******************************************************************************** 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/Hsf.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:18125809-18125929 1.0000 120 chr2L:8554451-8554571 1.0000 120 chrX:3538884-3539004 1.0000 120 chr2L:15254386-15254506 1.0000 120 chrX:15653668-15653788 1.0000 120 chr3R:21612966-21613086 1.0000 120 chr3R:24318527-24318647 1.0000 120 chr2L:1619313-1619433 1.0000 120 chr2L:1158196-1158316 1.0000 120 chr2R:16847139-16847259 1.0000 120 chr2R:16202891-16203011 1.0000 120 chr3R:18215451-18215571 1.0000 120 chr2L:838153-838273 1.0000 120 chr3R:26436660-26436780 1.0000 120 chrX:18517543-18517663 1.0000 120 chr3L:14172649-14172769 1.0000 120 chr3R:15347921-15348041 1.0000 120 chr2R:19310990-19311110 1.0000 120 chr3R:27289771-27289891 1.0000 120 chrX:10628988-10629108 1.0000 120 chrX:17175921-17176041 1.0000 120 chr2R:20906674-20906794 1.0000 120 chr3L:8604396-8604516 1.0000 120 chr2R:5122242-5122362 1.0000 120 chr3L:5604049-5604169 1.0000 120 chr3R:16769526-16769646 1.0000 120 chr3R:16748689-16748809 1.0000 120 chr3R:11617530-11617650 1.0000 120 chr2L:4459713-4459833 1.0000 120 chr3R:5856389-5856509 1.0000 120 chr2R:14411664-14411784 1.0000 120 chr2L:11417651-11417771 1.0000 120 chr3L:16571516-16571636 1.0000 120 chr3L:18357770-18357890 1.0000 120 chr3R:14741455-14741575 1.0000 120 chr3L:10899325-10899445 1.0000 120 chr3L:8748993-8749113 1.0000 120 chr2R:7077019-7077139 1.0000 120 chr2R:24571709-24571829 1.0000 120 chr2L:14376963-14377083 1.0000 120 chr3L:6059211-6059331 1.0000 120 chr2L:493421-493541 1.0000 120 chr3R:28599609-28599729 1.0000 120 chr3L:16054332-16054452 1.0000 120 chr2R:10122615-10122735 1.0000 120 chr3R:22260402-22260522 1.0000 120 chr3L:6264602-6264722 1.0000 120 chr3R:13446625-13446745 1.0000 120 chr3R:5413164-5413284 1.0000 120 chr2R:21910013-21910133 1.0000 120 chr2L:295046-295166 1.0000 120 chr3R:14470743-14470863 1.0000 120 chr3L:16760379-16760499 1.0000 120 chrX:1349424-1349544 1.0000 120 chrX:17176673-17176793 1.0000 120 chr3L:745691-745811 1.0000 120 chr3L:7861169-7861289 1.0000 120 chr2L:1428467-1428587 1.0000 120 chr2L:7632890-7633010 1.0000 120 chr2R:12772737-12772857 1.0000 120 chr2L:11338381-11338501 1.0000 120 chr3R:26235164-26235284 1.0000 120 chrX:10600655-10600775 1.0000 120 chr3R:4775459-4775579 1.0000 120 chr3R:9039648-9039768 1.0000 120 chrX:14602720-14602840 1.0000 120 chr3R:27677202-27677322 1.0000 120 chr3L:12336434-12336554 1.0000 120 chr2L:7702597-7702717 1.0000 120 chr3R:21850263-21850383 1.0000 120 chr3L:5152446-5152566 1.0000 120 chr3L:11429848-11429968 1.0000 120 chr2R:21535569-21535689 1.0000 120 chr3L:16544344-16544464 1.0000 120 chr2L:17963186-17963306 1.0000 120 chr2R:18126011-18126131 1.0000 120 chr2L:3472396-3472516 1.0000 120 chr2R:25085540-25085660 1.0000 120 chr3R:13078446-13078566 1.0000 120 chr3R:23300726-23300846 1.0000 120 chr2R:14906663-14906783 