 67_[+1]_45 chr3L:23343555-23343675 2.4e-05 29_[+1]_83 chr2R:4615461-4615581 3.5e-05 86_[+1]_26 chr4:306732-306852 3.5e-05 80_[+1]_32 chr2R:4617528-4617648 3.5e-05 [+1]_112 chr3L:23123818-23123938 4.4e-05 30_[+1]_82 chr3L:25849855-25849975 4.4e-05 85_[+1]_27 chr2R:2771110-2771230 4.4e-05 61_[+1]_51 chr4:1148109-1148229 5.6e-05 36_[+1]_76 chr2R:2109382-2109502 5.6e-05 74_[+1]_38 chr2R:5068160-5068280 5.6e-05 72_[+1]_40 chr3L:27171697-27171817 5.6e-05 19_[+1]_93 chr3L:27082940-27083060 6.3e-05 13_[+1]_99 chr2R:2495788-2495908 6.3e-05 21_[+1]_91 chr2R:5414949-5415069 7.8e-05 74_[+1]_38 chr2R:2947701-2947821 9.3e-05 9_[+1]_103 chr2R:5140486-5140606 9.3e-05 41_[+1]_71 chr3R:864631-864751 9.3e-05 [+1]_112 chrY:3245904-3246024 9.3e-05 24_[+1]_88 chr2R:4633865-4633985 0.00011 93_[+1]_19 chr3L:23589433-23589553 0.00012 95_[+1]_17 chr2R:5089440-5089560 0.00012 19_[+1]_93 chr2R:5095593-5095713 0.00012 88_[+1]_24 chr2R:4785125-4785245 0.00014 55_[+1]_57 chr3L:23103683-23103803 0.00014 11_[+1]_101 chr3L:24205357-24205477 0.00014 45_[+1]_67 chr3L:23249190-23249310 0.00014 97_[+1]_15 chr2R:4701363-4701483 0.00017 106_[+1]_6 chr3R:3589775-3589895 0.00017 106_[+1]_6 chr2R:5124973-5125093 0.00017 46_[+1]_66 chr2L:23374213-23374333 0.00017 64_[+1]_48 chr3L:23583585-23583705 0.00019 36_[+1]_76 chr2R:2960272-2960392 0.00019 14_[+1]_98 chr2R:5125827-5125947 0.00023 70_[+1]_42 chr2L:21558488-21558608 0.00023 9_[+1]_103 chr4:130650-130770 0.00023 73_[+1]_39 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTGTGVRC width=8 seqs=43 chr3L:23262707-23262827 ( 53) GTGTGGAC 1 chr2R:5305377-5305497 ( 60) GTGTGGGC 1 chr3L:27265754-27265874 ( 45) GTGCGGAC 1 chr2R:1211512-1211632 ( 105) GTGTGGGC 1 chr4:55029-55149 ( 103) GTGTGGGC 1 chr2R:2562718-2562838 ( 34) GTGCGGAC 1 chr3L:28010726-28010846 ( 9) GTGTGGCC 1 chr2R:4297813-4297933 ( 68) GTGCGGGC 1 chr3L:23343555-23343675 ( 30) GTGTGGCC 1 chr2R:4615461-4615581 ( 87) GTGTGCAC 1 chr4:306732-306852 ( 81) GTGTGCAC 1 chr2R:4617528-4617648 ( 1) GTGTGCAC 1 chr3L:23123818-23123938 ( 31) GTGTGCGC 1 chr3L:25849855-25849975 ( 86) GTGCGCAC 1 chr2R:2771110-2771230 ( 62) GTGCGCAC 1 chr4:1148109-1148229 ( 37) GTGTGAAC 1 chr2R:2109382-2109502 ( 75) GTGTGAAC 1 chr2R:5068160-5068280 ( 73) GTGTGAAC 1 chr3L:27171697-27171817 ( 20) GTGTGAAC 1 chr3L:27082940-27083060 ( 14) GTGCGCGC 1 chr2R:2495788-2495908 ( 22) GTGCGCGC 1 chr2R:5414949-5415069 ( 75) GTGCGAAC 1 chr2R:2947701-2947821 ( 10) GTGTGACC 1 chr2R:5140486-5140606 ( 42) GTGTGACC 1 chr3R:864631-864751 ( 1) GTGTGACC 1 chrY:3245904-3246024 ( 25) GTGTGACC 1 chr2R:4633865-4633985 ( 94) GTGTTGAC 1 chr3L:23589433-23589553 ( 96) GTGCTGAC 1 chr2R:5089440-5089560 ( 20) GTGTTGGC 1 chr2R:5095593-5095713 ( 89) GTGCTGAC 1 chr2R:4785125-4785245 ( 56) GTGTTGCC 1 chr3L:23103683-23103803 ( 12) GTGCTGGC 1 chr3L:24205357-24205477 ( 46) GTGCTGCC 1 chr3L:23249190-23249310 ( 98) GTGCTGCC 1 chr2R:4701363-4701483 ( 107) GTGTGTAC 1 chr3R:3589775-3589895 ( 107) GTGTGGTC 1 chr2R:5124973-5125093 ( 47) GTGTGGTC 1 chr2L:23374213-23374333 ( 65) GTGTGTAC 1 chr3L:23583585-23583705 ( 37) GTGCTCAC 1 chr2R:2960272-2960392 ( 15) GTGTTCGC 1 chr2R:5125827-5125947 ( 71) GTGTGTGC 1 chr2L:21558488-21558608 ( 10) GTGTTAAC 1 chr4:130650-130770 ( 74) GTGTTAAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.8783 E= 2.7e+000 -1207 -1207 239 -1207 -1207 -1207 -1207 169 -1207 -1207 239 -1207 -1207 78 -1207 112 -1207 -1207 192 -15 -27 29 121 -215 66 14 42 -273 -1207 240 -1207 -1207 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 43 E= 2.7e+000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.325581 0.000000 0.674419 0.000000 0.000000 0.720930 0.279070 0.255814 0.232558 0.441860 0.069767 0.488372 0.209302 0.255814 0.046512 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGVRC MEME-1 regular expression -------------------------------------------------------------------------------- GTG[TC][GT][GAC][AGC]C -------------------------------------------------------------------------------- Time 7.50 secs. ******************************************************************************** ******************************************************************************** MOTIF TATCGATA MEME-2 width = 8 sites = 20 llr = 195 E-value = 1.4e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 3a:::a:a pos.