******************************************************************************** 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/jing.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:16386478-16386598 1.0000 120 chrX:18312474-18312594 1.0000 120 chr2R:13042241-13042361 1.0000 120 chr3R:25080562-25080682 1.0000 120 chr3R:17944110-17944230 1.0000 120 chr2L:18733158-18733278 1.0000 120 chr3R:11353727-11353847 1.0000 120 chr3R:9157856-9157976 1.0000 120 chr3R:12244629-12244749 1.0000 120 chr2L:17260698-17260818 1.0000 120 chr2L:5658428-5658548 1.0000 120 chr4:1098292-1098412 1.0000 120 chrX:8805824-8805944 1.0000 120 chr3R:27905826-27905946 1.0000 120 chr2R:17822137-17822257 1.0000 120 chr3L:432665-432785 1.0000 120 chr3L:24723858-24723978 1.0000 120 chr2R:10265395-10265515 1.0000 120 chr2L:2808096-2808216 1.0000 120 chrX:8294676-8294796 1.0000 120 chr2R:11612710-11612830 1.0000 120 chr2L:9581729-9581849 1.0000 120 chr3R:22899168-22899288 1.0000 120 chr2L:18737427-18737547 1.0000 120 chr2R:13040502-13040622 1.0000 120 chr2L:19722633-19722753 1.0000 120 chr2L:11447146-11447266 1.0000 120 chr4:989541-989661 1.0000 120 chr2R:12992979-12993099 1.0000 120 chr2L:15337351-15337471 1.0000 120 chr2L:2451272-2451392 1.0000 120 chr4:844537-844657 1.0000 120 chr3R:13877243-13877363 1.0000 120 chr2R:12956088-12956208 1.0000 120 chrX:21457700-21457820 1.0000 120 chrX:14749218-14749338 1.0000 120 chr2L:16485802-16485922 1.0000 120 chr3R:4835413-4835533 1.0000 120 chrX:9284485-9284605 1.0000 120 chr2R:14799492-14799612 1.0000 120 chr3R:12644994-12645114 1.0000 120 chr3R:25740413-25740533 1.0000 120 chr2R:13042444-13042564 1.0000 120 chrX:356473-356593 1.0000 120 chr2L:10354333-10354453 1.0000 120 chr2R:21548281-21548401 1.0000 120 chr3R:6683285-6683405 1.0000 120 chr3R:11371805-11371925 1.0000 120 chr3R:8191034-8191154 1.0000 120 chr2R:12956297-12956417 1.0000 120 chr2R:23187254-23187374 1.0000 120 chr2R:12954870-12954990 1.0000 120 chr2R:20126676-20126796 1.0000 120 chr2R:22243944-22244064 1.0000 120 chr3L:3626330-3626450 1.0000 120 chr2R:23621705-23621825 1.0000 120 chr3R:29584402-29584522 1.0000 120 chrX:8202863-8202983 1.0000 120 chr3L:20621856-20621976 1.0000 120 chr2L:18936194-18936314 1.0000 120 chr3L:12609504-12609624 1.0000 120 chr2R:8644831-8644951 1.0000 120 chr2L:3538647-3538767 1.0000 120 chr2L:6411175-6411295 1.0000 120 chr3L:11009640-11009760 1.0000 120 chr2R:14458061-14458181 1.0000 120 chr3L:24724058-24724178 1.0000 120 chr3R:29717627-29717747 1.0000 120 chr2R:11475528-11475648 1.0000 120 chr3L:14166437-14166557 1.0000 120 chr2L:3675918-3676038 1.0000 120 chr3L:21241613-21241733 1.0000 120 chrX:17397226-17397346 1.0000 120 chrX:11846479-11846599 1.0000 120 chr3R:22220946-22221066 1.0000 120 chr2R:24369429-24369549 1.0000 120 chr2L:20944446-20944566 1.0000 120 chr3L:15336708-15336828 1.0000 120 chr2L:11446195-11446315 1.0000 120 chr3R:8477552-8477672 1.0000 120 chr3R:13875156-13875276 1.0000 120 chr3L:3878705-3878825 1.0000 120 chr2L:15333790-15333910 1.0000 120 chr2L:18717524-18717644 1.0000 120 chr2R:8272349-8272469 1.0000 120 chr2L:18186804-18186924 1.0000 120 chr2R:10568339-10568459 1.0000 120 chrX:7204840-7204960 1.0000 120 chr2R:20100610-20100730 1.0000 120 chr3L:21808881-21809001 1.0000 120 chr3R:25094614-25094734 1.0000 120 chrX:17799176-17799296 1.0000 120 chrX:18243316-18243436 1.0000 120 chrX:9004499-9004619 1.0000 120 chr4:702998-703118 1.0000 120 chr3R:29470268-29470388 1.0000 120 chr2L:7306945-7307065 1.0000 120 chr2L:16049901-16050021 1.0000 120 chr2R:20903630-20903750 1.0000 120 chrX:17513938-17514058 1.0000 120 chr2L:3607199-3607319 1.0000 120 chr2R:15754400-15754520 1.0000 120 chr3L:13030412-13030532 1.0000 120 chr2L:19898725-19898845 1.0000 120 chr3L:17981256-17981376 1.0000 120 chr2L:19252514-19252634 1.0000 120 chr2L:8842162-8842282 1.0000 120 chr3L:1464577-1464697 1.0000 120 chr2R:18585143-18585263 1.0000 120 chr3R:13450441-13450561 1.0000 120 chrX:9048568-9048688 1.0000 120 chr2R:13039072-13039192 1.0000 120 chr3R:17955892-17956012 1.0000 120 chr2L:11394302-11394422 1.0000 120 chr2R:18878367-18878487 1.0000 120 chr2R:23632265-23632385 1.0000 120 chr3L:3080796-3080916 1.0000 120 chr3L:13403663-13403783 1.0000 120 chr3R:30734651-30734771 1.0000 120 chr3L:623769-623889 1.0000 120 chr2L:6553475-6553595 1.0000 120 chr2L:11445461-11445581 1.0000 120 chr2R:11657156-11657276 1.0000 120 chr3R:12281098-12281218 1.0000 120 chr2R:23713120-23713240 1.0000 120 chr2R:8318230-8318350 1.0000 120 chr3R:18063483-18063603 1.0000 120 chr3L:5188524-5188644 1.0000 120 chrX:19453263-19453383 1.0000 120 chr3R:23921831-23921951 1.0000 120 chr2L:20951432-20951552 1.0000 120 chrX:16147818-16147938 1.0000 120 chrX:8295389-8295509 1.0000 120 chr2L:7276984-7277104 1.0000 120 chr3L:16657136-16657256 1.0000 120 chr3L:14177608-14177728 1.0000 120 chrX:5989470-5989590 1.0000 120 chrX:3288958-3289078 1.0000 120 chr2L:16422742-16422862 1.0000 120 chrX:16150798-16150918 1.0000 120 chrX:6574639-6574759 1.0000 120 chr3R:13901665-13901785 1.0000 120 chr2R:22998706-22998826 1.0000 120 chr2R:12997166-12997286 1.0000 120 chr2R:8030905-8031025 1.0000 120 chr4:505478-505598 1.0000 120 chr3L:4000801-4000921 1.0000 120 chr2L:5610261-5610381 1.0000 120 chr2L:12617961-12618081 1.0000 120 chrX:6982239-6982359 1.0000 120 chrX:16216691-16216811 1.0000 120 