1.0000 120 chr3R:21993050-21993170 1.0000 120 chr3L:5752300-5752420 1.0000 120 chr3L:13411160-13411280 1.0000 120 chr2R:7241761-7241881 1.0000 120 chr2L:20881506-20881626 1.0000 120 chr3L:3770994-3771114 1.0000 120 chr3R:10203709-10203829 1.0000 120 chr2R:16551979-16552099 1.0000 120 chr3L:5813160-5813280 1.0000 120 chr2L:10856638-10856758 1.0000 120 chr2R:23652367-23652487 1.0000 120 chr2R:14913174-14913294 1.0000 120 chr2R:14357274-14357394 1.0000 120 chrX:2149666-2149786 1.0000 120 chr2L:11331772-11331892 1.0000 120 chr2L:11091269-11091389 1.0000 120 chr2R:18277169-18277289 1.0000 120 chr3L:21196724-21196844 1.0000 120 chrX:15583010-15583130 1.0000 120 chr3L:11074654-11074774 1.0000 120 chr2L:20950833-20950953 1.0000 120 chrX:18635406-18635526 1.0000 120 chrX:1370161-1370281 1.0000 120 chr3R:23679954-23680074 1.0000 120 chrX:16782256-16782376 1.0000 120 chr2R:10103815-10103935 1.0000 120 chrX:17751827-17751947 1.0000 120 chrX:5309105-5309225 1.0000 120 chr3L:554702-554822 1.0000 120 chr2L:14020902-14021022 1.0000 120 chrX:9137276-9137396 1.0000 120 chr2R:11809428-11809548 1.0000 120 chr3R:30413930-30414050 1.0000 120 chr2L:20715180-20715300 1.0000 120 chr2R:13999339-13999459 1.0000 120 chr3R:6818701-6818821 1.0000 120 chr4:406959-407079 1.0000 120 chr3R:14357523-14357643 1.0000 120 chr2L:16310721-16310841 1.0000 120 chrX:5883521-5883641 1.0000 120 chr3R:26888439-26888559 1.0000 120 chr2R:11921150-11921270 1.0000 120 chr2L:7258233-7258353 1.0000 120 chr3L:16806139-16806259 1.0000 120 chr3R:26937595-26937715 1.0000 120 chr2L:827572-827692 1.0000 120 chrX:20257369-20257489 1.0000 120 chr2R:7916573-7916693 1.0000 120 chr3L:13923434-13923554 1.0000 120 chr3R:23028631-23028751 1.0000 120 chr2L:19867151-19867271 1.0000 120 chr3L:1414169-1414289 1.0000 120 chr3R:5686481-5686601 1.0000 120 chr3L:18784690-18784810 1.0000 120 chr2R:16800178-16800298 1.0000 120 chrX:5972173-5972293 1.0000 120 chr3L:10745722-10745842 1.0000 120 chr3R:16834794-16834914 1.0000 120 chr2R:13923576-13923696 1.0000 120 chr3R:16919203-16919323 1.0000 120 chr2L:1462174-1462294 1.0000 120 chr3L:699376-699496 1.0000 120 chr3L:7151923-7152043 1.0000 120 chr3L:9435469-9435589 1.0000 120 chr2R:8913998-8914118 1.0000 120 chr3L:17912559-17912679 1.0000 120 chr3R:24206889-24207009 1.0000 120 chr3R:26654705-26654825 1.0000 120 chr2L:15061489-15061609 1.0000 120 chr3L:12803767-12803887 1.0000 120 chr2L:1729702-1729822 1.0000 120 chr2L:1629723-1629843 1.0000 120 chr3R:9791300-9791420 1.0000 120 chr2R:11095267-11095387 1.0000 120 chr2L:10356632-10356752 1.0000 120 chrX:13784617-13784737 1.0000 120 chrX:12463088-12463208 1.0000 120 chr3L:1350588-1350708 1.0000 120 chr3L:21536944-21537064 1.0000 120 chr3L:361360-361480 1.0000 120 chr3L:4379079-4379199 1.0000 120 chr3R:17002339-17002459 1.0000 120 chr3L:3983542-3983662 1.0000 120 chr3R:26542251-26542371 1.0000 120 chr2R:23176777-23176897 1.0000 120 chr2R:12605697-12605817 1.0000 120 