-specific C :::a:::: probability G ::::a::: matrix T 7:a:::a: bits 2.4 ** 2.2 ** 1.9 ** 1.7 ******* Relative 1.4 ******* Entropy 1.2 ******* (14.1 bits) 1.0 ******* 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TATCGATA consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr4:1148109-1148229 76 3.19e-05 ttttctggga tatcgata aatattgggg chr3R:3734131-3734251 63 3.19e-05 CTCCTCATCC TATCGATA GTTTCTGCAG chr4:42397-42517 112 3.19e-05 ccccaatatc tatcgata t chr4:1186977-1187097 94 3.19e-05 AAATATGTTC TATCGATA TGTCAAAAAA chr3L:24205357-24205477 28 3.19e-05 CTCCTGATCC TATCGATA GTTTCATGCA chr2R:5364792-5364912 95 3.19e-05 TCGCAATACC TATCGATA AGGCCCTATC chr2R:4701363-4701483 50 3.19e-05 ttttctagga tatcgata gatgttgggg chr3L:24975032-24975152 50 3.19e-05 ACTCGTTAGT TATCGATA TTTACAATGT chr2L:22569708-22569828 74 3.19e-05 ttttttcgga tatcgata gatatttgga chr4:1554-1674 40 3.19e-05 tcccaatatc tatcgata tcccagaaaa chr3L:25703321-25703441 53 3.19e-05 ccccaatatc tatcgata tcccagaaca chr2R:4633657-4633777 94 3.19e-05 TAACGATAGT TATCGATA TGCGATGATC chr4:315872-315992 10 3.19e-05 GCAATCTTT TATCGATA AACAACACAT chr3L:27860556-27860676 29 3.19e-05 ttatacccca tatcgata tcccagaaaa chr3L:27082940-27083060 78 6.37e-05 ttttatggca aatcgata aaaatctaca chrY:380271-380391 9 6.37e-05 cgatgaat aatcgata gtgggcttgc chr2L:22993369-22993489 47 6.37e-05 ATTTTTCGCA AATCGATA TTAAAAAGAA chr3L:27269035-27269155 26 6.37e-05 tagttcctaa aatcgata cgttcatacg chr2R:4552266-4552386 102 6.37e-05 ttattgtgaa aatcgata gaaattaaat chr4:55029-55149 44 6.37e-05 tttttttaga aatcgata gaaatgtaaa -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr4:1148109-1148229 3.2e-05 75_[+2]_37 chr3R:3734131-3734251 3.2e-05 62_[+2]_50 chr4:42397-42517 3.2e-05 111_[+2]_1 chr4:1186977-1187097 3.2e-05 93_[+2]_19 chr3L:24205357-24205477 3.2e-05 27_[+2]_85 chr2R:5364792-5364912 3.2e-05 94_[+2]_18 chr2R:4701363-4701483 3.2e-05 49_[+2]_63 chr3L:24975032-24975152 3.2e-05 49_[+2]_63 chr2L:22569708-22569828 3.2e-05 73_[+2]_39 chr4:1554-1674 3.2e-05 39_[+2]_73 chr3L:25703321-25703441 3.2e-05 52_[+2]_60 chr2R:4633657-4633777 3.2e-05 93_[+2]_19 chr4:315872-315992 3.2e-05 9_[+2]_103 chr3L:27860556-27860676 3.2e-05 28_[+2]_84 chr3L:27082940-27083060 6.4e-05 77_[+2]_35 chrY:380271-380391 6.4e-05 8_[+2]_104 chr2L:22993369-22993489 6.4e-05 46_[+2]_66 chr3L:27269035-27269155 6.4e-05 25_[+2]_87 chr2R:4552266-4552386 6.4e-05 101_[+2]_11 chr4:55029-55149 6.4e-05 43_[+2]_69 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TATCGATA width=8 seqs=20 chr4:1148109-1148229 ( 76) TATCGATA 1 chr3R:3734131-3734251 ( 63) TATCGATA 1 chr4:42397-42517 ( 112) TATCGATA 1 chr4:1186977-1187097 ( 94) TATCGATA 1 chr3L:24205357-24205477 ( 28) TATCGATA 1 chr2R:5364792-5364912 ( 95) TATCGATA 1 chr2R:4701363-4701483 ( 50) TATCGATA 1 chr3L:24975032-24975152 ( 50) TATCGATA 1 chr2L:22569708-22569828 ( 74) TATCGATA 1 chr4:1554-1674 ( 40) TATCGATA 1 chr3L:25703321-25703441 ( 53) TATCGATA 1 chr2R:4633657-4633777 ( 94) TATCGATA 1 chr4:315872-315992 ( 10) TATCGATA 1 chr3L:27860556-27860676 ( 29) TATCGATA 1 chr3L:27082940-27083060 ( 78) AATCGATA 1 chrY:380271-380391 ( 9) AATCGATA 1 chr2L:22993369-22993489 ( 47) AATCGATA 1 chr3L:27269035-27269155 ( 26) AATCGATA 1 chr2R:4552266-4552386 ( 102) AATCGATA 1 chr4:55029-55149 ( 44) AATCGATA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.7147 E= 1.4e+001 -4 -1097 -1097 118 169 -1097 -1097 -1097 -1097 -1097 -1097 169 -1097 239 -1097 -1097 -1097 -1097 239 -1097 169 -1097 -1097 -1097 -1097 -1097 -1097 169 169 -1097 -1097 -1097 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 1.4e+001 0.300000 0.000000 0.000000 0.700000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCGATA MEME-2 regular expression -------------------------------------------------------------------------------- [TA]ATCGATA -------------------------------------------------------------------------------- Time 13.70 secs. ******************************************************************************** ******************************************************************************** MOTIF TCGCATTC MEME-3 width = 8 sites = 19 llr = 179 E-value = 3.5e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::19::: pos.-specific C :919::18 probability G :19:1::: matrix T a::::a92 bits 2.4 2.2 * 1.9 *** 1.7 **** * * Relative 1.4 **** *** Entropy 1.2 ******** (13.6 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCGCATTC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:26224221-26224341 8 1.21e-05 tataaac tcgcattc acactagcta chr4:180855-180975 15 1.21e-05 aatttctggt tcgcattc acactagcta chr2L:23315167-23315287 70 1.21e-05 aatttcacgt tcgcattc ccactagctg chr3L:25703321-25703441 88 1.21e-05 aatttcgagt tcgcattc acactacctg chr2R:4633657-4633777 8 1.21e-05 gtcgcat tcgcattc acactatttg chr2R:5095593-5095713 11 1.21e-05 CACGGTGTCA TCGCATTC CGCTGCAGTC chr3L:25175729-25175849 68 1.21e-05 gcgcgactct tcgcattc cagaaattcc chr3L:27860556-27860676 64 1.21e-05 aattttgctt tcgcattc acaccagcta chr2L:23010163-23010283 92 1.95e-05 taataacatt tcgcgttc acactaacgg chr3L:25106976-25107096 40 1.95e-05 ccaatattta tcgcgttc gaattcacac chr4:184706-184826 2 3.15e-05 T TCCCATTC CTTTAGCAAT chr2R:1356558-1356678 108 3.15e-05 tattttgtct tcccattc aaagt chr2R:4801954-4802074 3 5.12e-05 gt tcgcattt ccactagttg chr3L:23568685-23568805 112 5.12e-05 AGTTGCAGAT TCGCATTT T chr4:1554-1674 70 5.12e-05 ttatgaaatt tcgcattt ccactagttg chr3L:25176668-25176788 20 5.86e-05 tgtttatgtt tcgcatcc gtttgtcgcg chr2L:22293956-22294076 94 7.82e-05 AAACAGCGAC TCGAATTC AGTTCAAGCG chr2R:3960792-3960912 38 7.82e-05 actcattttg tcgaattc cgcaaattag chr2R:4517286-4517406 19 9.03e-05 ACTAAAGCGC TGGCATTC TTTAACTTTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:26224221-26224341 1.2e-05 7_[+3]_105 chr4:180855-180975 1.2e-05 14_[+3]_98 chr2L:23315167-23315287 1.2e-05 69_[+3]_43 chr3L:25703321-25703441 1.2e-05 87_[+3]_25 chr2R:4633657-4633777 1.2e-05 7_[+3]_105 chr2R:5095593-5095713 1.2e-05 10_[+3]_102 chr3L:25175729-25175849 1.2e-05 67_[+3]_45 chr3L:27860556-27860676 1.2e-05 63_[+3]_49 chr2L:23010163-23010283 2e-05 91_[+3]_21 chr3L:25106976-25107096 2e-05 39_[+3]_73 chr4:184706-184826 3.2e-05 1_[+3]_111 chr2R:1356558-1356678 3.2e-05 107_[+3]_5 chr2R:4801954-4802074 5.1e-05 2_[+3]_110 chr3L:23568685-23568805 5.1e-05 111_[+3]_1 chr4:1554-1674 5.1e-05 69_[+3]_43 chr3L:25176668-25176788 5.9e-05 19_[+3]_93 chr2L:22293956-22294076 7.8e-05 93_[+3]_19 chr2R:3960792-3960912 7.8e-05 37_[+3]_75 chr2R:4517286-4517406 9e-05 18_[+3]_94 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCGCATTC width=8 seqs=19 chr3L:26224221-26224341 ( 8) TCGCATTC 1 chr4:180855-180975 ( 15) TCGCATTC 1 chr2L:23315167-23315287 ( 70) TCGCATTC 1 chr3L:25703321-25703441 ( 88) TCGCATTC 1 chr2R:4633657-4633777 ( 8) TCGCATTC 1 chr2R:5095593-5095713 ( 11) TCGCATTC 1 chr3L:25175729-25175849 ( 68) TCGCATTC 1 chr3L:27860556-27860676 ( 64) TCGCATTC 1 chr2L:23010163-23010283 ( 92) TCGCGTTC 1 chr3L:25106976-25107096 ( 40) TCGCGTTC 1 chr4:184706-184826 ( 2) TCCCATTC 1 chr2R:1356558-1356678 ( 108) TCCCATTC 1 chr2R:4801954-4802074 ( 3) TCGCATTT 1 chr3L:23568685-23568805 ( 112) TCGCATTT 1 chr4:1554-1674 ( 70) TCGCATTT 1 chr3L:25176668-25176788 ( 20) TCGCATCC 1 chr2L:22293956-22294076 ( 94) TCGAATTC 1 chr2R:3960792-3960912 ( 