chr3R:13549635-13549755 1.0000 120 chrX:3931803-3931923 1.0000 120 chr3L:19674492-19674612 1.0000 120 chr3R:15666190-15666310 1.0000 120 chr3R:26900069-26900189 1.0000 120 chr2L:3841083-3841203 1.0000 120 chr3L:3624942-3625062 1.0000 120 chr3R:13907861-13907981 1.0000 120 chr3L:12693017-12693137 1.0000 120 chr3L:10337777-10337897 1.0000 120 chr4:508694-508814 1.0000 120 chr3L:378193-378313 1.0000 120 chr4:834156-834276 1.0000 120 chr3R:13448497-13448617 1.0000 120 chr3L:15729591-15729711 1.0000 120 chrX:12249062-12249182 1.0000 120 chr2R:22242821-22242941 1.0000 120 chrX:14653730-14653850 1.0000 120 chr3L:5634482-5634602 1.0000 120 chr3L:17009740-17009860 1.0000 120 chr2R:21514491-21514611 1.0000 120 chr2R:23203854-23203974 1.0000 120 chr2R:8051373-8051493 1.0000 120 chr3R:18122033-18122153 1.0000 120 chr2R:18536700-18536820 1.0000 120 chr3R:4995951-4996071 1.0000 120 chr3R:13885071-13885191 1.0000 120 chr2R:8018882-8019002 1.0000 120 chr3L:15728060-15728180 1.0000 120 chr2L:6508800-6508920 1.0000 120 chr2L:21899176-21899296 1.0000 120 chrX:7608420-7608540 1.0000 120 chr2R:17822366-17822486 1.0000 120 chr2R:10673316-10673436 1.0000 120 chr3R:31723336-31723456 1.0000 120 chr3R:22878497-22878617 1.0000 120 chr2L:18881452-18881572 1.0000 120 chr2R:6607618-6607738 1.0000 120 chr3R:28904326-28904446 1.0000 120 chr3L:18003183-18003303 1.0000 120 chr3L:16054264-16054384 1.0000 120 chr2R:22402972-22403092 1.0000 120 chr3L:18400309-18400429 1.0000 120 chrX:17230014-17230134 1.0000 120 chrX:8757916-8758036 1.0000 120 chr2R:23668829-23668949 1.0000 120 chr2L:8825606-8825726 1.0000 120 chr2L:8461907-8462027 1.0000 120 chr2L:3600963-3601083 1.0000 120 chr3R:23293258-23293378 1.0000 120 chr2R:11712207-11712327 1.0000 120 chr3L:1177179-1177299 1.0000 120 chr2R:21909980-21910100 1.0000 120 chr3L:16482312-16482432 1.0000 120 chr2R:10195094-10195214 1.0000 120 chr3R:11372791-11372911 1.0000 120 chr3L:22136121-22136241 1.0000 120 chr3R:10449088-10449208 1.0000 120 chrX:14826030-14826150 1.0000 120 chr3R:26892943-26893063 1.0000 120 chr3R:14284552-14284672 1.0000 120 chrX:10363178-10363298 1.0000 120 chr3R:16769581-16769701 1.0000 120 chrX:19106993-19107113 1.0000 120 chr2L:14024902-14025022 1.0000 120 chr3R:14470808-14470928 1.0000 120 chr3R:6678634-6678754 1.0000 120 chr2L:3825721-3825841 1.0000 120 chr2L:7617018-7617138 1.0000 120 chrX:16149128-16149248 1.0000 120 chr2L:14245601-14245721 1.0000 120 chrX:17768386-17768506 1.0000 120 chr3L:14131784-14131904 1.0000 120 chr3R:4846874-4846994 1.0000 120 chrX:4262796-4262916 1.0000 120 chr2R:12173440-12173560 1.0000 120 chr2R:5726962-5727082 1.0000 120 chrX:4425041-4425161 1.0000 120 chrX:19166423-19166543 1.0000 120 chr3L:3380628-3380748 1.0000 120 chr3L:10428838-10428958 1.0000 120 chr2R:8327273-8327393 1.0000 120 chrX:4498397-4498517 1.0000 120 chrX:19887285-19887405 1.0000 120 chr3R:17231656-17231776 1.0000 120 chr3R:25490398-25490518 1.0000 120 chr3L:16760388-16760508 1.0000 120 chr3R:4852416-4852536 1.0000 120 chrX:10718019-10718139 1.0000 120 chr3L:6790073-6790193 1.0000 120 chr2L:19884558-19884678 1.0000 120 chr2L:11447816-11447936 1.0000 120 chr3L:3970436-3970556 1.0000 120 chr3L:17971083-17971203 1.0000 120 chr3R:5065128-5065248 1.0000 120 chr2R:8240845-8240965 1.0000 120 chrX:18837187-18837307 1.0000 120 chr2R:8045055-8045175 1.0000 120 chr2L:18505617-18505737 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_jing/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/jing.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 0.284 C 0.221 G 0.22 T 0.275 Background letter frequencies (from file dataset with add-one prior applied): A 0.284 C 0.221 G 0.22 T 0.275 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCTCGCTC MEME-1 width = 8 sites = 32 llr = 294 E-value = 2.0e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1::::::: pos.-specific C :92a:a:9 probability G ::::9:1: matrix T 918:1:9: bits 2.2 * * 2.0 * * 1.7 * * * * 1.5 * ***** Relative 1.3 ** ***** Entropy 1.1 ******** (13.3 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCTCGCTC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:11447816-11447936 29 1.09e-05 CATCGCTGCG TCTCGCTC TTCGACTGCC chr2R:8327273-8327393 36 1.09e-05 CCGGTCGCTT TCTCGCTC GCACCCGCTG chrX:17768386-17768506 20 1.09e-05 ATCTACCCGc tctcgctc gctctctctc chr3R:6678634-6678754 72 1.09e-05 GCGACTGCCG TCTCGCTC GCTCCCTGGG chrX:8757916-8758036 53 1.09e-05 tctctctcgc tctcgctc tcgctctcTG chr3L:3624942-3625062 98 1.09e-05 ATCTCGTGTT TCTCGCTC TTTTTGTCGA chr2L:16422742-16422862 110 1.09e-05 actctctctc tctcgctc cct chr3L:21808881-21809001 53 1.09e-05 TTCGCTGTTC TCTCGCTC TCGCAATCGC chr3R:13875156-13875276 113 1.09e-05 CCACctcctc tctcgctc chr2L:11446195-11446315 93 1.09e-05 actccctctc tctcgctc accattcgcc chr2R:14458061-14458181 68 1.09e-05 TGTGGCGCCA TCTCGCTC TCGCCCACGA chr2L:3538647-3538767 36 1.09e-05 ATATTTGGCC TCTCGCTC GCTCGCAAAA chr3R:8191034-8191154 41 1.09e-05 ACTGTGTTGG TCTCGCTC TAGCGACAGC chr2R:5726962-5727082 77 1.97e-05 AGTAGCTCGT TCCCGCTC TAGAGCACAG chr3L:12693017-12693137 18 1.97e-05 GCTATAGCCA TCCCGCTC TCGCCCGGCC chr3R:13901665-13901785 73 1.97e-05 GCACAGTGCC TCCCGCTC TGGCCCGATA chrX:18243316-18243436 48 1.97e-05 CCACGGTCTC TCCCGCTC GACGGCTGAT chrX:19887285-19887405 19 5.56e-05 ACTCTTCGGC TCTCTCTC TTCGGCTGGC chr3R:23293258-23293378 9 5.56e-05 GCTGTCCC TCTCGCGC ACGGCAAAGA