chr2L:20097238-20097358 1.0000 120 chr3L:3665433-3665553 1.0000 120 chr3L:13006593-13006713 1.0000 120 chr2L:4971504-4971624 1.0000 120 chr2L:11037941-11038061 1.0000 120 chr3R:15472788-15472908 1.0000 120 chr2L:21143058-21143178 1.0000 120 chr2R:16571757-16571877 1.0000 120 chr3L:20395383-20395503 1.0000 120 chr3R:10882228-10882348 1.0000 120 chr2L:858206-858326 1.0000 120 chr3R:11674113-11674233 1.0000 120 chr2L:13073946-13074066 1.0000 120 chr3R:5758970-5759090 1.0000 120 chr2L:7033451-7033571 1.0000 120 chr3L:7356574-7356694 1.0000 120 chr3L:21509631-21509751 1.0000 120 chr3L:20313541-20313661 1.0000 120 chr3L:20140767-20140887 1.0000 120 chr3R:21151545-21151665 1.0000 120 chrX:4010327-4010447 1.0000 120 chr2L:18666068-18666188 1.0000 120 chr2L:20093972-20094092 1.0000 120 chr2L:15248756-15248876 1.0000 120 chr2L:283267-283387 1.0000 120 chrX:9356433-9356553 1.0000 120 chr3R:16991916-16992036 1.0000 120 chr3R:10564370-10564490 1.0000 120 chr3R:14283134-14283254 1.0000 120 chr2R:18140709-18140829 1.0000 120 chr2R:24869961-24870081 1.0000 120 chr3R:29997770-29997890 1.0000 120 chr2R:13429265-13429385 1.0000 120 chr2L:19335107-19335227 1.0000 120 chr2L:1150659-1150779 1.0000 120 chr3L:16165775-16165895 1.0000 120 chr2R:6017619-6017739 1.0000 120 chr2R:18829770-18829890 1.0000 120 chrX:20394222-20394342 1.0000 120 chrX:7015171-7015291 1.0000 120 chr2L:14372416-14372536 1.0000 120 chr3R:25004871-25004991 1.0000 120 chr2L:5543135-5543255 1.0000 120 chrX:9349370-9349490 1.0000 120 chr3R:29591624-29591744 1.0000 120 chr3R:6468201-6468321 1.0000 120 chr3R:12718308-12718428 1.0000 120 chr3R:31064784-31064904 1.0000 120 chr3R:4387621-4387741 1.0000 120 chr3R:21218953-21219073 1.0000 120 chr3L:11403703-11403823 1.0000 120 chr3R:5998466-5998586 1.0000 120 chrX:14839841-14839961 1.0000 120 chr2L:16547802-16547922 1.0000 120 chr3R:10560728-10560848 1.0000 120 chr2L:20681902-20682022 1.0000 120 chr2L:15751137-15751257 1.0000 120 chr3R:24574219-24574339 1.0000 120 chr2L:11988028-11988148 1.0000 120 chr3R:17401486-17401606 1.0000 120 chr2R:9440388-9440508 1.0000 120 chr2R:13926306-13926426 1.0000 120 chr2L:21787103-21787223 1.0000 120 chr2L:1108407-1108527 1.0000 120 chr3R:4220877-4220997 1.0000 120 chr3L:18786830-18786950 1.0000 120 chr2L:9503232-9503352 1.0000 120 chr2L:522861-522981 1.0000 120 chrX:14765961-14766081 1.0000 120 chr2L:6968296-6968416 1.0000 120 chr2R:18971176-18971296 1.0000 120 chr2L:20650023-20650143 1.0000 120 chrX:12578753-12578873 1.0000 120 chr3R:26052422-26052542 1.0000 120 chr3L:18226159-18226279 1.0000 120 chrX:15599806-15599926 1.0000 120 chr3R:21671781-21671901 1.0000 120 chr2L:4847343-4847463 1.0000 120 chr3L:9367009-9367129 1.0000 120 chr3R:23709700-23709820 1.0000 120 chrX:8561592-8561712 1.0000 120 chr2L:18921387-18921507 1.0000 120 chr2R:24748888-24749008 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_Hsf/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Hsf.