******************************************************************************** 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/CG2712.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:23165822-23165942 1.0000 120 chr2R:21292170-21292290 1.0000 120 chr2R:13197838-13197958 1.0000 120 chr2L:20425993-20426113 1.0000 120 chr3L:8509916-8510036 1.0000 120 chr3L:7936217-7936337 1.0000 120 chr3L:21343696-21343816 1.0000 120 chr3R:29313169-29313289 1.0000 120 chr2L:2009746-2009866 1.0000 120 chrX:10474824-10474944 1.0000 120 chr3L:3303868-3303988 1.0000 120 chr3L:3543541-3543661 1.0000 120 chr3R:23143642-23143762 1.0000 120 chr2R:16322124-16322244 1.0000 120 chr3L:3387785-3387905 1.0000 120 chr2R:21712391-21712511 1.0000 120 chr3L:7368484-7368604 1.0000 120 chr3L:9729927-9730047 1.0000 120 chr3R:8113456-8113576 1.0000 120 chr3R:6932769-6932889 1.0000 120 chrX:22529904-22530024 1.0000 120 chr3R:23358567-23358687 1.0000 120 chr2R:16320694-16320814 1.0000 120 chrX:16679084-16679204 1.0000 120 chr2L:9586051-9586171 1.0000 120 chr3L:616500-616620 1.0000 120 chr2L:8308178-8308298 1.0000 120 chr2L:18919599-18919719 1.0000 120 chr3R:16801174-16801294 1.0000 120 chr2L:20204757-20204877 1.0000 120 chr2L:18906749-18906869 1.0000 120 chr2L:6536470-6536590 1.0000 120 chr2L:12348830-12348950 1.0000 120 chr3L:13435464-13435584 1.0000 120 chr2R:6963866-6963986 1.0000 120 chrX:5696169-5696289 1.0000 120 chr2L:21096628-21096748 1.0000 120 chr3L:15174997-15175117 1.0000 120 chr2R:14756236-14756356 1.0000 120 chr3L:15199318-15199438 1.0000 120 chr3L:10514955-10515075 1.0000 120 chr3R:11257115-11257235 1.0000 120 chr3L:18243269-18243389 1.0000 120 chrX:17471716-17471836 1.0000 120 chr3L:14961146-14961266 1.0000 120 chrX:8671774-8671894 1.0000 120 chr2L:5445968-5446088 1.0000 120 chr3L:18290519-18290639 1.0000 120 chrX:7166465-7166585 1.0000 120 chr3R:29699333-29699453 1.0000 120 chr3L:19338391-19338511 1.0000 120 chr3L:10536436-10536556 1.0000 120 chr3L:17113370-17113490 1.0000 120 chr3L:18102203-18102323 1.0000 120 chr3L:1083451-1083571 1.0000 120 chrX:10741099-10741219 1.0000 120 chr3L:19056975-19057095 1.0000 120 chr2R:15760455-15760575 1.0000 120 chrX:457941-458061 1.0000 120 chrX:13678210-13678330 1.0000 120 chr3R:30734720-30734840 1.0000 120 chr3R:31704673-31704793 1.0000 120 chr3L:2651908-2652028 1.0000 120 chr2L:14235130-14235250 1.0000 120 chr3R:21420033-21420153 1.0000 120 chr2R:6036515-6036635 1.0000 120 chr3L:7953819-7953939 1.0000 120 chr3R:10636185-10636305 1.0000 120 chr2R:10739833-10739953 1.0000 120 chr3L:16749842-16749962 1.0000 120 chr3L:110095-110215 1.0000 120 chr2L:16358044-16358164 1.0000 120 chr3R:27440741-27440861 1.0000 120 chr2R:18442249-18442369 1.0000 120 chr2R:14915193-14915313 1.0000 120 chr3L:3978116-3978236 1.0000 120 chr3L:10951210-10951330 1.0000 120 chrX:8445040-8445160 1.0000 120 chr2R:19923986-19924106 1.0000 120 chr3L:15321046-15321166 1.0000 120 chr2R:21364861-21364981 1.0000 120 chr3R:13907796-13907916 1.0000 120 chr3L:9042775-9042895 1.0000 120 chr3L:5994275-5994395 1.0000 120 chr2R:14803417-14803537 1.0000 120 chr2L:16530191-16530311 1.0000 120 chr3R:13885141-13885261 1.0000 120 chr3R:30733248-30733368 1.0000 120 chr3R:29313368-29313488 1.0000 120 chr2L:7616987-7617107 1.0000 120 chr3R:15650433-15650553 1.0000 120 chr3R:10628400-10628520 1.0000 120 chr3R:14586609-14586729 1.0000 120 chr2L:15442361-15442481 1.0000 120 chr3R:13548234-13548354 1.0000 120 chr2R:17533768-17533888 1.0000 120 chr3R:13803919-13804039 1.0000 120 chrX:5969999-5970119 1.0000 120 chr2L:11326517-11326637 1.0000 120 chr3L:19670608-19670728 1.0000 120 chr3L:19073941-19074061 1.0000 120 chrX:21045697-21045817 1.0000 120 chr3L:16486613-16486733 1.0000 120 chr3L:905144-905264 1.0000 120 chrX:3396984-3397104 1.0000 120 chr2L:10276569-10276689 1.0000 120 chr3R:10449088-10449208 1.0000 120 chr3L:5280114-5280234 1.0000 120 chr3L:16013372-16013492 1.0000 120 chr3R:23303354-23303474 1.0000 120 chr2L:9594992-9595112 1.0000 120 chr3R:30865606-30865726 1.0000 120 chr2L:14212863-14212983 1.0000 120 chrX:7552293-7552413 1.0000 120 chr3L:3873179-3873299 1.0000 120 chr3L:623709-623829 1.0000 120 chr2L:3851484-3851604 1.0000 120 chrX:17501717-17501837 1.0000 120 chr3R:13448498-13448618 1.0000 120 chr3L:15670549-15670669 1.0000 120 chr2L:10986341-10986461 1.0000 120 chr2R:15247915-15248035 1.0000 120 chr2L:19059042-19059162 1.0000 120 chrX:9350420-9350540 1.0000 120 chr3L:16015950-16016070 1.0000 120 chr3R:26859351-26859471 1.0000 120 chr3R:26012919-26013039 1.0000 120 chr3R:13469415-13469535 1.0000 120 chr2R:21883232-21883352 1.0000 120 chr2R:17206006-17206126 1.0000 120 chrX:13226566-13226686 1.0000 120 chr3L:18402658-18402778 1.0000 120 chr3L:19179585-19179705 1.0000 120 chr3L:18272421-18272541 1.0000 120 chr3R:16771736-16771856 1.0000 120 chr3L:12444221-12444341 1.0000 120 chr3R:29581606-29581726 1.0000 120 chr3R:10354050-10354170 1.0000 120 chr3L:3485262-3485382 1.0000 120 chr3R:15652743-15652863 1.0000 120 chr3R:9159933-9160053 1.0000 120 chr3L:15672945-15673065 1.0000 120 