38) TCGAATTC 1 chr2R:4517286-4517406 ( 19) TGGCATTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4349 E= 3.5e+003 -1089 -1089 -1089 169 -1089 232 -186 -1089 -1089 -85 223 -1089 -155 223 -1089 -1089 153 -1089 -86 -1089 -1089 -1089 -1089 169 -1089 -185 -1089 161 -1089 215 -1089 -97 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.5e+003 0.000000 0.000000 0.000000 1.000000 0.000000 0.947368 0.052632 0.000000 0.000000 0.105263 0.894737 0.000000 0.105263 0.894737 0.000000 0.000000 0.894737 0.000000 0.105263 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.052632 0.000000 0.947368 0.000000 0.842105 0.000000 0.157895 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGCATTC MEME-3 regular expression -------------------------------------------------------------------------------- TCGCATTC -------------------------------------------------------------------------------- Time 19.87 secs. ******************************************************************************** ******************************************************************************** MOTIF HCAKCTGK MEME-4 width = 8 sites = 28 llr = 247 E-value = 5.7e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 Description -------------------------------------------------------------------------------- Simplified A 4:a1:::: pos.-specific C 3a::a::: probability G :::6::a5 matrix T 3::3:a:5 bits 2.4 * * * 2.2 * * * 1.9 * * * 1.7 ** *** Relative 1.4 ** *** Entropy 1.2 ** *** (12.7 bits) 1.0 ** **** 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel ACAGCTGG consensus C T T sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:4426722-4426842 84 4.58e-06 CTGAAATGAG CCAGCTGG GATTTTCTTA chr3L:25118196-25118316 27 1.20e-05 agaattattt acagctgg cacagcgatt chr3R:3974683-3974803 64 1.20e-05 ttgtttgttt acagctgg aaacggagaa chr3L:23262707-23262827 106 1.95e-05 TCTCGAAGTT CCAGCTGT TAGGTAA chr2L:23072076-23072196 62 1.95e-05 gctcccctgc ccagctgt cacgcggtcg chr3R:3118000-3118120 60 3.90e-05 GGGCTTgcag tcagctgg gtcacaccaa chr2R:5145374-5145494 30 3.90e-05 TAAACAGTTA ACAGCTGT TTAAGCTGTT chrY:380271-380391 29 3.90e-05 gggcttgcag tcagctgg gtcacaccaa chr2L:22548858-22548978 86 3.90e-05 TTCGTTTCGC ACAGCTGT TTGCTACACT chr2R:5068160-5068280 63 3.90e-05 TTGCTATTTC TCAGCTGG AAGTGTGAAC chrX:22443598-22443718 62 3.90e-05 AACAGCTTAA ACAGCTGT TTACTATGTA chr3R:727235-727355 99 3.90e-05 gggcttgcag tcagctgg gtcacaccaa chr2R:1347811-1347931 77 3.90e-05 acatatatac acagctgt atatctgaga chr2R:1350700-1350820 84 4.64e-05 tacaaagaca ccatctgg tagctattat chr3L:25176668-25176788 102 4.64e-05 tatccagact ccatctgg tagctattat chr3R:2566029-2566149 77 4.64e-05 tacccagact ccatctgg tagctattat chr2R:5089440-5089560 108 7.06e-05 TAATTGCATA TCAGCTGT GCTGC chr3L:27174709-27174829 17 7.06e-05 CTAGTTGATA TCAGCTGT GACAAAATTA chr3L:23532202-23532322 45 7.06e-05 TTTGGAGTTA TCAGCTGT TATAGCTAGT chr3L:27105765-27105885 15 7.06e-05 TGACCAATAA ACATCTGG TTCGAACTTC chr4:62623-62743 32 8.27e-05 ctggccatgt ccatctgt ccgtatcgcc chr3L:23738043-23738163 91 8.27e-05 AATGCAGATG CCATCTGT ATATTGGCGC chr2L:22578022-22578142 48 9.01e-05 ACGCGCCATT CCAACTGG ATTTTCTATA chr2R:1071583-1071703 29 1.22e-04 CGCTGAATTT ACATCTGT TAGGTCACAC chr4:306732-306852 71 1.22e-04 gtggtaggag acatctgt atgtgtgcac chr3R:2198623-2198743 49 1.34e-04 ttgtttgttt acaactgg aaacggagaa chr2R:3500688-3500808 36 1.34e-04 ttgtttgttt acaactgg aacggagaaa chr3R:1815896-1816016 60 1.34e-04 atgtttgctt acaactgg aaacggagaa -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:4426722-4426842 4.6e-06 83_[+4]_29 chr3L:25118196-25118316 1.2e-05 26_[+4]_86 chr3R:3974683-3974803 1.2e-05 63_[+4]_49 chr3L:23262707-23262827 1.9e-05 105_[+4]_7 chr2L:23072076-23072196 1.9e-05 61_[+4]_51 chr3R:3118000-3118120 3.9e-05 59_[+4]_53 chr2R:5145374-5145494 3.9e-05 29_[+4]_83 chrY:380271-380391 3.9e-05 28_[+4]_84 chr2L:22548858-22548978 3.9e-05 