chrX:16147818-16147938 78 5.56e-05 TTTTGCCCAC TCTCTCTC GTTCTAATAA chr3R:29470268-29470388 111 5.56e-05 TCCCCCCAAT TTTCGCTC AG chrX:7204840-7204960 107 5.56e-05 TTCCCGTCTC TTTCGCTC ACGGTA chr2L:18936194-18936314 49 5.56e-05 GCTGTCCCAC TCTCGCGC AGTAGAACAC chr2R:12956297-12956417 39 5.56e-05 AGAGAAATCT TTTCGCTC CAAACTGGTT chr2L:18881452-18881572 111 6.69e-05 TTTTTGTCGC ACTCGCTC TG chr2L:15333790-15333910 71 6.69e-05 CCACCGCCAA ACTCGCTC AGTTATTCCC chr3L:14177608-14177728 101 7.56e-05 TGCGCCGTCG TCGCGCTC TCACTCACAC chr2R:8018882-8019002 35 1.06e-04 TGTCGCCCTG TCTCCCTC CCACCGCCGT chr2R:8644831-8644951 76 1.06e-04 ATTGTAAGTT TCTCGCTG GACACAGTGC chr3R:4835413-4835533 17 1.20e-04 ACTATCGCCA TCTCGCTT TTCCATCGCC chr3L:18400309-18400429 98 1.49e-04 AAATGGGCAT TCCCTCTC TTTCGCACGT chr2L:9581729-9581849 17 1.65e-04 GACTAACTGG GCCCGCTC TGCGCAGCAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:11447816-11447936 1.1e-05 28_[+1]_84 chr2R:8327273-8327393 1.1e-05 35_[+1]_77 chrX:17768386-17768506 1.1e-05 19_[+1]_93 chr3R:6678634-6678754 1.1e-05 71_[+1]_41 chrX:8757916-8758036 1.1e-05 52_[+1]_60 chr3L:3624942-3625062 1.1e-05 97_[+1]_15 chr2L:16422742-16422862 1.1e-05 109_[+1]_3 chr3L:21808881-21809001 1.1e-05 52_[+1]_60 chr3R:13875156-13875276 1.1e-05 112_[+1] chr2L:11446195-11446315 1.1e-05 92_[+1]_20 chr2R:14458061-14458181 1.1e-05 67_[+1]_45 chr2L:3538647-3538767 1.1e-05 35_[+1]_77 chr3R:8191034-8191154 1.1e-05 40_[+1]_72 chr2R:5726962-5727082 2e-05 76_[+1]_36 chr3L:12693017-12693137 2e-05 17_[+1]_95 chr3R:13901665-13901785 2e-05 72_[+1]_40 chrX:18243316-18243436 2e-05 47_[+1]_65 chrX:19887285-19887405 5.6e-05 18_[+1]_94 chr3R:23293258-23293378 5.6e-05 8_[+1]_104 chrX:16147818-16147938 5.6e-05 77_[+1]_35 chr3R:29470268-29470388 5.6e-05 110_[+1]_2 chrX:7204840-7204960 5.6e-05 106_[+1]_6 chr2L:18936194-18936314 5.6e-05 48_[+1]_64 chr2R:12956297-12956417 5.6e-05 38_[+1]_74 chr2L:18881452-18881572 6.7e-05 110_[+1]_2 chr2L:15333790-15333910 6.7e-05 70_[+1]_42 chr3L:14177608-14177728 7.6e-05 100_[+1]_12 chr2R:8018882-8019002 0.00011 34_[+1]_78 chr2R:8644831-8644951 0.00011 75_[+1]_37 chr3R:4835413-4835533 0.00012 16_[+1]_96 chr3L:18400309-18400429 0.00015 97_[+1]_15 chr2L:9581729-9581849 0.00016 16_[+1]_96 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCTCGCTC width=8 seqs=32 chr2L:11447816-11447936 ( 29) TCTCGCTC 1 chr2R:8327273-8327393 ( 36) TCTCGCTC 1 chrX:17768386-17768506 ( 20) TCTCGCTC 1 chr3R:6678634-6678754 ( 72) TCTCGCTC 1 chrX:8757916-8758036 ( 53) TCTCGCTC 1 chr3L:3624942-3625062 ( 98) TCTCGCTC 1 chr2L:16422742-16422862 ( 110) TCTCGCTC 1 chr3L:21808881-21809001 ( 53) TCTCGCTC 1 chr3R:13875156-13875276 ( 113) TCTCGCTC 1 chr2L:11446195-11446315 ( 93) TCTCGCTC 1 chr2R:14458061-14458181 ( 68) TCTCGCTC 1 chr2L:3538647-3538767 ( 36) TCTCGCTC 1 chr3R:8191034-8191154 ( 41) TCTCGCTC 1 chr2R:5726962-5727082 ( 77) TCCCGCTC 1 chr3L:12693017-12693137 ( 18) TCCCGCTC 1 chr3R:13901665-13901785 ( 73) TCCCGCTC 1 chrX:18243316-18243436 ( 48) TCCCGCTC 1 chrX:19887285-19887405 ( 19) TCTCTCTC 1 chr3R:23293258-23293378 ( 9) TCTCGCGC 1 chrX:16147818-16147938 ( 78) TCTCTCTC 1 chr3R:29470268-29470388 ( 111) TTTCGCTC 1 chrX:7204840-7204960 ( 107) TTTCGCTC 1 chr2L:18936194-18936314 ( 49) TCTCGCGC 1 chr2R:12956297-12956417 ( 39) TTTCGCTC 1 chr2L:18881452-18881572 ( 111) ACTCGCTC 1 chr2L:15333790-15333910 ( 71) ACTCGCTC 1 chr3L:14177608-14177728 ( 101) TCGCGCTC 1 chr2R:8018882-8019002 ( 35) TCTCCCTC 1 chr2R:8644831-8644951 ( 76) TCTCGCTG 1 chr3R:4835413-4835533 ( 17) TCTCGCTT 1 chr3L:18400309-18400429 ( 98) TCCCTCTC 1 chr2L:9581729-9581849 ( 17) GCCCGCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.5219 E= 2.0e-006 -218 -1164 -281 172 -1164 204 -1164 -155 -1164 -24 -281 151 -1164 218 -1164 -1164 -1164 -282 199 -155 -1164 218 -1164 -1164 -1164 -1164 -182 177 -1164 209 -281 -313 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 2.0e-006 0.062500 0.000000 0.031250 0.906250 0.000000 0.906250 0.000000 0.093750 0.000000 0.187500 0.031250 0.781250 0.000000 1.000000 0.000000 0.000000 0.000000 0.031250 0.875000 0.093750 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.062500 0.937500 0.000000 0.937500 0.031250 0.031250 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCTC MEME-1 regular expression -------------------------------------------------------------------------------- TCTCGCTC -------------------------------------------------------------------------------- Time 7.41 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGCGAGA MEME-2 width = 8 sites = 24 llr = 228 E-value = 5.2e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 2a:2:8:9 pos.