chr3R:31706266-31706386 1.0000 120 chr2L:10543531-10543651 1.0000 120 chr3L:1167046-1167166 1.0000 120 chr3R:11617490-11617610 1.0000 120 chr3R:23293514-23293634 1.0000 120 chr3L:3788970-3789090 1.0000 120 chrX:17780440-17780560 1.0000 120 chr3L:8445133-8445253 1.0000 120 chrX:10825478-10825598 1.0000 120 chrX:12225432-12225552 1.0000 120 chr3L:380974-381094 1.0000 120 chr3L:18349423-18349543 1.0000 120 chrX:18946963-18947083 1.0000 120 chr3L:21047132-21047252 1.0000 120 chr2L:7492028-7492148 1.0000 120 chr3R:10626150-10626270 1.0000 120 chrX:3719953-3720073 1.0000 120 chr3L:6885791-6885911 1.0000 120 chr2L:19219526-19219646 1.0000 120 chr3L:7861959-7862079 1.0000 120 chr2L:18505661-18505781 1.0000 120 chr3R:5856374-5856494 1.0000 120 chr3R:8362587-8362707 1.0000 120 chr2L:19884597-19884717 1.0000 120 chr3R:13404939-13405059 1.0000 120 chr3L:10350818-10350938 1.0000 120 chr2L:7295106-7295226 1.0000 120 chr3L:4242501-4242621 1.0000 120 chr3R:7646314-7646434 1.0000 120 chr3R:13446619-13446739 1.0000 120 chr3R:13799719-13799839 1.0000 120 chr3L:3851979-3852099 1.0000 120 chr3R:23355960-23356080 1.0000 120 chr2L:14441057-14441177 1.0000 120 chr3L:5952214-5952334 1.0000 120 chrX:5966136-5966256 1.0000 120 chrX:14679310-14679430 1.0000 120 chrX:21629711-21629831 1.0000 120 chr2L:3856482-3856602 1.0000 120 chr2L:16869087-16869207 1.0000 120 chr3R:8955003-8955123 1.0000 120 chr3L:6817097-6817217 1.0000 120 chr3L:10931593-10931713 1.0000 120 chr3L:13403198-13403318 1.0000 120 chrX:12221674-12221794 1.0000 120 chr3R:6241410-6241530 1.0000 120 chr3R:22878530-22878650 1.0000 120 chrX:3455571-3455691 1.0000 120 chr3R:6723946-6724066 1.0000 120 chr2L:7270411-7270531 1.0000 120 chr3R:23345182-23345302 1.0000 120 chr3R:11368855-11368975 1.0000 120 chr3L:9505475-9505595 1.0000 120 chr3L:13068472-13068592 1.0000 120 chr3L:3786922-3787042 1.0000 120 chr2R:23894885-23895005 1.0000 120 chr2L:14562345-14562465 1.0000 120 chr3L:3336795-3336915 1.0000 120 chr3L:11285274-11285394 1.0000 120 chr2L:7293586-7293706 1.0000 120 chr2L:4133177-4133297 1.0000 120 chr3L:18204060-18204180 1.0000 120 chr3L:8629035-8629155 1.0000 120 chr3L:14335949-14336069 1.0000 120 chr2R:19874609-19874729 1.0000 120 chrX:18525010-18525130 1.0000 120 chr3R:6760888-6761008 1.0000 120 chr2R:14161297-14161417 1.0000 120 chr3R:21887647-21887767 1.0000 120 chrX:17293499-17293619 1.0000 120 chr3R:26014355-26014475 1.0000 120 chr3L:2159048-2159168 1.0000 120 chrX:14622345-14622465 1.0000 120 chr2L:7532806-7532926 1.0000 120 chr3L:295202-295322 1.0000 120 chr2R:14971166-14971286 1.0000 120 chr2R:22661383-22661503 1.0000 120 chr2R:7955939-7956059 1.0000 120 chr2L:3587447-3587567 1.0000 120 chr3L:10337783-10337903 1.0000 120 chr2R:9681937-9682057 1.0000 120 chr2L:17747226-17747346 1.0000 120 chr3L:2845337-2845457 1.0000 120 chr3L:16768413-16768533 1.0000 120 chr3R:29265242-29265362 1.0000 120 chr3L:6157711-6157831 1.0000 120 chr3L:745670-745790 1.0000 120 chr3R:21493717-21493837 1.0000 120 chr3R:26444255-26444375 1.0000 120 chr3L:12102129-12102249 1.0000 120 chrX:7571324-7571444 1.0000 120 chr2R:8759597-8759717 1.0000 120 chr3R:21830347-21830467 1.0000 120 chr2L:4579134-4579254 1.0000 120 chr2L:7635281-7635401 1.0000 120 chr2L:9206539-9206659 1.0000 120 chr2L:19377524-19377644 1.0000 120 chr3L:10847877-10847997 1.0000 120 chr3R:4846901-4847021 1.0000 120 chr2L:11189257-11189377 1.0000 120 chr3R:19014917-19015037 1.0000 120 chr3L:10767328-10767448 1.0000 120 chr3L:10893536-10893656 1.0000 120 chr3R:23872943-23873063 1.0000 120 chr3L:18297533-18297653 1.0000 120 chr3L:11334162-11334282 1.0000 120 chr2R:19669857-19669977 1.0000 120 chr3L:10206346-10206466 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_CG2712/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/CG2712.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 0.36 C 0.139 G 0.14 T 0.361 Background letter frequencies (from file dataset with add-one prior applied): A 0.36 C 0.139 G 0.14 T 0.361 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF ATTGTGAA MEME-1 width = 8 sites = 28 llr = 261 E-value = 3.8e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 Description -------------------------------------------------------------------------------- Simplified A a:::::a9 pos.-specific C :1:::::: probability G :::a1a:1 matrix T :9a:9::: bits 2.8 * * 2.6 * * 2.3 * * 2.0 * * Relative 1.7 * * Entropy 1.4 * ** ** (13.5 bits) 1.1 **** *** 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel ATTGTGAA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:19669857-19669977 60 4.30e-05 ACGTATGCCT ATTGTGAA TGGACATTTT chr3L:2845337-2845457 96 4.30e-05 TAAAAAACTT ATTGTGAA AAATCTTTTT chrX:21629711-21629831 53 4.30e-05 ATTGTGGTGA ATTGTGAA TGAACACTTT chrX:3719953-3720073 95 4.30e-05 TCGTGTGAAT ATTGTGAA TATTTTTTTT chr3R:11617490-11617610 4 4.30e-05 ACA ATTGTGAA TATACATACA chrX:13678210-13678330 84 4.30e-05 CCCCATAACC ATTGTGAA CCGTTGATAA chr3R:11257115-11257235 36 4.30e-05 TTGGTGGTCT ATTGTGAA TGAACCGTTT chr3L:13435464-13435584 77 4.30e-05 ACAAAACACC ATTGTGAA CGGGCCATCC