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 0.331 C 0.171 G 0.172 T 0.327 Background letter frequencies (from file dataset with add-one prior applied): A 0.331 C 0.171 G 0.172 T 0.327 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GRTGGCGC MEME-1 width = 8 sites = 28 llr = 276 E-value = 1.4e-010 ******************************************************************************** -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 Description -------------------------------------------------------------------------------- Simplified A 34:1:::: pos.-specific C :::::a:9 probability G 75199:a: matrix T :19:1::1 bits 2.5 ** 2.3 ** 2.0 ***** 1.8 ***** Relative 1.5 * ***** Entropy 1.3 * ***** (14.2 bits) 1.0 * ****** 0.8 * ****** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GGTGGCGC consensus AA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2R:16800178-16800298 113 1.44e-06 ATTTCGTATA GGTGGCGC chrX:18635406-18635526 89 1.44e-06 TTCTCTCCTA GGTGGCGC TTTATTACTA chr2R:21535569-21535689 34 1.44e-06 ATTTACGCTA GGTGGCGC TTGGCAGGAC chr3L:8748993-8749113 32 1.44e-06 CTCACACATA GGTGGCGC ATTCTGCACA chr3R:10203709-10203829 64 4.21e-06 CCTGACAACA GATGGCGC TTTGTATCAT chr2L:3472396-3472516 68 4.21e-06 TGCCTGTGCA GATGGCGC CACCATGACG chr3R:16748689-16748809 43 4.21e-06 CGAATCCATA GATGGCGC ATGCAACTCA chr2R:20906674-20906794 80 4.21e-06 ACCAACGGTA GATGGCGC CAGTGCAACA chr3L:9435469-9435589 59 7.74e-06 CTGGCGAGTC AGTGGCGC CTAGCCTAGC chr3R:23679954-23680074 12 7.74e-06 CCCGCCCAGC AGTGGCGC CATCTATGAC chr3L:10899325-10899445 53 7.74e-06 CCTTTGTTGT AGTGGCGC CCTCTTTTGT chrX:18517543-18517663 30 7.74e-06 ATTGGCCGCC AGTGGCGC TGTAGTGCTG chrX:16782256-16782376 105 1.05e-05 CAAGCAATTT GTTGGCGC GTCGCGTG chr4:406959-407079 76 1.19e-05 ATTTCCCACA GAGGGCGC CTGTAGTGGT chrX:17751827-17751947 100 1.19e-05 TTCAAGAGTA GAGGGCGC CGCTTACTTT chr3R:14741455-14741575 22 1.73e-05 CACTACTCCA AATGGCGC TTCCGCTGTC chr2R:14357274-14357394 97 1.94e-05 TCGGTATTTC GGCGGCGC CACTTTCTTA chr2R:23652367-23652487 16 1.94e-05 AATTCAGAGT GCTGGCGC CATCCAGCTT chrX:15653668-15653788 87 2.22e-05 AACAGCCACA GGTGTCGC TACTGAGCAA chr3L:6264602-6264722 56 2.36e-05 AAATGCCGCT AGGGGCGC TAAAAAGCAA chrX:7015171-7015291 80 2.92e-05 CTTTGTCACA GGTGGCGT GTTAAGCTCA chr2L:1150659-1150779 42 2.92e-05 TTTGCAGTAG GGTAGCGC AATAAACTTA chr3R:16919203-16919323 73 3.73e-05 ACCAACACAA GATGTCGC TCTCCGACAG chrX:17175921-17176041 66 3.73e-05 TAGGTGTCTA GATGTCGC TGTTAACTTG chr2L:13073946-13074066 67 4.26e-05 AATCATTTCC ATTGGCGC ACTTCGTCAC chr3R:16834794-16834914 70 4.26e-05 TTCAGAGCAC ATTGGCGC CATCTGTATT chr2L:283267-283387 36 5.68e-05 AAATCGATAT GATAGCGC CACTTGACGT chrX:5883521-5883641 93 5.68e-05 TAGTTCGCTA GATGGCGT CTTGCTAACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:16800178-16800298 1.4e-06 112_[+1] chrX:18635406-18635526 1.4e-06 88_[+1]_24 chr2R:21535569-21535689 1.4e-06 33_[+1]_79 chr3L:8748993-8749113 1.4e-06 31_[+1]_81 chr3R:10203709-10203829 