-specific C :::8:::1 probability G 8:a:a3a: matrix T :::::::: bits 2.2 * * * 2.0 * * * 1.7 ** * * 1.5 ***** * Relative 1.3 ***** ** Entropy 1.1 ******** (13.7 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGCGAGA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:4852416-4852536 47 1.19e-05 CCAGTTTGCC GAGCGAGA GGGCGCTATG chr3L:14131784-14131904 49 1.19e-05 GTGGGAGTGC GAGCGAGA TAAACGGAGT chr2L:21899176-21899296 111 1.19e-05 TTGGGTGCGA GAGCGAGA CC chr2R:8030905-8031025 77 1.19e-05 CCGTGTGCCA GAGCGAGA CGTACGTACG chr2L:3538647-3538767 86 1.19e-05 GGGGGTGAGC GAGCGAGA CGGCGCGAAA chr2L:16485802-16485922 6 1.19e-05 ACTGA gagcgaga cggcgcgagg chr3R:13877243-13877363 3 1.19e-05 CT GAGCGAGA TAAACCAACA chrX:8805824-8805944 100 1.19e-05 GCCTGGGTGC GAGCGAGA TGCTAGCAGG chr3R:12244629-12244749 45 1.19e-05 GCCACCGCTC GAGCGAGA TGGAAGATAA chr3R:25080562-25080682 55 1.19e-05 ACAAGCGGCT GAGCGAGA TGGAGCGATA chr2L:12617961-12618081 7 2.10e-05 TCCAAA GAGCGGGA CCGTATAAAA chr3L:14177608-14177728 52 2.10e-05 ACGTGGGTGC GAGCGGGA TAGAGGCTGG chr2R:11475528-11475648 34 2.10e-05 CCGTGTGCGC GAGCGGGA CAACAGTAGG chr3R:11371805-11371925 55 3.03e-05 AGGATTGCAG GAGCGAGC GGTTTTGAAA chr3R:27905826-27905946 102 3.03e-05 ACAGTTAGCC GAGCGAGC ACGACAGGAT chr2R:8327273-8327393 16 6.08e-05 ggcagtgagt gagagaga CCCCGGTCGC chrX:4425041-4425161 12 6.08e-05 TTTCGCGCAG GAGAGAGA ATTAGAGGTT chr2R:8018882-8019002 112 6.08e-05 GCTGCAGTGC AAGCGAGA C chr3L:378193-378313 48 6.08e-05 gagtgggaga gagagaga gagagagCGT chrX:17397226-17397346 65 6.08e-05 AGAGCCGTGG AAGCGAGA GGCAGCGAAA chr3R:6683285-6683405 41 6.08e-05 GATAAAGTTA AAGCGAGA CAACAGTCTG chr2L:18733158-18733278 44 6.80e-05 CTGGAAGCTC GAGCGGGC CACAAGCGGA chr3R:8191034-8191154 7 9.16e-05 GTCGTA GAGAGGGA TGGCATGCTA chr2R:16386478-16386598 93 9.16e-05 TGCGGATGTT AAGCGGGA AAGTGGGAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:4852416-4852536 1.2e-05 46_[+2]_66 chr3L:14131784-14131904 1.2e-05 48_[+2]_64 chr2L:21899176-21899296 1.2e-05 110_[+2]_2 chr2R:8030905-8031025 1.2e-05 76_[+2]_36 chr2L:3538647-3538767 1.2e-05 85_[+2]_27 chr2L:16485802-16485922 1.2e-05 5_[+2]_107 chr3R:13877243-13877363 1.2e-05 2_[+2]_110 chrX:8805824-8805944 1.2e-05 99_[+2]_13 chr3R:12244629-12244749 1.2e-05 44_[+2]_68 chr3R:25080562-25080682 1.2e-05 54_[+2]_58 chr2L:12617961-12618081 2.1e-05 6_[+2]_106 chr3L:14177608-14177728 2.1e-05 51_[+2]_61 chr2R:11475528-11475648 2.1e-05 33_[+2]_79 chr3R:11371805-11371925 3e-05 54_[+2]_58 chr3R:27905826-27905946 3e-05 101_[+2]_11 chr2R:8327273-8327393 6.1e-05 15_[+2]_97 chrX:4425041-4425161 6.1e-05 11_[+2]_101 chr2R:8018882-8019002 6.1e-05 111_[+2]_1 chr3L:378193-378313 6.1e-05 47_[+2]_65 chrX:17397226-17397346 6.1e-05 64_[+2]_48 chr3R:6683285-6683405 6.1e-05 40_[+2]_72 chr2L:18733158-18733278 6.8e-05 43_[+2]_69 chr3R:8191034-8191154 9.2e-05 6_[+2]_106 chr2R:16386478-16386598 9.2e-05 92_[+2]_20 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGCGAGA width=8 seqs=24 chr3R:4852416-4852536 ( 47) GAGCGAGA 1 chr3L:14131784-14131904 ( 49) GAGCGAGA 1 chr2L:21899176-21899296 ( 111) GAGCGAGA 1 chr2R:8030905-8031025 ( 77) GAGCGAGA 1 chr2L:3538647-3538767 ( 86) GAGCGAGA 1 chr2L:16485802-16485922 ( 6) GAGCGAGA 1 chr3R:13877243-13877363 ( 3) GAGCGAGA 1 chrX:8805824-8805944 ( 100) GAGCGAGA 1 chr3R:12244629-12244749 ( 45) GAGCGAGA 1 chr3R:25080562-25080682 ( 55) GAGCGAGA 1 chr2L:12617961-12618081 ( 7) GAGCGGGA 1 chr3L:14177608-14177728 ( 52) GAGCGGGA 1 chr2R:11475528-11475648 ( 34) GAGCGGGA 1 chr3R:11371805-11371925 ( 55) GAGCGAGC 1 chr3R:27905826-27905946 ( 102) GAGCGAGC 1 chr2R:8327273-8327393 ( 16) GAGAGAGA 1 chrX:4425041-4425161 ( 12) GAGAGAGA 1 chr2R:8018882-8019002 ( 112) AAGCGAGA 1 chr3L:378193-378313 ( 48) GAGAGAGA 1 chrX:17397226-17397346 ( 65) AAGCGAGA 1 chr3R:6683285-6683405 ( 41) AAGCGAGA 1 chr2L:18733158-18733278 ( 44) GAGCGGGC 1 chr3R:8191034-8191154 ( 7) GAGAGGGA 1 chr2R:16386478-16386598 ( 93) AAGCGGGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.1076 E= 5.2e-002 -77 -1123 192 -1123 181 -1123 -1123 -1123 -1123 -1123 218 -1123 -77 192 -1123 -1123 -1123 -1123 218 -1123 140 -1123 18 -1123 -1123 -1123 218 -1123 162 -82 -1123 -1123 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 5.2e-002 0.166667 0.000000 0.833333 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.166667 0.833333 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.750000 0.000000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 0.875000 0.125000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGCGAGA MEME-2 regular expression -------------------------------------------------------------------------------- GAGCG[AG]GA -------------------------------------------------------------------------------- Time 13.67 secs. ******************************************************************************** ******************************************************************************** MOTIF GCTCTCTC MEME-3 width = 8 sites = 11 llr = 116 E-value = 2.1e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :a2a:a2a probability G a::::::: matrix T ::8:a:8: bits 2.2 ** * * * 2.0 ** *** * 1.7 ** *** * 1.5 ** *** * Relative 1.3 ******** Entropy 1.1 ******** (15.2 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCTCTCTC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:17768386-17768506 28 1.09e-05 Gctctcgctc gctctctc tcccactctc chrX:8757916-8758036 41 1.09e-05 cactcgcgcc gctctctc tcgctctcgc chr2R:8018882-8019002 15 1.09e-05 TCTATGTACC GCTCTCTC CCTGTCGCCC chr3L:3624942-3625062 37 1.09e-05 AAAGTGTCTC GCTCTCTC TTTCTAACCG chrX:16150798-16150918 59 1.09e-05 AAAGTCTATC GCTCTCTC TGTCGCACAA chr2L:16422742-16422862 48 1.09e-05 TTGTCATTTC GCTCTCTC ATTGCGAGAA chr3L:12609504-12609624 38 1.09e-05 TAACTGGCTG GCTCTCTC GCGGCCCTGC chrX:4425041-4425161 43 2.85e-05 TTTTGATTGT GCTCTCCC CTCAACGAGT chr2R:14458061-14458181 34 2.85e-05 CGACAAATTC GCCCTCTC TCTTTTGCGC chr2L:18936194-18936314 67 2.85e-05 AGTAGAACAC GCCCTCTC CGGCGTGCGA chr3R:4835413-4835533 81 2.85e-05 CATCCCGCTT GCTCTCCC GTCCGCATTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:17768386-17768506 1.1e-05 27_[+3]_85 chrX:8757916-8758036 