chr2L:6536470-6536590 33 4.30e-05 AACAATGCCC ATTGTGAA TGAGATTTTG chr3L:616500-616620 45 4.30e-05 AACGTTGAAA ATTGTGAA TGAAATAAGA chrX:16679084-16679204 39 4.30e-05 ATCCTCGCCC ATTGTGAA TTGCTGTTCT chrX:22529904-22530024 83 4.30e-05 AAAAAACTTT ATTGTGAA TGTGTAAATA chr3L:9729927-9730047 80 4.30e-05 ACCTGTCACT ATTGTGAA CTGACAATTT chr2R:21712391-21712511 56 4.30e-05 ATCCTTCGCT ATTGTGAA CTTGCAACAG chr3L:3387785-3387905 48 4.30e-05 AACAACTCCT ATTGTGAA TGGGCTGCGT chr2R:16322124-16322244 72 4.30e-05 TTGCACTGCT ATTGTGAA CTGCAAAACA chr3L:3303868-3303988 42 4.30e-05 TGCACGTGCA ATTGTGAA TCGTTCTCGA chr2L:2009746-2009866 69 4.30e-05 TTCGGCTGCC ATTGTGAA TGGTCAAAGT chr3L:21343696-21343816 65 4.30e-05 TAAGCAATCT ATTGTGAA TGGGTGCACT chr3L:8509916-8510036 87 4.30e-05 TAAAAAGCTT ATTGTGAA TGGGCACATC chr2R:21292170-21292290 66 4.30e-05 AAACCAGTCT ATTGTGAA TTGAATACAA chr2L:11189257-11189377 22 5.97e-05 ACATATTACG ATTGGGAA ATGTATTGAA chr2R:14971166-14971286 1 5.97e-05 . ATTGGGAA ACTCAGGGAA chr2R:18442249-18442369 62 9.30e-05 TAACGTGTTG ATTGTGAG TATCTATTTG chrX:17471716-17471836 34 9.30e-05 ATGCACTGGC ATTGTGAG CGTTTGCTTG chr2L:8308178-8308298 19 9.30e-05 ATGCACGTTT ACTGTGAA TGGCAACATT chr3R:23358567-23358687 40 9.30e-05 GCCTAGTACT ACTGTGAA TCAATTTAAG chr3R:21420033-21420153 52 1.36e-04 CCAAAAATAA ATTGAGAA TTATAAGCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:19669857-19669977 4.3e-05 59_[+1]_53 chr3L:2845337-2845457 4.3e-05 95_[+1]_17 chrX:21629711-21629831 4.3e-05 52_[+1]_60 chrX:3719953-3720073 4.3e-05 94_[+1]_18 chr3R:11617490-11617610 4.3e-05 3_[+1]_109 chrX:13678210-13678330 4.3e-05 83_[+1]_29 chr3R:11257115-11257235 4.3e-05 35_[+1]_77 chr3L:13435464-13435584 4.3e-05 76_[+1]_36 chr2L:6536470-6536590 4.3e-05 32_[+1]_80 chr3L:616500-616620 4.3e-05 44_[+1]_68 chrX:16679084-16679204 4.3e-05 38_[+1]_74 chrX:22529904-22530024 4.3e-05 82_[+1]_30 chr3L:9729927-9730047 4.3e-05 79_[+1]_33 chr2R:21712391-21712511 4.3e-05 55_[+1]_57 chr3L:3387785-3387905 4.3e-05 47_[+1]_65 chr2R:16322124-16322244 4.3e-05 71_[+1]_41 chr3L:3303868-3303988 4.3e-05 41_[+1]_71 chr2L:2009746-2009866 4.3e-05 68_[+1]_44 chr3L:21343696-21343816 4.3e-05 64_[+1]_48 chr3L:8509916-8510036 4.3e-05 86_[+1]_26 chr2R:21292170-21292290 4.3e-05 65_[+1]_47 chr2L:11189257-11189377 6e-05 21_[+1]_91 chr2R:14971166-14971286 6e-05 [+1]_112 chr2R:18442249-18442369 9.3e-05 61_[+1]_51 chrX:17471716-17471836 9.3e-05 33_[+1]_79 chr2L:8308178-8308298 9.3e-05 18_[+1]_94 chr3R:23358567-23358687 9.3e-05 39_[+1]_73 chr3R:21420033-21420153 0.00014 51_[+1]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ATTGTGAA width=8 seqs=28 chr2R:19669857-19669977 ( 60) ATTGTGAA 1 chr3L:2845337-2845457 ( 96) ATTGTGAA 1 chrX:21629711-21629831 ( 53) ATTGTGAA 1 chrX:3719953-3720073 ( 95) ATTGTGAA 1 chr3R:11617490-11617610 ( 4) ATTGTGAA 1 chrX:13678210-13678330 ( 84) ATTGTGAA 1 chr3R:11257115-11257235 ( 36) ATTGTGAA 1 chr3L:13435464-13435584 ( 77) ATTGTGAA 1 chr2L:6536470-6536590 ( 33) ATTGTGAA 1 chr3L:616500-616620 ( 45) ATTGTGAA 1 chrX:16679084-16679204 ( 39) ATTGTGAA 1 chrX:22529904-22530024 ( 83) ATTGTGAA 1 chr3L:9729927-9730047 ( 80) ATTGTGAA 1 chr2R:21712391-21712511 ( 56) ATTGTGAA 1 chr3L:3387785-3387905 ( 48) ATTGTGAA 1 chr2R:16322124-16322244 ( 72) ATTGTGAA 1 chr3L:3303868-3303988 ( 42) ATTGTGAA 1 chr2L:2009746-2009866 ( 69) ATTGTGAA 1 chr3L:21343696-21343816 ( 65) ATTGTGAA 1 chr3L:8509916-8510036 ( 87) ATTGTGAA 1 chr2R:21292170-21292290 ( 66) ATTGTGAA 1 chr2L:11189257-11189377 ( 22) ATTGGGAA 1 chr2R:14971166-14971286 ( 1) ATTGGGAA 1 chr2R:18442249-18442369 ( 62) ATTGTGAG 1 chrX:17471716-17471836 ( 34) ATTGTGAG 1 chr2L:8308178-8308298 ( 19) ACTGTGAA 1 chr3R:23358567-23358687 ( 40) ACTGTGAA 1 chr3R:21420033-21420153 ( 52) ATTGAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 9.82089 E= 3.8e-002 147 -1145 -1145 -1145 -1145 -96 -1145 136 -1145 -1145 -1145 147 -1145 -1145 284 -1145 -333 -1145 -97 131 -1145 -1145 284 -1145 147 -1145 -1145 -1145 137 -1145 -97 -1145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 3.8e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.071429 0.000000 0.928571 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.035714 0.000000 0.071429 0.892857 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.928571 0.000000 0.071429 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ATTGTGAA MEME-1 regular expression -------------------------------------------------------------------------------- ATTGTGAA -------------------------------------------------------------------------------- Time 7.52 secs. ******************************************************************************** ******************************************************************************** MOTIF BSGCTGSV MEME-2 width = 8 sites = 29 llr = 261 E-value = 2.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::3:::23 pos.