85_[+4]_27 chr2R:5068160-5068280 3.9e-05 62_[+4]_50 chrX:22443598-22443718 3.9e-05 61_[+4]_51 chr3R:727235-727355 3.9e-05 98_[+4]_14 chr2R:1347811-1347931 3.9e-05 76_[+4]_36 chr2R:1350700-1350820 4.6e-05 83_[+4]_29 chr3L:25176668-25176788 4.6e-05 101_[+4]_11 chr3R:2566029-2566149 4.6e-05 76_[+4]_36 chr2R:5089440-5089560 7.1e-05 107_[+4]_5 chr3L:27174709-27174829 7.1e-05 16_[+4]_96 chr3L:23532202-23532322 7.1e-05 44_[+4]_68 chr3L:27105765-27105885 7.1e-05 14_[+4]_98 chr4:62623-62743 8.3e-05 31_[+4]_81 chr3L:23738043-23738163 8.3e-05 90_[+4]_22 chr2L:22578022-22578142 9e-05 47_[+4]_65 chr2R:1071583-1071703 0.00012 28_[+4]_84 chr4:306732-306852 0.00012 70_[+4]_42 chr3R:2198623-2198743 0.00013 48_[+4]_64 chr2R:3500688-3500808 0.00013 35_[+4]_77 chr3R:1815896-1816016 0.00013 59_[+4]_53 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF HCAKCTGK width=8 seqs=28 chr2R:4426722-4426842 ( 84) CCAGCTGG 1 chr3L:25118196-25118316 ( 27) ACAGCTGG 1 chr3R:3974683-3974803 ( 64) ACAGCTGG 1 chr3L:23262707-23262827 ( 106) CCAGCTGT 1 chr2L:23072076-23072196 ( 62) CCAGCTGT 1 chr3R:3118000-3118120 ( 60) TCAGCTGG 1 chr2R:5145374-5145494 ( 30) ACAGCTGT 1 chrY:380271-380391 ( 29) TCAGCTGG 1 chr2L:22548858-22548978 ( 86) ACAGCTGT 1 chr2R:5068160-5068280 ( 63) TCAGCTGG 1 chrX:22443598-22443718 ( 62) ACAGCTGT 1 chr3R:727235-727355 ( 99) TCAGCTGG 1 chr2R:1347811-1347931 ( 77) ACAGCTGT 1 chr2R:1350700-1350820 ( 84) CCATCTGG 1 chr3L:25176668-25176788 ( 102) CCATCTGG 1 chr3R:2566029-2566149 ( 77) CCATCTGG 1 chr2R:5089440-5089560 ( 108) TCAGCTGT 1 chr3L:27174709-27174829 ( 17) TCAGCTGT 1 chr3L:23532202-23532322 ( 45) TCAGCTGT 1 chr3L:27105765-27105885 ( 15) ACATCTGG 1 chr4:62623-62743 ( 32) CCATCTGT 1 chr3L:23738043-23738163 ( 91) CCATCTGT 1 chr2L:22578022-22578142 ( 48) CCAACTGG 1 chr2R:1071583-1071703 ( 29) ACATCTGT 1 chr4:306732-306852 ( 71) ACATCTGT 1 chr3R:2198623-2198743 ( 49) ACAACTGG 1 chr2R:3500688-3500808 ( 36) ACAACTGG 1 chr3R:1815896-1816016 ( 60) ACAACTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5834 E= 5.7e+003 47 76 -1145 -31 -1145 239 -1145 -1145 169 -1145 -1145 -1145 -111 -1145 158 -12 -1145 239 -1145 -1145 -1145 -1145 -1145 169 -1145 -1145 239 -1145 -1145 -1145 149 58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 5.7e+003 0.428571 0.321429 0.000000 0.250000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.142857 0.000000 0.571429 0.285714 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 0.535714 0.464286 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HCAKCTGK MEME-4 regular expression -------------------------------------------------------------------------------- [ACT]CA[GT]CTG[GT] -------------------------------------------------------------------------------- Time 25.96 secs. ******************************************************************************** ******************************************************************************** MOTIF TCTCCGCG MEME-5 width = 8 sites = 5 llr = 61 E-value = 9.5e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :a:aa:a: probability G :::::a:a matrix T a:a::::: bits 2.4 * ***** 2.2 * ***** 1.9 * ***** 1.7 ******** Relative 1.4 ******** Entropy 1.2 ******** (17.7 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCTCCGCG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:2198623-2198743 93 4.57e-06 tggagtcttt tctccgcg ttgtaagtac chr2R:3500688-3500808 79 4.57e-06 tggagtctat tctccgcg ttgtaagtac chr3L:23671206-23671326 13 4.57e-06 tggagtcttt tctccgcg ttgtaagtac chr3R:1815896-1816016 104 4.57e-06 tggagtcttt tctccgcg ttgtaagta chr3R:3974683-3974803 108 4.57e-06 tggagtcttt tctccgcg ttgta -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:2198623-2198743 4.6e-06 92_[+5]_20 chr2R:3500688-3500808 4.6e-06 78_[+5]_34 chr3L:23671206-23671326 4.6e-06 12_[+5]_100 chr3R:1815896-1816016 4.6e-06 103_[+5]_9 chr3R:3974683-3974803 