1.1e-05 40_[+3]_72 chr2R:8018882-8019002 1.1e-05 14_[+3]_98 chr3L:3624942-3625062 1.1e-05 36_[+3]_76 chrX:16150798-16150918 1.1e-05 58_[+3]_54 chr2L:16422742-16422862 1.1e-05 47_[+3]_65 chr3L:12609504-12609624 1.1e-05 37_[+3]_75 chrX:4425041-4425161 2.8e-05 42_[+3]_70 chr2R:14458061-14458181 2.8e-05 33_[+3]_79 chr2L:18936194-18936314 2.8e-05 66_[+3]_46 chr3R:4835413-4835533 2.8e-05 80_[+3]_32 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCTCTCTC width=8 seqs=11 chrX:17768386-17768506 ( 28) GCTCTCTC 1 chrX:8757916-8758036 ( 41) GCTCTCTC 1 chr2R:8018882-8019002 ( 15) GCTCTCTC 1 chr3L:3624942-3625062 ( 37) GCTCTCTC 1 chrX:16150798-16150918 ( 59) GCTCTCTC 1 chr2L:16422742-16422862 ( 48) GCTCTCTC 1 chr3L:12609504-12609624 ( 38) GCTCTCTC 1 chrX:4425041-4425161 ( 43) GCTCTCCC 1 chr2R:14458061-14458181 ( 34) GCCCTCTC 1 chr2L:18936194-18936314 ( 67) GCCCTCTC 1 chr3R:4835413-4835533 ( 81) GCTCTCCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.6812 E= 2.1e+003 -1010 -1010 218 -1010 -1010 218 -1010 -1010 -1010 -28 -1010 157 -1010 218 -1010 -1010 -1010 -1010 -1010 186 -1010 218 -1010 -1010 -1010 -28 -1010 157 -1010 218 -1010 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 2.1e+003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.181818 0.000000 0.818182 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 0.181818 0.000000 0.818182 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCTCTCTC MEME-3 regular expression -------------------------------------------------------------------------------- GCTCTCTC -------------------------------------------------------------------------------- Time 19.88 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGCGTGG MEME-4 width = 8 sites = 4 llr = 48 E-value = 3.9e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :::a:::: probability G aaa:a:aa matrix T :::::a:: bits 2.2 ***** ** 2.0 ******** 1.7 ******** 1.5 ******** Relative 1.3 ******** Entropy 1.1 ******** (17.1 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGCGTGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:5726962-5727082 109 6.89e-06 TAGACGAAGA GGGCGTGG TGTT chr3L:18400309-18400429 28 6.89e-06 CGGGACAGTT GGGCGTGG CTTACGTTCT chr2R:8018882-8019002 73 6.89e-06 TTGGCAATGG GGGCGTGG CGAGGCCCGT chrX:18312474-18312594 37 6.89e-06 GGAGCCGGTG GGGCGTGG CGCGGAGATG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:5726962-5727082 6.9e-06 108_[+4]_4 chr3L:18400309-18400429 6.9e-06 27_[+4]_85 chr2R:8018882-8019002 6.9e-06 72_[+4]_40 chrX:18312474-18312594 6.9e-06 36_[+4]_76 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGCGTGG width=8 seqs=4 chr2R:5726962-5727082 ( 109) GGGCGTGG 1 chr3L:18400309-18400429 ( 28) GGGCGTGG 1 chr2R:8018882-8019002 ( 73) GGGCGTGG 1 chrX:18312474-18312594 ( 37) GGGCGTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 13.5228 E= 3.9e+004 -865 -865 218 -865 -865 -865 218 -865 -865 -865 218 -865 -865 218 -865 -865 -865 -865 218 -865 -865 -865 -865 186 -865 -865 218 -865 -865 -865 218 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 3.9e+004 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 1.000000 0.000000 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 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGCGTGG MEME-4 regular expression -------------------------------------------------------------------------------- GGGCGTGG -------------------------------------------------------------------------------- Time 26.07 secs. ******************************************************************************** ******************************************************************************** MOTIF GCWGCWSS MEME-5 width = 8 sites = 36 llr = 304 E-value = 1.8e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::4::4:: pos.-specific C :a::a:36 probability G a:1a:274 matrix T ::5::4:: bits 2.2 ** ** 2.0 ** ** 1.7 ** ** 1.5 ** ** Relative 1.3 ** ** * Entropy 1.1 ** ** ** (12.2 bits) 0.9 ** ** ** 0.7 ***** ** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCTGCTGC consensus A ACG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:18243316-18243436 10 8.69e-06 CTtgctgct gctgctgc tgctgctgat chr3L:15336708-15336828 44 8.69e-06 AAATATCGAC GCTGCTGC ACCGCTCAAG chr3L:12609504-12609624 74 8.69e-06 CGTTTACATC GCTGCTGC CATCTCTGTC chr2R:17822137-17822257 83 8.69e-06 agctgatgtt gctgctgc tgggcgatgt chr3R:26892943-26893063 73 2.63e-05 GCTCATAACA GCTGCAGC TAATGAGCAT chr2L:3600963-3601083 101 2.63e-05 GAAATCCATT GCTGCTGG AAAACAGCTG chr3L:15728060-15728180 55 2.63e-05 CGGGACTCAT GCTGCTGG CCGGCGCGGA chr3R:13885071-13885191 16 2.63e-05 AATGGTTGAT GCTGCAGC GATTGTGACT chr3L:378193-378313 79 2.63e-05 TTTGTTTGGC GCTGCAGC ACGCGCAGCA chr3R:26900069-26900189 39 2.63e-05 TTAAGTGCGT GCTGCTGG GGAATGATGA chr2L:3607199-3607319 74 3.53e-05 AGCAGGAGCA GCAGCTGC ACGAAGGTCC chr2L:7306945-7307065 46 3.53e-05 TCTGGCGCAC GCAGCTGC AATGCAGGAG chr3R:13877243-13877363 80 3.53e-05 AACAGTATTA GCAGCTGC TAACAAGGGG chrX:8757916-8758036 78 6.24e-05 cTGCCGAAGA GCAGCAGC CGCGTTGCCA chr4:508694-508814 42 6.24e-05 CATACACGCA GCAGCAGC TCTTCGAGTA chr3L:12693017-12693137 36 6.24e-05 TCGCCCGGCC GCAGCTGG CAGATACTTT chrX:8295389-8295509 101 6.24e-05 agccagtagc gcagcagc tgaaagagtg chr2L:18936194-18936314 1 6.24e-05 . gcagcagc gacgttggcg chr3L:20621856-20621976 107 6.24e-05 CCAATGCAGA GCAGCTGG CTGAGA chr3R:12281098-12281218 86 8.74e-05 CTGAGATTTC