-specific C 37:a::43 probability G 537:2a43 matrix T 2:::8::: bits 2.8 * * 2.6 * * 2.3 * * 2.0 * * * Relative 1.7 * * * Entropy 1.4 *** * (13.0 bits) 1.1 ******* 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel GCGCTGCA consensus CGA GC sequence T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:14756236-14756356 90 2.74e-06 GCCAAGCTTA GGGCTGCC AACTGTAATT chr3L:3387785-3387905 57 3.63e-06 TATTGTGAAT GGGCTGCG TACAATTTTT chrX:12221674-12221794 59 5.48e-06 TGAAGACTAC GCGCTGCA GATTTAGATA chrX:21629711-21629831 79 5.48e-06 TTCACTTTGT GCGCTGCA AATTATAGAA chr2L:6536470-6536590 51 5.48e-06 TGAGATTTTG CCGCTGGG CGAACGCCAA chr2L:2009746-2009866 61 7.48e-06 ACAGCTGATT CGGCTGCC ATTGTGAATG chr2L:19377524-19377644 33 9.75e-06 CAGTCGGCAT CCGCTGCA ACTACACTGA chr3R:16771736-16771856 35 1.71e-05 TAGTGGTGAA GCGCGGGA GAACTTTCAA chr2R:16322124-16322244 105 1.99e-05 CGTTTTGATT GCACTGCG GCTTTAAA chr3R:21887647-21887767 9 2.30e-05 TATAGAAC TCGCTGGG ATGCATGCAG chrX:17471716-17471836 26 2.30e-05 TTGTTTCAAT GCACTGGC ATTGTGAGCG chr2L:21096628-21096748 87 2.30e-05 CACAATGGGA GCACTGGC AAGTGCACAA chr2L:20425993-20426113 95 2.30e-05 AAAATGGCAC TCGCTGGG ATTGAGGCGC chr3R:6932769-6932889 26 2.41e-05 GCGAATCGAG CGGCGGCG GCACGTCTAT chr2R:14971166-14971286 57 2.97e-05 AATTTTTAGA CCACTGCC TTTTGATTCA chr3L:3336795-3336915 102 4.30e-05 CAAGACGTGC GCGCGGAC TGAAAATTGG chr2R:15247915-15248035 1 4.30e-05 . CCACTGGC ACTCATCCAC chr2R:18442249-18442369 87 4.30e-05 TTGATGCTAA TCGCTGCA GATGGGGGAC chr3L:9729927-9730047 34 4.30e-05 TTGTAAAACC GGGCTGAC AAGCGGTTGA chr3L:9042775-9042895 44 5.05e-05 GCTTAGAATA TGGCTGGG CATCATAGAA chrX:16679084-16679204 94 5.68e-05 TGTTGCCACG TCGCTGGA AATGCAAGGA chr3R:8113456-8113576 28 6.62e-05 CCACCACTGT GCCCTGGC TCGATGATGA chr3L:3543541-3543661 64 6.62e-05 ACGTTCGCCG CGGCTGAC GTTTCGCTCT chrX:17780440-17780560 4 7.63e-05 AAA CCACTGCA AGCAAGTTTA chr3L:13435464-13435584 42 7.63e-05 ATAAACACTG TGGCTGCA CAGCACATGC chrX:8671774-8671894 6 8.46e-05 ACGAT GCACGGCA ATTGGAATGG chr3R:23143642-23143762 39 8.46e-05 tgtatctgtG GGGCGGAG CTGCTTAAGG chr3L:21343696-21343816 25 9.68e-05 GTGTGCCCGT TGGCTGGA AAGCACAAAA chr3L:13403198-13403318 14 1.20e-04 TAGGAATGCA GCACTGAG AAATTTATTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:14756236-14756356 2.7e-06 89_[+2]_23 chr3L:3387785-3387905 3.6e-06 56_[+2]_56 chrX:12221674-12221794 5.5e-06 58_[+2]_54 chrX:21629711-21629831 5.5e-06 78_[+2]_34 chr2L:6536470-6536590 5.5e-06 50_[+2]_62 chr2L:2009746-2009866 7.5e-06 60_[+2]_52 chr2L:19377524-19377644 9.8e-06 32_[+2]_80 chr3R:16771736-16771856 1.7e-05 34_[+2]_78 chr2R:16322124-16322244 2e-05 104_[+2]_8 chr3R:21887647-21887767 2.3e-05 8_[+2]_104 chrX:17471716-17471836 2.3e-05 25_[+2]_87 chr2L:21096628-21096748 2.3e-05 86_[+2]_26 chr2L:20425993-20426113 2.3e-05 94_[+2]_18 chr3R:6932769-6932889 2.4e-05 25_[+2]_87 chr2R:14971166-14971286 3e-05 56_[+2]_56 chr3L:3336795-3336915 4.3e-05 101_[+2]_11 chr2R:15247915-15248035 4.3e-05 [+2]_112 chr2R:18442249-18442369 4.3e-05 86_[+2]_26 chr3L:9729927-9730047 4.3e-05 33_[+2]_79 chr3L:9042775-9042895 5e-05 43_[+2]_69 chrX:16679084-16679204 5.7e-05 93_[+2]_19 chr3R:8113456-8113576 6.6e-05 27_[+2]_85 chr3L:3543541-3543661 6.6e-05 63_[+2]_49 chrX:17780440-17780560 7.6e-05 3_[+2]_109 chr3L:13435464-13435584 7.6e-05 41_[+2]_71 chrX:8671774-8671894 8.5e-05 5_[+2]_107 chr3R:23143642-23143762 8.5e-05 38_[+2]_74 chr3L:21343696-21343816 9.7e-05 24_[+2]_88 chr3L:13403198-13403318 0.00012 13_[+2]_99 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF BSGCTGSV width=8 seqs=29 chr2R:14756236-14756356 ( 90) GGGCTGCC 1 chr3L:3387785-3387905 ( 57) GGGCTGCG 1 chrX:12221674-12221794 ( 59) GCGCTGCA 1 chrX:21629711-21629831 ( 79) GCGCTGCA 1 chr2L:6536470-6536590 ( 51) CCGCTGGG 1 chr2L:2009746-2009866 ( 61) CGGCTGCC 1 chr2L:19377524-19377644 ( 33) CCGCTGCA 1 chr3R:16771736-16771856 ( 35) GCGCGGGA 1 chr2R:16322124-16322244 ( 105) GCACTGCG 1 chr3R:21887647-21887767 ( 9) TCGCTGGG 1 chrX:17471716-17471836 ( 26) GCACTGGC 1 chr2L:21096628-21096748 ( 87) GCACTGGC 1 chr2L:20425993-20426113 ( 95) TCGCTGGG 1 chr3R:6932769-6932889 ( 26) CGGCGGCG 1 chr2R:14971166-14971286 ( 57) CCACTGCC 1 chr3L:3336795-3336915 ( 102) GCGCGGAC 1 chr2R:15247915-15248035 ( 1) CCACTGGC 1 chr2R:18442249-18442369 ( 87) TCGCTGCA 1 chr3L:9729927-9730047 ( 34) GGGCTGAC 1 chr3L:9042775-9042895 ( 44) TGGCTGGG 1 chrX:16679084-16679204 ( 94) TCGCTGGA 1 chr3R:8113456-8113576 ( 28) GCCCTGGC 1 chr3L:3543541-3543661 ( 64) CGGCTGAC 1 chrX:17780440-17780560 ( 4) CCACTGCA 1 chr3L:13435464-13435584 ( 42) TGGCTGCA 1 chrX:8671774-8671894 ( 6) GCACGGCA 1 chr3R:23143642-23143762 ( 39) GGGCGGAG 1 chr3L:21343696-21343816 ( 25) TGGCTGGA 1 chr3L:13403198-13403318 ( 14) GCACTGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.6156 E= 2.1e+001 -1150 99 179 -58 -1150 223 131 -1150 -38 -201 231 -1150 -1150 284 -1150 -1150 -1150 -1150 31 120 -1150 -1150 284 -1150 -106 169 144 -1150 -6 131 115 -1150 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 29 E= 2.1e+001 0.000000 0.275862 0.482759 0.241379 0.000000 0.655172 0.344828 0.000000 0.275862 0.034483 0.689655 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.172414 0.827586 0.000000 0.000000 1.000000 0.000000 0.172414 0.448276 0.379310 0.000000 0.344828 0.344828 0.310345 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif BSGCTGSV MEME-2 regular expression -------------------------------------------------------------------------------- [GCT][CG][GA]CTG[CG][ACG] -------------------------------------------------------------------------------- Time 13.76 secs. ******************************************************************************** ******************************************************************************** MOTIF TGGCCWCC MEME-3 width = 8 sites = 11 llr = 115 E-value = 4.9e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::5:: pos.