4.6e-06 107_[+5]_5 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCTCCGCG width=8 seqs=5 chr3R:2198623-2198743 ( 93) TCTCCGCG 1 chr2R:3500688-3500808 ( 79) TCTCCGCG 1 chr3L:23671206-23671326 ( 13) TCTCCGCG 1 chr3R:1815896-1816016 ( 104) TCTCCGCG 1 chr3R:3974683-3974803 ( 108) TCTCCGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.7154 E= 9.5e+003 -897 -897 -897 169 -897 239 -897 -897 -897 -897 -897 169 -897 239 -897 -897 -897 239 -897 -897 -897 -897 239 -897 -897 239 -897 -897 -897 -897 239 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 9.5e+003 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCCGCG MEME-5 regular expression -------------------------------------------------------------------------------- TCTCCGCG -------------------------------------------------------------------------------- Time 32.02 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:3974683-3974803 3.35e-04 63_[+4(1.20e-05)]_36_[+5(4.57e-06)]_\ 5 chr2R:2562718-2562838 7.24e-03 33_[+1(1.68e-05)]_79 chr3R:2566029-2566149 6.07e-02 76_[+4(4.64e-05)]_36 chr2R:4472602-4472722 6.82e-01 120 chr2R:1347811-1347931 1.44e-01 76_[+4(3.90e-05)]_36 chr2R:5410436-5410556 9.75e-01 120 chr2R:3003443-3003563 1.38e-01 120 chr2R:4190836-4190956 1.55e-01 120 chr2R:2952646-2952766 4.10e-01 120 chr3L:23103683-23103803 6.07e-03 120 chr3L:27860556-27860676 2.27e-03 28_[+2(3.19e-05)]_27_[+3(1.21e-05)]_\ 49 chr3L:25175729-25175849 1.33e-02 67_[+3(1.21e-05)]_45 chr2R:3003094-3003214 7.79e-01 120 chr2R:4186346-4186466 7.63e-02 120 chr3L:23343555-23343675 6.57e-02 29_[+1(2.42e-05)]_83 chr2R:4426722-4426842 6.07e-02 83_[+4(4.58e-06)]_29 chr2R:4515364-4515484 9.12e-01 120 chr3R:3103818-3103938 6.11e-01 120 chr2R:2953548-2953668 2.78e-01 120 chr3R:727235-727355 3.10e-02 98_[+4(3.90e-05)]_14 chrY:3245904-3246024 6.15e-02 24_[+1(9.31e-05)]_88 chr2R:5301506-5301626 2.56e-01 120 chr3R:864631-864751 2.56e-02 [+1(9.31e-05)]_112 chr2R:4821614-4821734 9.87e-01 120 chr3L:25176668-25176788 7.63e-03 19_[+3(5.86e-05)]_74_[+4(4.64e-05)]_\ 11 chr2R:5667349-5667469 6.59e-01 120 chr2R:5344736-5344856 3.22e-01 120 chr2L:22979961-22980081 5.03e-01 120 chr4:45577-45697 9.56e-01 120 chr2R:1366342-1366462 5.75e-01 120 chr2R:4596085-4596205 3.83e-01 120 chr4:182519-182639 7.88e-01 120 chr2L:23072076-23072196 5.24e-02 61_[+4(1.95e-05)]_15_[+4(7.06e-05)]_\ 28 chr3L:24929438-24929558 4.45e-02 120 chr2R:1356558-1356678 1.28e-01 107_[+3(3.15e-05)]_5 chr4:1198053-1198173 9.36e-01 120 chr4:315872-315992 7.49e-02 9_[+2(3.19e-05)]_103 chr2L:22575452-22575572 9.56e-01 120 chr4:55029-55149 9.85e-03 43_[+2(6.37e-05)]_51_[+1(1.68e-05)]_\ 10 chr2R:1350700-1350820 1.73e-01 83_[+4(4.64e-05)]_29 chr2R:4222108-4222228 2.89e-01 120 chr2L:22798414-22798534 9.82e-01 120 chr3L:27171697-27171817 9.25e-04 19_[+1(5.59e-05)]_93 chr3R:2134490-2134610 6.16e-02 120 chr3R:2198423-2198543 7.17e-01 120 chr3L:25118196-25118316 4.06e-02 26_[+4(1.20e-05)]_86 chr2R:4248651-4248771 2.10e-01 120 chr3L:25122358-25122478 9.77e-01 120 chr2R:5262440-5262560 8.57e-01 120 chr2L:22572663-22572783 3.21e-01 120 chr3L:25121637-25121757 9.62e-02 120 chr3L:23728577-23728697 4.26e-01 120 chr2R:5666390-5666510 5.91e-01 120 chr2R:5095593-5095713 1.22e-03 10_[+3(1.21e-05)]_102 chr2R:4297813-4297933 1.13e-02 67_[+1(2.42e-05)]_45 chr3L:23726296-23726416 8.10e-01 120 chr2R:4633657-4633777 5.88e-03 1_[+3(1.21e-05)]_84_[+2(3.19e-05)]_\ 19 chr3L:27105765-27105885 8.79e-02 14_[+4(7.06e-05)]_98 chr2R:1578052-1578172 2.69e-01 120 chr2R:4617528-4617648 1.10e-01 [+1(3.45e-05)]_112 chrX:22443598-22443718 1.26e-01 61_[+4(3.90e-05)]_51 chr3R:1815896-1816016 2.11e-03 103_[+5(4.57e-06)]_9 chr3L:25703321-25703441 1.84e-03 52_[+2(3.19e-05)]_27_[+3(1.21e-05)]_\ 25 chr2R:4616609-4616729 9.47e-01 120 chr4:1554-1674 9.68e-03 39_[+2(3.19e-05)]_22_[+3(5.12e-05)]_\ 43 chr2R:2495788-2495908 5.18e-02 