GCTGCTCC GCATGACGCA chr3R:25094614-25094734 38 8.74e-05 TTTCCGCCAC GCTGCTCC TGGTGTTAGG chrX:6574639-6574759 31 1.19e-04 GGTTTGCTTT GCTGCACC AACGATCGAA chr3R:17944110-17944230 28 1.19e-04 AACGCAGTTA GCTGCTCG TCTCGTGCGG chrX:14826030-14826150 95 1.44e-04 GTGGCACGAA GCTGCACG AAGTTGCACG chr2R:21909980-21910100 70 1.44e-04 AGGAAAATAA GCTGCACG CCATAATTAC chrX:16216691-16216811 112 1.44e-04 CGCCGGCAGC GCAGCGGG C chr2R:22998706-22998826 40 1.44e-04 AATGACAACT GCAGCGGG CAGTCCGACG chr2R:13040502-13040622 12 1.44e-04 ATGCTAATTT GCAGCGGG GCGGCTGGCG chr3L:14177608-14177728 89 1.70e-04 CTGGGAGAGA GCTGCGCC GTCGTCGCGC chr2L:8825606-8825726 101 1.79e-04 cacggcagtc gcagcacg ccatcagcag chrX:21457700-21457820 97 1.79e-04 TCGTCCTTCG GCAGCACG GCCATCCCGA chr3L:3080796-3080916 7 1.86e-04 CTTACT GCTGCGCG TGTGCCTCCA chrX:17397226-17397346 21 1.86e-04 GCAACATGGC GCTGCGCG AGAGAGTGAC chr3R:8477552-8477672 20 1.93e-04 TCGCGTGAAC GCAGCGCC AGACGTTCGA chr2R:17822366-17822486 90 2.21e-04 aacaaccaca gcggcagc aacaacaact chr3L:15729591-15729711 16 2.21e-04 GAGGTCTTGG GCGGCTGG AAAATACGTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:18243316-18243436 8.7e-06 9_[+5]_103 chr3L:15336708-15336828 8.7e-06 43_[+5]_69 chr3L:12609504-12609624 8.7e-06 73_[+5]_39 chr2R:17822137-17822257 8.7e-06 82_[+5]_30 chr3R:26892943-26893063 2.6e-05 72_[+5]_40 chr2L:3600963-3601083 2.6e-05 100_[+5]_12 chr3L:15728060-15728180 2.6e-05 54_[+5]_58 chr3R:13885071-13885191 2.6e-05 15_[+5]_97 chr3L:378193-378313 2.6e-05 78_[+5]_34 chr3R:26900069-26900189 2.6e-05 38_[+5]_74 chr2L:3607199-3607319 3.5e-05 73_[+5]_39 chr2L:7306945-7307065 3.5e-05 45_[+5]_67 chr3R:13877243-13877363 3.5e-05 79_[+5]_33 chrX:8757916-8758036 6.2e-05 77_[+5]_35 chr4:508694-508814 6.2e-05 41_[+5]_71 chr3L:12693017-12693137 6.2e-05 35_[+5]_77 chrX:8295389-8295509 6.2e-05 100_[+5]_12 chr2L:18936194-18936314 6.2e-05 [+5]_112 chr3L:20621856-20621976 6.2e-05 106_[+5]_6 chr3R:12281098-12281218 8.7e-05 85_[+5]_27 chr3R:25094614-25094734 8.7e-05 37_[+5]_75 chrX:6574639-6574759 0.00012 30_[+5]_82 chr3R:17944110-17944230 0.00012 27_[+5]_85 chrX:14826030-14826150 0.00014 94_[+5]_18 chr2R:21909980-21910100 0.00014 69_[+5]_43 chrX:16216691-16216811 0.00014 111_[+5]_1 chr2R:22998706-22998826 0.00014 39_[+5]_73 chr2R:13040502-13040622 0.00014 11_[+5]_101 chr3L:14177608-14177728 0.00017 88_[+5]_24 chr2L:8825606-8825726 0.00018 100_[+5]_12 chrX:21457700-21457820 0.00018 96_[+5]_16 chr3L:3080796-3080916 0.00019 6_[+5]_106 chrX:17397226-17397346 0.00019 20_[+5]_92 chr3R:8477552-8477672 0.00019 19_[+5]_93 chr2R:17822366-17822486 0.00022 89_[+5]_23 chr3L:15729591-15729711 0.00022 15_[+5]_97 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCWGCWSS width=8 seqs=36 chrX:18243316-18243436 ( 10) GCTGCTGC 1 chr3L:15336708-15336828 ( 44) GCTGCTGC 1 chr3L:12609504-12609624 ( 74) GCTGCTGC 1 chr2R:17822137-17822257 ( 83) GCTGCTGC 1 chr3R:26892943-26893063 ( 73) GCTGCAGC 1 chr2L:3600963-3601083 ( 101) GCTGCTGG 1 chr3L:15728060-15728180 ( 55) GCTGCTGG 1 chr3R:13885071-13885191 ( 16) GCTGCAGC 1 chr3L:378193-378313 ( 79) GCTGCAGC 1 chr3R:26900069-26900189 ( 39) GCTGCTGG 1 chr2L:3607199-3607319 ( 74) GCAGCTGC 1 chr2L:7306945-7307065 ( 46) GCAGCTGC 1 chr3R:13877243-13877363 ( 80) GCAGCTGC 1 chrX:8757916-8758036 ( 78) GCAGCAGC 1 chr4:508694-508814 ( 42) GCAGCAGC 1 chr3L:12693017-12693137 ( 36) GCAGCTGG 1 chrX:8295389-8295509 ( 101) GCAGCAGC 1 chr2L:18936194-18936314 ( 1) GCAGCAGC 1 chr3L:20621856-20621976 ( 107) GCAGCTGG 1 chr3R:12281098-12281218 ( 86) GCTGCTCC 1 chr3R:25094614-25094734 ( 38) GCTGCTCC 1 chrX:6574639-6574759 ( 31) GCTGCACC 1 chr3R:17944110-17944230 ( 28) GCTGCTCG 1 chrX:14826030-14826150 ( 95) GCTGCACG 1 chr2R:21909980-21910100 ( 70) GCTGCACG 1 chrX:16216691-16216811 ( 112) GCAGCGGG 1 chr2R:22998706-22998826 ( 40) GCAGCGGG 1 chr2R:13040502-13040622 ( 12) GCAGCGGG 1 chr3L:14177608-14177728 ( 89) GCTGCGCC 1 chr2L:8825606-8825726 ( 101) GCAGCACG 1 chrX:21457700-21457820 ( 97) GCAGCACG 1 chr3L:3080796-3080916 ( 7) GCTGCGCG 1 chrX:17397226-17397346 ( 21) GCTGCGCG 1 chr3R:8477552-8477672 ( 20) GCAGCGCC 1 chr2R:17822366-17822486 ( 90) GCGGCAGC 1 chr3L:15729591-15729711 ( 16) GCGGCTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4069 E= 1.8e+002 -1181 -1181 218 -1181 -1181 218 -1181 -1181 55 -1181 -199 94 -1181 -1181 218 -1181 -1181 218 -1181 -1181 34 -1181 -18 69 -1181 59 160 -1181 -1181 133 101 -1181 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 36 E= 1.8e+002 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.416667 0.000000 0.055556 0.527778 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.361111 0.000000 0.194444 0.444444 0.000000 0.333333 0.666667 0.000000 0.000000 0.555556 0.444444 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCWGCWSS MEME-5 regular expression -------------------------------------------------------------------------------- GC[TA]GC[TA][GC][CG] -------------------------------------------------------------------------------- Time 32.25 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:16386478-16386598 5.64e-02 92_[+2(9.16e-05)]_20 chrX:18312474-18312594 1.03e-02 36_[+4(6.89e-06)]_76 chr2R:13042241-13042361 2.57e-01 120 chr3R:25080562-25080682 1.04e-04 54_[+2(1.19e-05)]_47_[+3(7.55e-05)]_\ 3 chr3R:17944110-17944230 9.81e-02 120 chr2L:18733158-18733278 2.00e-02 43_[+2(6.80e-05)]_69 chr3R:11353727-11353847 