-specific C 1319a:99 probability G 3691::11 matrix T 61:::5:: bits 2.8 * 2.6 * 2.3 *** ** 2.0 *** ** Relative 1.7 *** ** Entropy 1.4 **** ** (15.1 bits) 1.1 **** ** 0.9 ***** ** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TGGCCACC consensus GC T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:8113456-8113576 15 1.69e-06 AATGTATTTT TGGCCACC ACTGTGCCCT chr3R:23143642-23143762 4 1.69e-06 ttt gggcctcc gcatctgtat chrX:10474824-10474944 40 1.69e-06 ACGATCAGGG TGGCCACC CCGCAAAAAA chr2R:18442249-18442369 24 2.64e-06 CCCGTGGAGC TGGCCTCC AATGCATTGA chr2L:20425993-20426113 25 3.01e-06 TCGAAAGGTG GCGCCACC TGGAAGGACG chr3L:8509916-8510036 59 5.63e-06 ATGGCACATG CGGCCACC CTAATAAACC chrX:5696169-5696289 81 1.35e-05 ATACATTTTG TGCCCACC TCTAGTGGTT chr3R:21420033-21420153 32 1.73e-05 GCTATATGAT TGGGCTCC TTCCAAAAAT chr3L:7368484-7368604 113 2.17e-05 GTTCTGCTTC TTGCCACC chr2L:16530191-16530311 28 3.09e-05 GCAACTGCTC GCGCCTCG TCATTCACAA chr2L:7293586-7293706 98 3.62e-05 AGCTTTTTAT TCGCCTGC ATTGATCTCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:8113456-8113576 1.7e-06 14_[+3]_98 chr3R:23143642-23143762 1.7e-06 3_[+3]_109 chrX:10474824-10474944 1.7e-06 39_[+3]_73 chr2R:18442249-18442369 2.6e-06 23_[+3]_89 chr2L:20425993-20426113 3e-06 24_[+3]_88 chr3L:8509916-8510036 5.6e-06 58_[+3]_54 chrX:5696169-5696289 1.4e-05 80_[+3]_32 chr3R:21420033-21420153 1.7e-05 31_[+3]_81 chr3L:7368484-7368604 2.2e-05 112_[+3] chr2L:16530191-16530311 3.1e-05 27_[+3]_85 chr2L:7293586-7293706 3.6e-05 97_[+3]_15 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGCCWCC width=8 seqs=11 chr3R:8113456-8113576 ( 15) TGGCCACC 1 chr3R:23143642-23143762 ( 4) GGGCCTCC 1 chrX:10474824-10474944 ( 40) TGGCCACC 1 chr2R:18442249-18442369 ( 24) TGGCCTCC 1 chr2L:20425993-20426113 ( 25) GCGCCACC 1 chr3L:8509916-8510036 ( 59) CGGCCACC 1 chrX:5696169-5696289 ( 81) TGCCCACC 1 chr3R:21420033-21420153 ( 32) TGGGCTCC 1 chr3L:7368484-7368604 ( 113) TTGCCACC 1 chr2L:16530191-16530311 ( 28) GCGCCTCG 1 chr2L:7293586-7293706 ( 98) TCGCCTGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.6812 E= 4.9e+002 -1010 -61 97 82 -1010 97 219 -199 -1010 -61 270 -1010 -1010 271 -62 -1010 -1010 284 -1010 -1010 60 -1010 -1010 33 -1010 271 -62 -1010 -1010 271 -62 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 4.9e+002 0.000000 0.090909 0.272727 0.636364 0.000000 0.272727 0.636364 0.090909 0.000000 0.090909 0.909091 0.000000 0.000000 0.909091 0.090909 0.000000 0.000000 1.000000 0.000000 0.000000 0.545455 0.000000 0.000000 0.454545 0.000000 0.909091 0.090909 0.000000 0.000000 0.909091 0.090909 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCCWCC MEME-3 regular expression -------------------------------------------------------------------------------- [TG][GC]GCC[AT]CC -------------------------------------------------------------------------------- Time 19.94 secs. ******************************************************************************** ******************************************************************************** MOTIF TTCACAAT MEME-4 width = 8 sites = 20 llr = 191 E-value = 1.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::a:aa: pos.-specific C :2a:a::: probability G 1::::::: matrix T 99:::::a bits 2.8 * * 2.6 * * 2.3 * * 2.0 * * Relative 1.7 * * Entropy 1.4 ****** (13.8 bits) 1.1 ******** 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TTCACAAT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:14161297-14161417 17 4.24e-05 AAAAAATAAT TTCACAAT ATAATTTCAT chrX:21629711-21629831 37 4.24e-05 TGCAAATGAG TTCACAAT TGTGGTGAAT chr3R:23355960-23356080 74 4.24e-05 CAATTGTCAG TTCACAAT GGCAGTTGGT chr2L:16530191-16530311 39 4.24e-05 CGCCTCGTCA TTCACAAT AGACGGAAGT chr2R:18442249-18442369 45 4.24e-05 GCATTGACCA TTCACAAT AACGTGTTGA chr2L:21096628-21096748 75 4.24e-05 TCGTTGCCCA TTCACAAT GGGAGCACTG chr2R:6963866-6963986 58 4.24e-05 TCAGAAAGCG TTCACAAT AGACACTCAA chr2L:12348830-12348950 110 4.24e-05 ATAGCTACAG TTCACAAT GCA chr3R:8113456-8113576 73 4.24e-05 TCGTTGTTCG TTCACAAT GCAATGTGGA chr3L:3543541-3543661 43 4.24e-05 GTGTTTTTAG TTCACAAT CGAACGTTCG chrX:10474824-10474944 80 4.24e-05 AGTTTTGCCA TTCACAAT TGGATTCTGT chr3L:7936217-7936337 104 4.24e-05 TACTAAGACA TTCACAAT GGGGTGTTC chr2L:20425993-20426113 70 4.24e-05 GGCCGAACCG TTCACAAT GGACCCCAAA chr2R:13197838-13197958 51 4.24e-05 AAGGTGCTCG TTCACAAT GGACGCAGAC chr2R:23165822-23165942 72 4.24e-05 TGGTAAACCA TTCACAAT GAGCTCAATA chr3R:23872943-23873063 60 5.87e-05 CTTTATTTAC TCCACAAT ATCAATCACC chr3R:21830347-21830467 106 5.87e-05 