21_[+1(6.33e-05)]_91 chr2R:2960272-2960392 7.06e-03 18_[+3(1.21e-05)]_94 chr3L:23568685-23568805 2.02e-01 111_[+3(5.12e-05)]_1 chr2L:22336214-22336334 7.84e-01 120 chr2R:5068160-5068280 3.06e-03 62_[+4(3.90e-05)]_2_[+1(5.59e-05)]_\ 40 chr2R:1211269-1211389 8.75e-01 120 chr3R:3788282-3788402 9.52e-01 120 chr2R:1211512-1211632 7.29e-03 104_[+1(1.68e-05)]_8 chr4:60851-60971 6.86e-01 120 chr2R:5414949-5415069 1.49e-01 74_[+1(7.82e-05)]_38 chr2R:2856719-2856839 2.37e-01 120 chr2R:5140486-5140606 1.03e-02 41_[+1(9.31e-05)]_71 chr2R:5143801-5143921 9.99e-01 120 chr2L:22921208-22921328 1.66e-01 120 chr2R:4552266-4552386 9.08e-02 101_[+2(6.37e-05)]_11 chr2L:23374213-23374333 1.53e-02 120 chr2R:1348587-1348707 7.99e-01 120 chr3R:2822979-2823099 1.41e-01 120 chr3L:23671206-23671326 9.67e-03 12_[+5(4.57e-06)]_100 chr2L:23173053-23173173 2.04e-01 120 chr2L:22573525-22573645 8.25e-01 120 chr3L:23532202-23532322 1.54e-01 44_[+4(7.06e-05)]_68 chr2R:1072913-1073033 4.22e-01 120 chr2R:5398919-5399039 9.54e-01 120 chr3L:27269035-27269155 4.95e-02 25_[+2(6.37e-05)]_87 chr2R:5360049-5360169 9.99e-01 120 chr2R:2944986-2945106 3.59e-01 120 chr2R:5299243-5299363 1.10e-01 120 chr2R:4517286-4517406 1.41e-01 18_[+3(9.03e-05)]_94 chr2L:22292923-22293043 1.56e-01 120 chr2R:5341952-5342072 7.26e-01 120 chr2R:5649047-5649167 2.00e-01 120 chr3R:2858589-2858709 4.68e-01 120 chr2R:3960792-3960912 1.31e-01 37_[+3(7.82e-05)]_75 chr2R:5397768-5397888 6.60e-01 120 chr2R:2771110-2771230 2.33e-01 61_[+1(4.37e-05)]_51 chr2R:4785125-4785245 4.41e-01 120 chr2L:22248095-22248215 7.75e-01 120 chr2R:5670572-5670692 4.70e-01 120 chr3L:28010726-28010846 2.79e-02 8_[+1(2.42e-05)]_104 chr3L:27135155-27135275 2.76e-01 120 chr3L:27174709-27174829 1.45e-01 16_[+4(7.06e-05)]_96 chr4:66023-66143 1.56e-01 120 chr3R:7080662-7080782 4.86e-01 120 chr2R:5124973-5125093 3.01e-01 120 chr2L:22567536-22567656 2.13e-01 120 chr3L:27265754-27265874 2.32e-02 44_[+1(1.68e-05)]_68 chr3L:25106976-25107096 2.13e-02 39_[+3(1.95e-05)]_73 chr2R:5304293-5304413 6.60e-01 120 chr4:1234869-1234989 4.90e-01 120 chr2R:4221336-4221456 9.81e-01 120 chr4:1156404-1156524 4.24e-01 120 chr2L:22548858-22548978 2.22e-01 85_[+4(3.90e-05)]_27 chr2R:4017440-4017560 7.97e-01 120 chr4:306732-306852 2.01e-02 80_[+1(3.45e-05)]_32 chr3L:25175928-25176048 8.95e-01 120 chr3L:23260063-23260183 2.44e-01 120 chr3L:23262707-23262827 1.17e-03 52_[+1(7.51e-06)]_45_[+4(1.95e-05)]_\ 7 chr4:130650-130770 3.00e-01 120 chr2L:22993369-22993489 9.87e-02 46_[+2(6.37e-05)]_66 chr3L:24927026-24927146 9.89e-01 120 chr2R:4268907-4269027 2.86e-01 120 chr2R:4550521-4550641 8.46e-01 120 chr3L:23738043-23738163 9.19e-02 90_[+4(8.27e-05)]_22 chr2R:5183896-5184016 4.10e-01 120 chr2R:5185784-5185904 6.14e-01 120 chr3L:25196270-25196390 2.71e-01 120 chr2R:1523110-1523230 7.33e-01 120 chr2L:22569708-22569828 4.11e-02 73_[+2(3.19e-05)]_39 chr2R:4615461-4615581 1.02e-02 86_[+1(3.45e-05)]_26 chr2R:1071583-1071703 3.36e-01 120 chr2R:5089440-5089560 1.23e-02 107_[+4(7.06e-05)]_5 chr2R:2109382-2109502 7.29e-03 74_[+1(5.59e-05)]_38 chr3R:1212979-1213099 5.86e-01 120 chr2R:1994747-1994867 4.83e-01 120 chrX:21634439-21634559 3.50e-01 120 chr3L:26528422-26528542 8.28e-01 120 chr2L:22172996-22173116 6.49e-01 120 chr3L:23245093-23245213 5.57e-01 120 chr2R:3500688-3500808 1.67e-03 78_[+5(4.57e-06)]_34 chr3L:25849855-25849975 2.14e-02 85_[+1(4.37e-05)]_27 chr3L:25675651-25675771 6.61e-01 120 chr4:315673-315793 5.62e-01 120 chr3L:27865655-27865775 9.98e-01 120 chr2L:21558488-21558608 3.04e-01 120 chr3L:23081349-23081469 6.04e-01 120 chr2R:1995682-1995802 7.62e-01 120 chr2R:4594379-4594499 4.04e-01 120 chr2L:22570209-22570329 8.34e-01 120 chr2L:22551824-22551944 1.56e-01 120 chr3R:3845888-3846008 8.16e-01 120 chr4:62623-62743 1.75e-01 31_[+4(8.27e-05)]_81 chr2R:4123193-4123313 9.94e-01 120 chr3L:23123818-23123938 3.14e-02 