3.52e-01 120 chr3R:9157856-9157976 1.56e-01 120 chr3R:12244629-12244749 2.47e-02 44_[+2(1.19e-05)]_68 chr2L:17260698-17260818 5.29e-01 120 chr2L:5658428-5658548 4.83e-02 120 chr4:1098292-1098412 1.23e-01 120 chrX:8805824-8805944 2.15e-02 99_[+2(1.19e-05)]_13 chr3R:27905826-27905946 1.37e-01 101_[+2(3.03e-05)]_11 chr2R:17822137-17822257 1.83e-02 82_[+5(8.69e-06)]_30 chr3L:432665-432785 4.39e-01 120 chr3L:24723858-24723978 3.02e-01 120 chr2R:10265395-10265515 4.55e-01 120 chr2L:2808096-2808216 5.08e-01 120 chrX:8294676-8294796 9.21e-01 120 chr2R:11612710-11612830 9.93e-01 120 chr2L:9581729-9581849 1.45e-02 120 chr3R:22899168-22899288 1.68e-01 120 chr2L:18737427-18737547 4.98e-01 120 chr2R:13040502-13040622 4.99e-02 120 chr2L:19722633-19722753 9.70e-01 120 chr2L:11447146-11447266 5.71e-02 120 chr4:989541-989661 1.58e-01 120 chr2R:12992979-12993099 2.98e-01 120 chr2L:15337351-15337471 7.43e-01 120 chr2L:2451272-2451392 4.47e-01 120 chr4:844537-844657 2.06e-01 120 chr3R:13877243-13877363 1.79e-03 2_[+2(1.19e-05)]_69_[+5(3.53e-05)]_\ 33 chr2R:12956088-12956208 6.70e-02 120 chrX:21457700-21457820 8.97e-02 120 chrX:14749218-14749338 4.41e-01 120 chr2L:16485802-16485922 4.29e-03 5_[+2(1.19e-05)]_32_[+2(6.80e-05)]_\ 67 chr3R:4835413-4835533 7.94e-03 80_[+3(2.85e-05)]_32 chrX:9284485-9284605 1.92e-01 120 chr2R:14799492-14799612 9.94e-01 120 chr3R:12644994-12645114 9.73e-01 120 chr3R:25740413-25740533 3.75e-01 120 chr2R:13042444-13042564 8.15e-01 120 chrX:356473-356593 9.36e-01 120 chr2L:10354333-10354453 3.06e-01 120 chr2R:21548281-21548401 1.00e+00 120 chr3R:6683285-6683405 9.42e-03 40_[+2(6.08e-05)]_72 chr3R:11371805-11371925 5.69e-02 54_[+2(3.03e-05)]_58 chr3R:8191034-8191154 8.19e-04 6_[+2(9.16e-05)]_26_[+1(1.09e-05)]_\ 72 chr2R:12956297-12956417 9.48e-02 38_[+1(5.56e-05)]_74 chr2R:23187254-23187374 7.99e-01 120 chr2R:12954870-12954990 1.95e-01 120 chr2R:20126676-20126796 8.01e-01 120 chr2R:22243944-22244064 3.72e-01 120 chr3L:3626330-3626450 4.36e-01 120 chr2R:23621705-23621825 4.53e-01 120 chr3R:29584402-29584522 2.95e-01 120 chrX:8202863-8202983 9.93e-01 120 chr3L:20621856-20621976 6.96e-04 106_[+5(6.24e-05)]_6 chr2L:18936194-18936314 4.38e-05 [+5(6.24e-05)]_40_[+1(5.56e-05)]_10_\ [+3(2.85e-05)]_46 chr3L:12609504-12609624 2.68e-05 37_[+3(1.09e-05)]_28_[+5(8.69e-06)]_\ 39 chr2R:8644831-8644951 4.74e-01 120 chr2L:3538647-3538767 1.69e-05 35_[+1(1.09e-05)]_42_[+2(1.19e-05)]_\ 27 chr2L:6411175-6411295 9.11e-01 120 chr3L:11009640-11009760 7.04e-01 120 chr2R:14458061-14458181 2.88e-03 33_[+3(2.85e-05)]_26_[+1(1.09e-05)]_\ 45 chr3L:24724058-24724178 9.98e-01 120 chr3R:29717627-29717747 9.99e-01 120 chr2R:11475528-11475648 6.68e-03 33_[+2(2.10e-05)]_65_[+2(6.08e-05)]_\ 6 chr3L:14166437-14166557 1.00e+00 120 chr2L:3675918-3676038 7.40e-01 120 chr3L:21241613-21241733 9.64e-01 120 chrX:17397226-17397346 2.56e-04 64_[+2(6.08e-05)]_48 chrX:11846479-11846599 9.02e-01 120 chr3R:22220946-22221066 9.98e-01 120 chr2R:24369429-24369549 6.33e-01 120 chr2L:20944446-20944566 9.73e-01 120 chr3L:15336708-15336828 6.39e-02 43_[+5(8.69e-06)]_69 chr2L:11446195-11446315 5.45e-03 66_[+1(5.56e-05)]_18_[+1(1.09e-05)]_\ 11_[+1(1.09e-05)]_1 chr3R:8477552-8477672 2.93e-01 120 chr3R:13875156-13875276 2.77e-03 8_[+1(1.09e-05)]_96_[+1(1.09e-05)] chr3L:3878705-3878825 3.73e-01 120 chr2L:15333790-15333910 3.26e-02 70_[+1(6.69e-05)]_42 chr2L:18717524-18717644 4.82e-01 120 chr2R:8272349-8272469 3.88e-01 120 chr2L:18186804-18186924 9.88e-01 120 chr2R:10568339-10568459 9.96e-01 120 chrX:7204840-7204960 6.45e-02 106_[+1(5.56e-05)]_6 chr2R:20100610-20100730 7.32e-01 120 chr3L:21808881-21809001 2.98e-03 52_[+1(1.09e-05)]_60 chr3R:25094614-25094734 1.92e-01 37_[+5(8.74e-05)]_75 chrX:17799176-17799296 1.00e+00 120 chrX:18243316-18243436 2.75e-04 3_[+5(8.69e-06)]_1_[+5(8.69e-06)]_\ 27_[+1(1.97e-05)]_25_[+5(2.63e-05)]_32 chrX:9004499-9004619 9.92e-01 120 chr4:702998-703118 7.86e-01 120 chr3R:29470268-29470388 2.03e-01 110_[+1(5.56e-05)]_2 chr2L:7306945-7307065 4.76e-02 45_[+5(3.53e-05)]_67 chr2L:16049901-16050021 5.15e-01 120 chr2R:20903630-20903750 1.58e-02 120 chrX:17513938-17514058 1.00e+00 120 chr2L:3607199-3607319 5.13e-03 39_[+3(3.55e-05)]_26_[+5(3.53e-05)]_\ 39 chr2R:15754400-15754520 9.86e-01 120 chr3L:13030412-13030532 9.98e-01 120 chr2L:19898725-19898845 8.37e-01 120 chr3L:17981256-17981376 9.99e-01 120 chr2L:19252514-19252634 9.95e-01 120 chr2L:8842162-8842282 9.70e-01 120 chr3L:1464577-1464697 7.00e-01 120 chr2R:18585143-18585263 7.75e-01 120 chr3R:13450441-13450561 5.30e-01 120 chrX:9048568-9048688 9.70e-01 120 chr2R:13039072-13039192 2.22e-01 120 chr3R:17955892-17956012 1.00e+00 120 chr2L:11394302-11394422 9.77e-01 120 chr2R:18878367-18878487 4.42e-01 120 chr2R:23632265-23632385 2.25e-01 120 chr3L:3080796-3080916 1.48e-01 120 chr3L:13403663-13403783 2.59e-03 120 chr3R:30734651-30734771 9.54e-01 120 chr3L:623769-623889 8.83e-01 120 chr2L:6553475-6553595 3.50e-01 120 chr2L:11445461-11445581 1.16e-01 120 chr2R:11657156-11657276 8.67e-01 120 chr3R:12281098-12281218 4.29e-02 85_[+5(8.74e-05)]_27 chr2R:23713120-23713240 2.76e-01 120 chr2R:8318230-8318350 4.81e-01 120 chr3R:18063483-18063603 1.16e-01 120 chr3L:5188524-5188644 9.97e-01 120 chrX:19453263-19453383 9.98e-01 120 chr3R:23921831-23921951 9.42e-01 120 chr2L:20951432-20951552 9.99e-01 120 chrX:16147818-16147938 3.75e-02 