tataataaat tccacaat aatacaa chr3L:6817097-6817217 45 5.87e-05 ATCCTTATGA TCCACAAT TAAGTAAGAA chr2L:7532806-7532926 30 7.52e-05 CCTAAAGTCA GTCACAAT ACTATGTGGT chr3R:5856374-5856494 3 7.52e-05 TA GTCACAAT GAGCTTATGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:14161297-14161417 4.2e-05 16_[+4]_96 chrX:21629711-21629831 4.2e-05 36_[+4]_76 chr3R:23355960-23356080 4.2e-05 73_[+4]_39 chr2L:16530191-16530311 4.2e-05 38_[+4]_74 chr2R:18442249-18442369 4.2e-05 44_[+4]_68 chr2L:21096628-21096748 4.2e-05 74_[+4]_38 chr2R:6963866-6963986 4.2e-05 57_[+4]_55 chr2L:12348830-12348950 4.2e-05 109_[+4]_3 chr3R:8113456-8113576 4.2e-05 72_[+4]_40 chr3L:3543541-3543661 4.2e-05 42_[+4]_70 chrX:10474824-10474944 4.2e-05 79_[+4]_33 chr3L:7936217-7936337 4.2e-05 103_[+4]_9 chr2L:20425993-20426113 4.2e-05 69_[+4]_43 chr2R:13197838-13197958 4.2e-05 50_[+4]_62 chr2R:23165822-23165942 4.2e-05 71_[+4]_41 chr3R:23872943-23873063 5.9e-05 59_[+4]_53 chr3R:21830347-21830467 5.9e-05 105_[+4]_7 chr3L:6817097-6817217 5.9e-05 44_[+4]_68 chr2L:7532806-7532926 7.5e-05 29_[+4]_83 chr3R:5856374-5856494 7.5e-05 2_[+4]_110 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTCACAAT width=8 seqs=20 chr2R:14161297-14161417 ( 17) TTCACAAT 1 chrX:21629711-21629831 ( 37) TTCACAAT 1 chr3R:23355960-23356080 ( 74) TTCACAAT 1 chr2L:16530191-16530311 ( 39) TTCACAAT 1 chr2R:18442249-18442369 ( 45) TTCACAAT 1 chr2L:21096628-21096748 ( 75) TTCACAAT 1 chr2R:6963866-6963986 ( 58) TTCACAAT 1 chr2L:12348830-12348950 ( 110) TTCACAAT 1 chr3R:8113456-8113576 ( 73) TTCACAAT 1 chr3L:3543541-3543661 ( 43) TTCACAAT 1 chrX:10474824-10474944 ( 80) TTCACAAT 1 chr3L:7936217-7936337 ( 104) TTCACAAT 1 chr2L:20425993-20426113 ( 70) TTCACAAT 1 chr2R:13197838-13197958 ( 51) TTCACAAT 1 chr2R:23165822-23165942 ( 72) TTCACAAT 1 chr3R:23872943-23873063 ( 60) TCCACAAT 1 chr3R:21830347-21830467 ( 106) TCCACAAT 1 chr3L:6817097-6817217 ( 45) TCCACAAT 1 chr2L:7532806-7532926 ( 30) GTCACAAT 1 chr3R:5856374-5856494 ( 3) GTCACAAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.7147 E= 1.4e+003 -1097 -1097 -48 132 -1097 11 -1097 123 -1097 284 -1097 -1097 147 -1097 -1097 -1097 -1097 284 -1097 -1097 147 -1097 -1097 -1097 147 -1097 -1097 -1097 -1097 -1097 -1097 147 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 1.4e+003 0.000000 0.000000 0.100000 0.900000 0.000000 0.150000 0.000000 0.850000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACAAT MEME-4 regular expression -------------------------------------------------------------------------------- TTCACAAT -------------------------------------------------------------------------------- Time 26.09 secs. ******************************************************************************** ******************************************************************************** MOTIF CSACCCGC MEME-5 width = 8 sites = 2 llr = 28 E-value = 3.5e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::a::::: pos.-specific C a5:aaa:a probability G :5::::a: matrix T :::::::: bits 2.8 * ***** 2.6 * ***** 2.3 * ***** 2.0 * ***** Relative 1.7 ** ***** Entropy 1.4 ******** (20.4 bits) 1.1 ******** 0.9 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel CCACCCGC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:19670608-19670728 1 7.30e-07 . CCACCCGC TCTGTGTGGC chr3L:3303868-3303988 66 7.30e-07 TCGATTTTCC CGACCCGC ACCCTTTCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:19670608-19670728 7.3e-07 [+5]_112 chr3L:3303868-3303988 7.3e-07 65_[+5]_47 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CSACCCGC width=8 seqs=2 chr3L:19670608-19670728 ( 1) CCACCCGC 1 chr3L:3303868-3303988 ( 66) CGACCCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.7859 E= 3.5e+004 -765 284 -765 -765 -765 184 184 -765 147 -765 -765 -765 -765 284 -765 -765 -765 284 -765 -765 -765 284 -765 -765 -765 -765 284 -765 -765 284 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 3.5e+004 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSACCCGC MEME-5 regular expression -------------------------------------------------------------------------------- C[CG]ACCCGC -------------------------------------------------------------------------------- Time 32.19 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:23165822-23165942 1.24e-02 71_[+4(4.24e-05)]_41 chr2R:21292170-21292290 2.53e-02 65_[+1(4.30e-05)]_47 chr2R:13197838-13197958 9.24e-03 50_[+4(4.24e-05)]_62 chr2L:20425993-20426113 2.81e-06 24_[+3(3.01e-06)]_37_[+4(4.24e-05)]_\ 17_[+2(2.30e-05)]_18 chr3L:8509916-8510036 2.37e-04 58_[+3(5.63e-06)]_20_[+1(4.30e-05)]_\ 26 chr3L:7936217-7936337 1.80e-02 103_[+4(4.24e-05)]_9 chr3L:21343696-21343816 1.27e-03 24_[+2(9.68e-05)]_32_[+1(4.30e-05)]_\ 48 chr3R:29313169-29313289 2.91e-01 120 chr2L:2009746-2009866 1.23e-04 60_[+2(7.48e-06)]_[+1(4.30e-05)]_44 chrX:10474824-10474944 3.18e-06 39_[+3(1.69e-06)]_32_[+4(4.24e-05)]_\ 33 chr3L:3303868-3303988 2.44e-07 41_[+1(4.30e-05)]_16_[+5(7.30e-07)]_\ 47 chr3L:3543541-3543661 4.39e-04 42_[+4(4.24e-05)]_13_[+2(6.62e-05)]_\ 49 chr3R:23143642-23143762 8.11e-05 3_[+3(1.69e-06)]_27_[+2(8.46e-05)]_\ 