4.2e-06 63_[+1]_49 chr2L:3472396-3472516 4.2e-06 67_[+1]_45 chr3R:16748689-16748809 4.2e-06 42_[+1]_70 chr2R:20906674-20906794 4.2e-06 79_[+1]_33 chr3L:9435469-9435589 7.7e-06 58_[+1]_54 chr3R:23679954-23680074 7.7e-06 11_[+1]_101 chr3L:10899325-10899445 7.7e-06 52_[+1]_60 chrX:18517543-18517663 7.7e-06 29_[+1]_83 chrX:16782256-16782376 1e-05 104_[+1]_8 chr4:406959-407079 1.2e-05 75_[+1]_37 chrX:17751827-17751947 1.2e-05 99_[+1]_13 chr3R:14741455-14741575 1.7e-05 21_[+1]_91 chr2R:14357274-14357394 1.9e-05 96_[+1]_16 chr2R:23652367-23652487 1.9e-05 15_[+1]_97 chrX:15653668-15653788 2.2e-05 86_[+1]_26 chr3L:6264602-6264722 2.4e-05 55_[+1]_57 chrX:7015171-7015291 2.9e-05 79_[+1]_33 chr2L:1150659-1150779 2.9e-05 41_[+1]_71 chr3R:16919203-16919323 3.7e-05 72_[+1]_40 chrX:17175921-17176041 3.7e-05 65_[+1]_47 chr2L:13073946-13074066 4.3e-05 66_[+1]_46 chr3R:16834794-16834914 4.3e-05 69_[+1]_43 chr2L:283267-283387 5.7e-05 35_[+1]_77 chrX:5883521-5883641 5.7e-05 92_[+1]_20 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GRTGGCGC width=8 seqs=28 chr2R:16800178-16800298 ( 113) GGTGGCGC 1 chrX:18635406-18635526 ( 89) GGTGGCGC 1 chr2R:21535569-21535689 ( 34) GGTGGCGC 1 chr3L:8748993-8749113 ( 32) GGTGGCGC 1 chr3R:10203709-10203829 ( 64) GATGGCGC 1 chr2L:3472396-3472516 ( 68) GATGGCGC 1 chr3R:16748689-16748809 ( 43) GATGGCGC 1 chr2R:20906674-20906794 ( 80) GATGGCGC 1 chr3L:9435469-9435589 ( 59) AGTGGCGC 1 chr3R:23679954-23680074 ( 12) AGTGGCGC 1 chr3L:10899325-10899445 ( 53) AGTGGCGC 1 chrX:18517543-18517663 ( 30) AGTGGCGC 1 chrX:16782256-16782376 ( 105) GTTGGCGC 1 chr4:406959-407079 ( 76) GAGGGCGC 1 chrX:17751827-17751947 ( 100) GAGGGCGC 1 chr3R:14741455-14741575 ( 22) AATGGCGC 1 chr2R:14357274-14357394 ( 97) GGCGGCGC 1 chr2R:23652367-23652487 ( 16) GCTGGCGC 1 chrX:15653668-15653788 ( 87) GGTGTCGC 1 chr3L:6264602-6264722 ( 56) AGGGGCGC 1 chrX:7015171-7015291 ( 80) GGTGGCGT 1 chr2L:1150659-1150779 ( 42) GGTAGCGC 1 chr3R:16919203-16919323 ( 73) GATGTCGC 1 chrX:17175921-17176041 ( 66) GATGTCGC 1 chr2L:13073946-13074066 ( 67) ATTGGCGC 1 chr3R:16834794-16834914 ( 70) ATTGGCGC 1 chr2L:283267-283387 ( 36) GATAGCGC 1 chrX:5883521-5883641 ( 93) GATGGCGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.648 E= 1.4e-010 -21 -1145 206 -1145 25 -226 144 -161 -1145 -226 -68 139 -221 -1145 244 -1145 -1145 -1145 238 -161 -1145 254 -1145 -1145 -1145 -1145 254 -1145 -1145 244 -1145 -219 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 1.4e-010 0.285714 0.000000 0.714286 0.000000 0.392857 0.035714 0.464286 0.107143 0.000000 0.035714 0.107143 0.857143 0.071429 0.000000 0.928571 0.000000 0.000000 0.000000 0.892857 0.107143 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.928571 0.000000 0.071429 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRTGGCGC MEME-1 regular expression -------------------------------------------------------------------------------- [GA][GA]TGGCGC -------------------------------------------------------------------------------- Time 7.81 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGMCATC MEME-2 width = 8 sites = 20 llr = 203 E-value = 3.8e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::4:8:: pos.