77_[+1(5.56e-05)]_35 chrX:8295389-8295509 3.29e-01 100_[+5(6.24e-05)]_12 chr2L:7276984-7277104 1.38e-01 120 chr3L:16657136-16657256 9.87e-01 120 chr3L:14177608-14177728 1.54e-05 51_[+2(2.10e-05)]_43_[+3(7.55e-05)]_\ 10 chrX:5989470-5989590 1.00e+00 120 chrX:3288958-3289078 7.11e-01 120 chr2L:16422742-16422862 4.42e-04 47_[+3(1.09e-05)]_46_[+1(5.56e-05)]_\ [+1(1.09e-05)]_3 chrX:16150798-16150918 2.01e-04 58_[+3(1.09e-05)]_54 chrX:6574639-6574759 3.66e-01 120 chr3R:13901665-13901785 1.12e-02 72_[+1(1.97e-05)]_40 chr2R:22998706-22998826 8.41e-03 120 chr2R:12997166-12997286 4.51e-01 120 chr2R:8030905-8031025 5.16e-02 76_[+2(1.19e-05)]_36 chr4:505478-505598 5.90e-01 120 chr3L:4000801-4000921 8.43e-01 120 chr2L:5610261-5610381 5.28e-01 120 chr2L:12617961-12618081 9.29e-02 6_[+2(2.10e-05)]_106 chrX:6982239-6982359 1.00e+00 120 chrX:16216691-16216811 1.29e-01 120 chr3R:13549635-13549755 3.33e-01 120 chrX:3931803-3931923 1.00e+00 120 chr3L:19674492-19674612 7.82e-01 120 chr3R:15666190-15666310 6.76e-01 120 chr3R:26900069-26900189 7.77e-02 38_[+5(2.63e-05)]_74 chr2L:3841083-3841203 9.98e-01 120 chr3L:3624942-3625062 2.67e-03 32_[+1(1.09e-05)]_23_[+1(1.97e-05)]_\ 26_[+1(1.09e-05)]_15 chr3R:13907861-13907981 1.00e+00 120 chr3L:12693017-12693137 2.48e-04 17_[+1(1.97e-05)]_10_[+5(6.24e-05)]_\ 77 chr3L:10337777-10337897 1.00e+00 120 chr4:508694-508814 1.79e-01 38_[+5(6.24e-05)]_74 chr3L:378193-378313 1.04e-03 43_[+2(6.08e-05)]_[+2(6.08e-05)]_19_\ [+5(2.63e-05)]_34 chr4:834156-834276 9.97e-01 120 chr3R:13448497-13448617 9.57e-01 120 chr3L:15729591-15729711 2.46e-01 120 chrX:12249062-12249182 9.51e-01 120 chr2R:22242821-22242941 2.26e-01 120 chrX:14653730-14653850 4.68e-01 120 chr3L:5634482-5634602 6.99e-01 120 chr3L:17009740-17009860 3.11e-01 120 chr2R:21514491-21514611 8.18e-01 120 chr2R:23203854-23203974 1.94e-01 120 chr2R:8051373-8051493 9.46e-01 120 chr3R:18122033-18122153 1.96e-01 120 chr2R:18536700-18536820 6.89e-01 120 chr3R:4995951-4996071 9.51e-01 120 chr3R:13885071-13885191 2.41e-01 15_[+5(2.63e-05)]_97 chr2R:8018882-8019002 8.36e-08 14_[+3(1.09e-05)]_50_[+4(6.89e-06)]_\ 31_[+2(6.08e-05)]_1 chr3L:15728060-15728180 6.58e-03 20_[+5(4.42e-05)]_26_[+5(2.63e-05)]_\ 58 chr2L:6508800-6508920 9.93e-01 120 chr2L:21899176-21899296 1.04e-01 110_[+2(1.19e-05)]_2 chrX:7608420-7608540 6.47e-01 120 chr2R:17822366-17822486 1.04e-01 120 chr2R:10673316-10673436 6.64e-01 120 chr3R:31723336-31723456 9.86e-01 120 chr3R:22878497-22878617 1.00e+00 120 chr2L:18881452-18881572 5.32e-03 110_[+1(6.69e-05)]_2 chr2R:6607618-6607738 1.09e-01 108_[+3(7.55e-05)]_4 chr3R:28904326-28904446 1.00e+00 120 chr3L:18003183-18003303 9.59e-01 120 chr3L:16054264-16054384 9.98e-01 120 chr2R:22402972-22403092 9.12e-01 120 chr3L:18400309-18400429 9.22e-05 27_[+4(6.89e-06)]_85 chrX:17230014-17230134 9.30e-01 120 chrX:8757916-8758036 3.61e-05 46_[+1(1.09e-05)]_4_[+1(1.09e-05)]_\ 11_[+5(6.24e-05)]_35 chr2R:23668829-23668949 2.70e-01 120 chr2L:8825606-8825726 9.75e-03 120 chr2L:8461907-8462027 8.69e-01 120 chr2L:3600963-3601083 2.80e-01 100_[+5(2.63e-05)]_12 chr3R:23293258-23293378 5.21e-02 8_[+1(5.56e-05)]_104 chr2R:11712207-11712327 9.23e-01 120 chr3L:1177179-1177299 5.91e-01 120 chr2R:21909980-21910100 5.43e-01 120 chr3L:16482312-16482432 9.67e-01 120 chr2R:10195094-10195214 2.89e-01 120 chr3R:11372791-11372911 2.70e-01 120 chr3L:22136121-22136241 4.18e-01 120 chr3R:10449088-10449208 8.62e-01 120 chrX:14826030-14826150 4.21e-01 120 chr3R:26892943-26893063 1.46e-01 72_[+5(2.63e-05)]_40 chr3R:14284552-14284672 5.72e-01 120 chrX:10363178-10363298 8.24e-01 120 chr3R:16769581-16769701 9.99e-01 120 chrX:19106993-19107113 8.16e-01 120 chr2L:14024902-14025022 9.99e-01 120 chr3R:14470808-14470928 9.50e-01 120 chr3R:6678634-6678754 6.12e-03 71_[+1(1.09e-05)]_41 chr2L:3825721-3825841 8.10e-01 120 chr2L:7617018-7617138 9.98e-01 120 chrX:16149128-16149248 2.07e-01 120 chr2L:14245601-14245721 9.81e-01 120 chrX:17768386-17768506 1.40e-04 19_[+1(1.09e-05)]_[+3(1.09e-05)]_52_\ [+1(1.09e-05)]_25 chr3L:14131784-14131904 1.29e-02 48_[+2(1.19e-05)]_64 chr3R:4846874-4846994 1.00e+00 120 chrX:4262796-4262916 7.94e-01 120 chr2R:12173440-12173560 7.96e-01 120 chr2R:5726962-5727082 7.67e-07 21_[+3(7.55e-05)]_16_[+3(7.55e-05)]_\ 23_[+1(1.97e-05)]_24_[+4(6.89e-06)]_4 chrX:4425041-4425161 9.08e-04 11_[+2(6.08e-05)]_23_[+3(2.85e-05)]_\ 70 chrX:19166423-19166543 7.57e-01 120 chr3L:3380628-3380748 7.76e-01 120 chr3L:10428838-10428958 1.00e+00 120 chr2R:8327273-8327393 7.33e-05 15_[+2(6.08e-05)]_12_[+1(1.09e-05)]_\ 77 chrX:4498397-4498517 9.91e-01 120 chrX:19887285-19887405 1.30e-03 16_[+3(1.09e-05)]_96 chr3R:17231656-17231776 5.14e-01 120 chr3R:25490398-25490518 6.16e-01 120 chr3L:16760388-16760508 9.69e-01 120 chr3R:4852416-4852536 3.47e-02 46_[+2(1.19e-05)]_66 chrX:10718019-10718139 8.15e-01 120 chr3L:6790073-6790193 7.60e-02 120 chr2L:19884558-19884678 9.69e-01 120 chr2L:11447816-11447936 5.12e-03 28_[+1(1.09e-05)]_22_[+1(5.56e-05)]_\ 54 chr3L:3970436-3970556 9.92e-01 120 chr3L:17971083-17971203 8.71e-02 120 chr3R:5065128-5065248 6.77e-01 120 chr2R:8240845-8240965 9.99e-01 120 chrX:18837187-18837307 2.55e-01 120 chr2R:8045055-8045175 8.97e-01 120 chr2L:18505617-18505737 6.78e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n06.farnam.hpc.yale.internal ********************************************************************************