74 chr2R:16322124-16322244 1.43e-05 50_[+5(8.25e-05)]_13_[+1(4.30e-05)]_\ 25_[+2(1.99e-05)]_8 chr3L:3387785-3387905 1.74e-05 47_[+1(4.30e-05)]_1_[+2(3.63e-06)]_\ 56 chr2R:21712391-21712511 3.87e-03 55_[+1(4.30e-05)]_57 chr3L:7368484-7368604 1.67e-03 112_[+3(2.17e-05)] chr3L:9729927-9730047 2.34e-04 33_[+2(4.30e-05)]_38_[+1(4.30e-05)]_\ 33 chr3R:8113456-8113576 1.11e-05 14_[+3(1.69e-06)]_5_[+2(6.62e-05)]_\ 37_[+4(4.24e-05)]_40 chr3R:6932769-6932889 7.26e-05 25_[+2(2.41e-05)]_87 chrX:22529904-22530024 1.94e-01 82_[+1(4.30e-05)]_30 chr3R:23358567-23358687 6.30e-02 39_[+1(9.30e-05)]_73 chr2R:16320694-16320814 2.58e-01 120 chrX:16679084-16679204 1.38e-05 12_[+5(8.25e-05)]_18_[+1(4.30e-05)]_\ 39_[+3(7.59e-05)]_[+2(5.68e-05)]_19 chr2L:9586051-9586171 8.79e-01 120 chr3L:616500-616620 8.63e-04 44_[+1(4.30e-05)]_43_[+3(6.22e-05)]_\ 17 chr2L:8308178-8308298 1.91e-01 18_[+1(9.30e-05)]_94 chr2L:18919599-18919719 9.40e-01 120 chr3R:16801174-16801294 3.45e-01 120 chr2L:20204757-20204877 9.16e-01 120 chr2L:18906749-18906869 7.18e-01 120 chr2L:6536470-6536590 1.45e-04 32_[+1(4.30e-05)]_10_[+2(5.48e-06)]_\ 62 chr2L:12348830-12348950 1.56e-02 109_[+4(4.24e-05)]_3 chr3L:13435464-13435584 6.99e-04 41_[+2(7.63e-05)]_27_[+1(4.30e-05)]_\ 36 chr2R:6963866-6963986 2.46e-02 57_[+4(4.24e-05)]_55 chrX:5696169-5696289 4.93e-03 80_[+3(1.35e-05)]_32 chr2L:21096628-21096748 2.38e-06 18_[+5(8.25e-05)]_33_[+3(9.59e-05)]_\ 7_[+4(4.24e-05)]_4_[+2(2.30e-05)]_26 chr3L:15174997-15175117 5.47e-01 120 chr2R:14756236-14756356 2.58e-04 89_[+2(2.74e-06)]_23 chr3L:15199318-15199438 9.90e-01 120 chr3L:10514955-10515075 9.40e-01 120 chr3R:11257115-11257235 1.37e-02 35_[+1(4.30e-05)]_77 chr3L:18243269-18243389 8.91e-01 120 chrX:17471716-17471836 4.82e-03 25_[+2(2.30e-05)]_[+1(9.30e-05)]_79 chr3L:14961146-14961266 9.91e-01 120 chrX:8671774-8671894 1.59e-01 5_[+2(8.46e-05)]_107 chr2L:5445968-5446088 9.98e-01 120 chr3L:18290519-18290639 5.18e-01 120 chrX:7166465-7166585 5.76e-01 120 chr3R:29699333-29699453 4.07e-01 120 chr3L:19338391-19338511 9.98e-01 120 chr3L:10536436-10536556 9.87e-01 120 chr3L:17113370-17113490 1.37e-01 69_[+3(7.59e-05)]_43 chr3L:18102203-18102323 7.62e-01 120 chr3L:1083451-1083571 2.43e-01 120 chrX:10741099-10741219 9.74e-01 120 chr3L:19056975-19057095 7.87e-01 120 chr2R:15760455-15760575 6.69e-01 120 chrX:457941-458061 1.72e-01 120 chrX:13678210-13678330 2.33e-03 61_[+5(8.25e-05)]_[+5(8.25e-05)]_6_\ [+1(4.30e-05)]_29 chr3R:30734720-30734840 6.94e-01 120 chr3R:31704673-31704793 7.88e-01 120 chr3L:2651908-2652028 9.76e-01 120 chr2L:14235130-14235250 4.23e-01 120 chr3R:21420033-21420153 8.34e-03 31_[+3(1.73e-05)]_81 chr2R:6036515-6036635 7.44e-02 120 chr3L:7953819-7953939 6.78e-01 120 chr3R:10636185-10636305 7.87e-01 120 chr2R:10739833-10739953 3.12e-02 120 chr3L:16749842-16749962 9.95e-01 120 chr3L:110095-110215 1.25e-01 120 chr2L:16358044-16358164 3.79e-02 120 chr3R:27440741-27440861 3.43e-02 120 chr2R:18442249-18442369 3.32e-07 23_[+3(2.64e-06)]_13_[+4(4.24e-05)]_\ 9_[+1(9.30e-05)]_17_[+2(4.30e-05)]_6_[+2(9.68e-05)]_12 chr2R:14915193-14915313 2.77e-01 120 chr3L:3978116-3978236 5.80e-01 120 chr3L:10951210-10951330 9.26e-01 120 chrX:8445040-8445160 9.73e-01 120 chr2R:19923986-19924106 9.26e-01 120 chr3L:15321046-15321166 6.86e-01 120 chr2R:21364861-21364981 1.90e-01 120 chr3R:13907796-13907916 2.98e-01 120 chr3L:9042775-9042895 2.12e-02 43_[+2(5.05e-05)]_69 chr3L:5994275-5994395 6.67e-01 120 chr2R:14803417-14803537 6.00e-01 120 chr2L:16530191-16530311 7.67e-04 27_[+3(3.09e-05)]_3_[+4(4.24e-05)]_\ 74 chr3R:13885141-13885261 6.68e-01 120 chr3R:30733248-30733368 9.96e-01 120 chr3R:29313368-29313488 2.66e-01 120 chr2L:7616987-7617107 4.89e-01 120 chr3R:15650433-15650553 2.84e-01 120 chr3R:10628400-10628520 9.96e-01 120 chr3R:14586609-14586729 8.86e-01 120 chr2L:15442361-15442481 5.96e-01 120 chr3R:13548234-13548354 5.34e-01 120 chr2R:17533768-17533888 7.96e-01 120 chr3R:13803919-13804039 9.68e-01 120 chrX:5969999-5970119 8.15e-01 120 chr2L:11326517-11326637 9.53e-01 120 chr3L:19670608-19670728 1.54e-03 [+5(7.30e-07)]_112 chr3L:19073941-19074061 8.93e-01 120 chrX:21045697-21045817 9.96e-01 120 chr3L:16486613-16486733 5.71e-01 120 chr3L:905144-905264 7.99e-02 120 chrX:3396984-3397104 9.65e-01 120 chr2L:10276569-10276689 9.97e-01 120 chr3R:10449088-10449208 8.66e-01 120 chr3L:5280114-5280234 9.04e-01 120 chr3L:16013372-16013492 6.10e-01 120 chr3R:23303354-23303474 7.11e-01 120 chr2L:9594992-9595112 9.34e-01 120 chr3R:30865606-30865726 1.00e+00 120 chr2L:14212863-14212983 5.69e-02 120 chrX:7552293-7552413 9.09e-01 120 chr3L:3873179-3873299 8.34e-01 120 chr3L:623709-623829 4.10e-01 120 chr2L:3851484-3851604 6.47e-01 120 chrX:17501717-17501837 8.30e-01 120 chr3R:13448498-13448618 6.04e-02 120 chr3L:15670549-15670669 2.84e-01 120 chr2L:10986341-10986461 5.01e-01 120 chr2R:15247915-15248035 1.23e-02 [+2(4.30e-05)]_112 chr2L:19059042-19059162 9.64e-01 120 chrX:9350420-9350540 1.00e+00 120 chr3L:16015950-16016070 6.76e-01 120 chr3R:26859351-26859471 3.36e-02 13_[+5(3.10e-05)]_99 chr3R:26012919-26013039 