30_[+1(4.37e-05)]_82 chr2R:4124714-4124834 6.97e-01 120 chrY:380271-380391 3.70e-03 8_[+2(6.37e-05)]_12_[+4(3.90e-05)]_\ 84 chr3L:24029927-24030047 5.46e-01 120 chr2R:2848242-2848362 9.84e-01 120 chr4:467114-467234 9.88e-01 120 chr4:184706-184826 1.81e-02 1_[+3(3.15e-05)]_111 chr3R:3589775-3589895 4.20e-02 120 chr4:1166071-1166191 6.59e-01 120 chr3L:23589433-23589553 6.91e-02 120 chr2R:5145374-5145494 1.06e-02 29_[+4(3.90e-05)]_83 chr3R:2198623-2198743 2.05e-03 92_[+5(4.57e-06)]_20 chr2R:4801954-4802074 7.80e-02 2_[+3(5.12e-05)]_110 chr2R:3582001-3582121 3.74e-01 120 chr3L:24975032-24975152 1.34e-01 49_[+2(3.19e-05)]_63 chr2R:4309754-4309874 9.02e-02 120 chr2R:4547380-4547500 9.33e-01 120 chr2R:4225052-4225172 4.40e-01 120 chr2R:5669677-5669797 8.84e-01 120 chr2L:23372712-23372832 9.83e-01 120 chr4:1260516-1260636 1.28e-01 120 chr2R:2118403-2118523 3.88e-01 120 chr2L:10231734-10231854 4.20e-01 120 chr2R:4701363-4701483 2.81e-02 49_[+2(3.19e-05)]_63 chr2R:4593708-4593828 1.58e-01 120 chr2R:5364792-5364912 6.70e-02 94_[+2(3.19e-05)]_18 chr3R:566832-566952 2.12e-01 120 chr3L:27266008-27266128 3.37e-01 120 chr2L:21558695-21558815 6.47e-01 120 chr3L:23583585-23583705 8.80e-02 120 chr2R:5013795-5013915 9.66e-01 120 chr2R:5980800-5980920 8.89e-01 120 chr3L:23555713-23555833 3.41e-01 120 chr3R:3843039-3843159 2.09e-01 120 chr3L:23726500-23726620 5.98e-01 120 chr3L:23249190-23249310 1.23e-01 120 chr4:46592-46712 3.56e-01 120 chr2L:23315167-23315287 1.16e-01 69_[+3(1.21e-05)]_43 chr2R:5125827-5125947 2.28e-02 120 chr3R:3118000-3118120 5.67e-02 59_[+4(3.90e-05)]_53 chr3L:27134375-27134495 1.19e-01 120 chr2R:5529416-5529536 2.03e-01 120 chr2R:5305377-5305497 6.00e-02 59_[+1(1.68e-05)]_53 chr3L:27082940-27083060 1.02e-02 13_[+1(6.33e-05)]_56_[+2(6.37e-05)]_\ 35 chr3L:23686363-23686483 4.33e-01 120 chr3R:3786824-3786944 9.31e-01 120 chr2L:22918683-22918803 8.54e-01 120 chr4:1255841-1255961 7.86e-01 120 chr3R:2411940-2412060 3.11e-01 120 chr3L:27085022-27085142 1.03e-01 120 chr3L:27263099-27263219 8.78e-01 120 chr4:180855-180975 9.39e-03 14_[+3(1.21e-05)]_98 chr2L:22578022-22578142 2.12e-01 47_[+4(9.01e-05)]_65 chr2R:4549660-4549780 2.64e-01 120 chr2L:22918961-22919081 4.05e-01 120 chrX:11148898-11149018 9.58e-02 120 chr2R:5603001-5603121 2.80e-01 120 chr3R:3587119-3587239 4.10e-01 120 chr2R:5129767-5129887 4.10e-01 120 chr2L:22758288-22758408 3.87e-01 120 chr2L:23010163-23010283 1.52e-02 91_[+3(1.95e-05)]_21 chr2R:5352849-5352969 5.49e-01 120 chr2R:5358799-5358919 7.35e-01 120 chr4:467348-467468 6.81e-01 120 chr3L:23688138-23688258 4.27e-01 120 chr3L:26015253-26015373 2.13e-01 120 chr3L:27085897-27086017 9.87e-01 120 chr2L:22574423-22574543 8.64e-02 120 chr3L:24205357-24205477 2.44e-03 27_[+2(3.19e-05)]_85 chr2L:22293956-22294076 1.01e-01 93_[+3(7.82e-05)]_19 chr3L:26224221-26224341 1.43e-01 7_[+3(1.21e-05)]_105 chr4:1186977-1187097 5.82e-02 93_[+2(3.19e-05)]_19 chr3L:24536355-24536475 9.85e-01 120 chr4:1144837-1144957 3.91e-01 120 chr2R:4776528-4776648 4.39e-01 120 chr2R:2947701-2947821 4.01e-02 9_[+1(9.31e-05)]_103 chr4:42397-42517 2.34e-01 111_[+2(3.19e-05)]_1 chr2R:4633865-4633985 1.55e-01 120 chr3L:23104641-23104761 5.68e-01 120 chr2R:5664597-5664717 7.58e-01 120 chr2R:4134225-4134345 6.17e-01 120 chr3R:3734131-3734251 2.91e-02 62_[+2(3.19e-05)]_50 chr4:445577-445697 7.59e-01 120 chr2R:1071805-1071925 9.88e-01 120 chr2R:5417711-5417831 7.28e-01 120 chr3L:23688938-23689058 6.92e-01 120 chr4:1148109-1148229 7.05e-04 36_[+1(5.59e-05)]_31_[+2(3.19e-05)]_\ 37 chr3L:23241065-23241185 7.48e-01 120 chr2R:5980999-5981119 7.53e-01 120 chr2R:4192231-4192351 6.40e-01 120 chr2R:4519640-4519760 9.84e-01 120 chr3L:27358871-27358991 9.31e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n07.farnam.hpc.yale.internal ********************************************************************************