-specific C 2a:7923a probability G 8:a:1:1: matrix T ::::::7: bits 2.5 ** * 2.3 ** * 2.0 ** * * 1.8 *** * * Relative 1.5 *** * * Entropy 1.3 ***** * (14.7 bits) 1.0 ****** * 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GCGCCATC consensus C A CC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:7258233-7258353 80 2.74e-06 AGCGCCCAGT GCGCCATC TAGCAGAACT chr2R:25085540-25085660 33 2.74e-06 AAAGTTGAGT GCGCCATC TTTTGCTTGA chr3L:6264602-6264722 3 2.74e-06 TG GCGCCATC TAGGGCCTTA chr3R:16919203-16919323 22 4.17e-06 CCGCCTTGCA GCGCCACC TGGCCTTGGT chr2R:16800178-16800298 42 4.17e-06 AACTGAACTA GCGCCACC TGAGACTGCA chr2R:23652367-23652487 59 4.17e-06 AATAGGAACA GCGCCACC TGCTTGCGAA chr2R:16551979-16552099 26 4.17e-06 ATACAAAAGA GCGCCACC TAGAAAATAT chrX:18517543-18517663 74 5.58e-06 GTTCCAGACG GCGCCCTC TGGCGGCGGA chr3R:16834794-16834914 23 1.16e-05 ATGCACAAAG GCGACATC TGTTAGCCGT chr3L:13411160-13411280 44 1.16e-05 AACGTTTGCA GCGACATC TAGTGGTGGT chr3R:13078446-13078566 44 1.16e-05 taAAAGTGGT GCGACATC TAGTGGTTTT chr2R:20906674-20906794 9 1.16e-05 ACATTGCA GCGACATC TATCGTCAAA chr3R:17002339-17002459 47 1.71e-05 ACTGTTGCCA CCGCCATC GATAGTTTTC chr3R:16748689-16748809 64 1.71e-05 CAACTCAGTG CCGCCATC TGACGTAAGA chrX:15653668-15653788 30 1.71e-05 AACGGCAAGA GCGACACC TATCGTCAGT chr3R:22260402-22260522 62 2.56e-05 CGCTATTTTT GCGACCCC AACGGTTTGT chr3R:4220877-4220997 73 2.83e-05 AGCCAGGCCT GCGCGATC AAGCTATCGG chr2L:3472396-3472516 85 4.07e-05 CCACCATGAC GCGCGCTC CGCTAATTTG chrX:12578753-12578873 108 4.84e-05 TTTAAAACTG CCGACCTC TGCTT chr2R:16202891-16203011 19 4.84e-05 TAGGAAAATA CCGCCAGC GATCAGTGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:7258233-7258353 2.7e-06 79_[+2]_33 chr2R:25085540-25085660 2.7e-06 32_[+2]_80 chr3L:6264602-6264722 2.7e-06 2_[+2]_110 chr3R:16919203-16919323 4.2e-06 21_[+2]_91 chr2R:16800178-16800298 4.2e-06 41_[+2]_71 chr2R:23652367-23652487 4.2e-06 58_[+2]_54 chr2R:16551979-16552099 4.2e-06 25_[+2]_87 chrX:18517543-18517663 5.6e-06 73_[+2]_39 chr3R:16834794-16834914 1.2e-05 22_[+2]_90 chr3L:13411160-13411280 1.2e-05 43_[+2]_69 chr3R:13078446-13078566 1.2e-05 43_[+2]_69 chr2R:20906674-20906794 1.2e-05 8_[+2]_104 chr3R:17002339-17002459 1.7e-05 46_[+2]_66 chr3R:16748689-16748809 1.7e-05 63_[+2]_49 chrX:15653668-15653788 1.7e-05 29_[+2]_83 chr3R:22260402-22260522 2.6e-05 61_[+2]_51 chr3R:4220877-4220997 2.8e-05 72_[+2]_40 chr2L:3472396-3472516 4.1e-05 84_[+2]_28 chrX:12578753-12578873 4.8e-05 107_[+2]_5 chr2R:16202891-16203011 4.8e-05 18_[+2]_94 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGMCATC width=8 seqs=20 chr2L:7258233-7258353 ( 80) GCGCCATC 1 chr2R:25085540-25085660 ( 33) GCGCCATC 1 chr3L:6264602-6264722 ( 3) GCGCCATC 1 