9.31e-01 120 chr3R:13469415-13469535 5.44e-01 120 chr2R:21883232-21883352 7.56e-01 120 chr2R:17206006-17206126 9.66e-01 120 chrX:13226566-13226686 8.82e-01 120 chr3L:18402658-18402778 9.91e-01 120 chr3L:19179585-19179705 8.58e-01 120 chr3L:18272421-18272541 5.22e-01 120 chr3R:16771736-16771856 8.29e-02 34_[+2(1.71e-05)]_78 chr3L:12444221-12444341 9.90e-01 120 chr3R:29581606-29581726 6.12e-01 120 chr3R:10354050-10354170 6.27e-01 120 chr3L:3485262-3485382 9.89e-01 120 chr3R:15652743-15652863 8.52e-01 120 chr3R:9159933-9160053 9.59e-01 120 chr3L:15672945-15673065 4.06e-01 120 chr3R:31706266-31706386 2.75e-01 120 chr2L:10543531-10543651 8.21e-01 120 chr3L:1167046-1167166 9.98e-01 120 chr3R:11617490-11617610 2.44e-01 3_[+1(4.30e-05)]_109 chr3R:23293514-23293634 9.89e-01 120 chr3L:3788970-3789090 9.96e-01 120 chrX:17780440-17780560 1.73e-01 3_[+2(7.63e-05)]_109 chr3L:8445133-8445253 5.10e-01 120 chrX:10825478-10825598 7.26e-01 120 chrX:12225432-12225552 9.75e-01 120 chr3L:380974-381094 6.00e-01 120 chr3L:18349423-18349543 9.13e-01 120 chrX:18946963-18947083 1.87e-01 120 chr3L:21047132-21047252 9.71e-01 120 chr2L:7492028-7492148 4.69e-01 120 chr3R:10626150-10626270 8.50e-01 120 chrX:3719953-3720073 5.49e-02 94_[+1(4.30e-05)]_10_[+1(9.30e-05)] chr3L:6885791-6885911 9.99e-01 120 chr2L:19219526-19219646 9.55e-01 120 chr3L:7861959-7862079 5.46e-01 120 chr2L:18505661-18505781 5.32e-02 30_[+3(7.59e-05)]_82 chr3R:5856374-5856494 1.50e-01 2_[+4(7.52e-05)]_110 chr3R:8362587-8362707 3.45e-01 120 chr2L:19884597-19884717 5.99e-02 120 chr3R:13404939-13405059 9.57e-01 120 chr3L:10350818-10350938 8.77e-01 120 chr2L:7295106-7295226 8.33e-01 120 chr3L:4242501-4242621 9.98e-01 120 chr3R:7646314-7646434 4.93e-01 120 chr3R:13446619-13446739 9.66e-01 120 chr3R:13799719-13799839 9.81e-01 120 chr3L:3851979-3852099 3.41e-01 120 chr3R:23355960-23356080 3.63e-02 73_[+4(4.24e-05)]_39 chr2L:14441057-14441177 6.90e-02 120 chr3L:5952214-5952334 1.88e-01 120 chrX:5966136-5966256 5.08e-01 120 chrX:14679310-14679430 9.98e-01 120 chrX:21629711-21629831 8.35e-08 36_[+4(4.24e-05)]_8_[+1(4.30e-05)]_\ 18_[+2(5.48e-06)]_34 chr2L:3856482-3856602 1.09e-01 120 chr2L:16869087-16869207 4.57e-01 120 chr3R:8955003-8955123 9.86e-01 120 chr3L:6817097-6817217 5.80e-02 44_[+4(5.87e-05)]_68 chr3L:10931593-10931713 9.55e-01 120 chr3L:13403198-13403318 4.25e-02 120 chrX:12221674-12221794 4.60e-04 58_[+2(5.48e-06)]_54 chr3R:6241410-6241530 9.61e-01 120 chr3R:22878530-22878650 5.82e-01 120 chrX:3455571-3455691 9.81e-01 120 chr3R:6723946-6724066 7.45e-01 120 chr2L:7270411-7270531 7.69e-01 120 chr3R:23345182-23345302 8.80e-01 120 chr3R:11368855-11368975 9.11e-01 120 chr3L:9505475-9505595 2.07e-01 120 chr3L:13068472-13068592 7.79e-01 120 chr3L:3786922-3787042 8.97e-01 120 chr2R:23894885-23895005 5.94e-01 120 chr2L:14562345-14562465 5.50e-01 120 chr3L:3336795-3336915 9.13e-03 101_[+2(4.30e-05)]_11 chr3L:11285274-11285394 9.52e-01 120 chr2L:7293586-7293706 3.02e-03 97_[+3(3.62e-05)]_15 chr2L:4133177-4133297 1.40e-01 120 chr3L:18204060-18204180 4.26e-01 120 chr3L:8629035-8629155 1.59e-01 120 chr3L:14335949-14336069 8.85e-01 120 chr2R:19874609-19874729 6.63e-02 120 chrX:18525010-18525130 9.52e-01 120 chr3R:6760888-6761008 8.90e-01 120 chr2R:14161297-14161417 2.99e-01 16_[+4(4.24e-05)]_96 chr3R:21887647-21887767 1.01e-02 8_[+2(2.30e-05)]_104 chrX:17293499-17293619 9.93e-01 120 chr3R:26014355-26014475 3.12e-01 120 chr3L:2159048-2159168 2.25e-02 120 chrX:14622345-14622465 1.25e-01 120 chr2L:7532806-7532926 3.02e-01 29_[+4(7.52e-05)]_83 chr3L:295202-295322 2.70e-02 120 chr2R:14971166-14971286 1.06e-03 [+1(5.97e-05)]_48_[+2(2.97e-05)]_56 chr2R:22661383-22661503 2.45e-01 120 chr2R:7955939-7956059 6.37e-01 120 chr2L:3587447-3587567 4.79e-01 120 chr3L:10337783-10337903 2.37e-01 120 chr2R:9681937-9682057 9.27e-01 120 chr2L:17747226-17747346 9.19e-01 120 chr3L:2845337-2845457 1.65e-01 95_[+1(4.30e-05)]_17 chr3L:16768413-16768533 5.29e-01 120 chr3R:29265242-29265362 8.77e-01 120 chr3L:6157711-6157831 4.33e-01 120 chr3L:745670-745790 3.39e-01 120 chr3R:21493717-21493837 7.06e-01 120 chr3R:26444255-26444375 9.97e-01 120 chr3L:12102129-12102249 9.64e-01 120 chrX:7571324-7571444 7.58e-01 120 chr2R:8759597-8759717 2.47e-01 120 chr3R:21830347-21830467 2.46e-01 105_[+4(5.87e-05)]_7 chr2L:4579134-4579254 1.08e-01 120 chr2L:7635281-7635401 5.53e-01 120 chr2L:9206539-9206659 3.05e-01 120 chr2L:19377524-19377644 1.30e-04 32_[+2(9.75e-06)]_80 chr3L:10847877-10847997 9.56e-01 120 chr3R:4846901-4847021 5.32e-01 120 chr2L:11189257-11189377 1.80e-02 21_[+1(5.97e-05)]_91 chr3R:19014917-19015037 6.17e-01 120 chr3L:10767328-10767448 8.56e-01 120 chr3L:10893536-10893656 9.87e-01 120 chr3R:23872943-23873063 2.62e-02 59_[+4(5.87e-05)]_53 chr3L:18297533-18297653 3.81e-01 120 chr3L:11334162-11334282 9.95e-01 120 chr2R:19669857-19669977 3.26e-02 59_[+1(4.30e-05)]_53 chr3L:10206346-10206466 1.00e+00 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n05.farnam.hpc.yale.internal ********************************************************************************