chr3R:16919203-16919323 ( 22) GCGCCACC 1 chr2R:16800178-16800298 ( 42) GCGCCACC 1 chr2R:23652367-23652487 ( 59) GCGCCACC 1 chr2R:16551979-16552099 ( 26) GCGCCACC 1 chrX:18517543-18517663 ( 74) GCGCCCTC 1 chr3R:16834794-16834914 ( 23) GCGACATC 1 chr3L:13411160-13411280 ( 44) GCGACATC 1 chr3R:13078446-13078566 ( 44) GCGACATC 1 chr2R:20906674-20906794 ( 9) GCGACATC 1 chr3R:17002339-17002459 ( 47) CCGCCATC 1 chr3R:16748689-16748809 ( 64) CCGCCATC 1 chrX:15653668-15653788 ( 30) GCGACACC 1 chr3R:22260402-22260522 ( 62) GCGACCCC 1 chr3R:4220877-4220997 ( 73) GCGCGATC 1 chr2L:3472396-3472516 ( 85) GCGCGCTC 1 chrX:12578753-12578873 ( 108) CCGACCTC 1 chr2R:16202891-16203011 ( 19) CCGCCAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.4069 E= 3.8e-004 -1097 22 222 -1097 -1097 254 -1097 -1097 -1097 -1097 254 -1097 8 192 -1097 -1097 -1097 239 -78 -1097 127 22 -1097 -1097 -1097 81 -178 99 -1097 254 -1097 -1097 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 3.8e-004 0.000000 0.200000 0.800000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.350000 0.650000 0.000000 0.000000 0.000000 0.900000 0.100000 0.000000 0.800000 0.200000 0.000000 0.000000 0.000000 0.300000 0.050000 0.650000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMCATC MEME-2 regular expression -------------------------------------------------------------------------------- [GC]CG[CA]C[AC][TC]C -------------------------------------------------------------------------------- Time 14.23 secs. ******************************************************************************** ******************************************************************************** MOTIF GGCWGCAC MEME-3 width = 8 sites = 23 llr = 216 E-value = 2.6e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 Description -------------------------------------------------------------------------------- Simplified A 2::5::a3 pos.-specific C ::9:1a:7 probability G 8a1:9::: matrix T :::4:::: bits 2.5 2.3 * * 2.0 ** ** 1.8 *** ** Relative 1.5 *** ** Entropy 1.3 *** **** (13.5 bits) 1.0 *** **** 0.8 *** **** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GGCAGCAC consensus T A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:21536944-21537064 100 2.79e-06 CGATAGTTCA GGCAGCAC AGCACCTGGC chr2R:8913998-8914118 100 2.79e-06 ATCTCGATGT GGCAGCAC GCTCGGTGTT chrX:20257369-20257489 49 2.79e-06 CTAATTAAGC GGCAGCAC TGATTAGCTG chr2L:16310721-16310841 39 2.79e-06 TAAACGATCA GGCAGCAC AGATGTACGG chr2R:18125809-18125929 43 5.54e-06 GAAGCGCCAG GGCTGCAC AATAGTCGAT chr2L:7033451-7033571 75 1.77e-05 TATTTGGCAG GGCTGCAA TAGCAACTGA chrX:5883521-5883641 66 1.77e-05 TCCGCCAGAT GGCGGCAC AGCATGAAAT chr2L:20950833-20950953 26 1.77e-05 CAGATGCTAA GGCTGCAA ATACTCTATC chr2L:7632890-7633010 80 1.77e-05 CAAATGATTT GGCTGCAA GCATTGCGTG chr3R:22260402-22260522 96 1.77e-05 TTATGCACTT GGCTGCAA CTGCAAAGTA chr3R:18215451-18215571 12 1.77e-05 GTAAGACCAG GGCTGCAA CTACGAAATG chr3L:6059211-6059331 113 2.31e-05 GAACGGAACA AGCAGCAC chr3L:20313541-20313661 106 2.87e-05 TGGTAACACT GGCACCAC TTCTGCG chr2L:858206-858326 22 2.87e-05 TGGGAACTCT GGGAGCAC CGAAAGAAAA chr3R:23028631-23028751 61 3.40e-05 GAAAAAAATT AGCTGCAC ACAGAAGATT chrX:18635406-18635526 60 3.40e-05 ATGGCGCATA AGCTGCAC ACCTAGACAC chr2R:21910013-21910133 36 3.40e-05 AAGGAAAATA AGCTGCAC GCCATAATTA chr3R:21218953-21219073 58 3.95e-05 TCAAACAACA GGGTGCAC CTTGTGTATT chr3R:14283134-14283254 15 4.23e-05 TGCTGAGATT GGCAGCAG ATTATAAACC chr3L:12336434-12336554 31 4.78e-05 ATTAACAGAT GGCAGCTC AGCTACTGCT chr3L:3983542-3983662 41 5.34e-05 AGGCATGAAG GCCAGCAC TAAGTTATGT chr2R:21535569-21535689 44 5.34e-05 GGTGGCGCTT GGCAGGAC TGTGTAAGAT chr3L:18226159-18226279 101 8.56e-05 TATCCCGAGG GGCACCAA AGCCGGCCTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:21536944-21537064 2.8e-06 99_[+3]_13 chr2R:8913998-8914118 2.8e-06 99_[+3]_13 chrX:20257369-20257489 2.8e-06 48_[+3]_64 chr2L:16310721-16310841 2.8e-06 38_[+3]_74 chr2R:18125809-18125929 5.5e-06 42_[+3]_70 chr2L:7033451-7033571 1.8e-05 74_[+3]_38 chrX:5883521-5883641 1.8e-05 65_[+3]_47 chr2L:20950833-20950953 1.8e-05 25_[+3]_87 chr2L:7632890-7633010 1.8e-05 79_[+3]_33 chr3R:22260402-22260522 1.8e-05 95_[+3]_17 chr3R:18215451-18215571 1.8e-05 11_[+3]_101 chr3L:6059211-6059331 2.3e-05 112_[+3] chr3L:20313541-20313661 2.9e-05 105_[+3]_7 chr2L:858206-858326 2.9e-05 21_[+3]_91 chr3R:23028631-23028751 3.4e-05 60_[+3]_52 chrX:18635406-18635526 3.4e-05 59_[+3]_53 chr2R:21910013-21910133 3.4e-05 35_[+3]_77 chr3R:21218953-21219073 3.9e-05 57_[+3]_55 chr3R:14283134-14283254 4.2e-05 14_[+3]_98 chr3L:12336434-12336554 4.8e-05 30_[+3]_82 chr3L:3983542-3983662 5.3e-05 40_[+3]_72 chr2R:21535569-21535689 5.3e-05 43_[+3]_69 chr3L:18226159-18226279 8.6e-05 100_[+3]_12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGCWGCAC width=8 seqs=23 chr3L:21536944-21537064 ( 100) GGCAGCAC 1 chr2R:8913998-8914118 ( 100) GGCAGCAC 1 chrX:20257369-20257489 ( 49) GGCAGCAC 1 chr2L:16310721-16310841 ( 39) GGCAGCAC 1 chr2R:18125809-18125929 ( 43) GGCTGCAC 1 chr2L:7033451-7033571 ( 75) GGCTGCAA 1 chrX:5883521-5883641 ( 66) GGCGGCAC 1 chr2L:20950833-20950953 ( 26) GGCTGCAA 1 chr2L:7632890-7633010 ( 80) GGCTGCAA 1 chr3R:22260402-22260522 ( 96) GGCTGCAA 1 chr3R:18215451-18215571 ( 12) GGCTGCAA 1 chr3L:6059211-6059331 ( 113) AGCAGCAC 1 chr3L:20313541-20313661 ( 106) GGCACCAC 1 chr2L:858206-858326 ( 22) GGGAGCAC 1 chr3R:23028631-23028751 ( 61) AGCTGCAC 1 chrX:18635406-18635526 ( 60) AGCTGCAC 1 chr2R:21910013-21910133 ( 36) AGCTGCAC 1 chr3R:21218953-21219073 ( 58) GGGTGCAC 1 chr3R:14283134-14283254 ( 15) GGCAGCAG 1 chr3L:12336434-12336554 ( 31) GGCAGCTC 1 chr3L:3983542-3983662 ( 41) GCCAGCAC 1 chr2R:21535569-21535689 ( 44) GGCAGGAC 1 chr3L:18226159-18226279 ( 101) GGCACCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.8221 E= 2.6e-001 -93 -1117 227 -1117 -1117 -198 248 -1117 -1117 241 -98 -1117 66 -1117 -198 41 -1117 -98 241 -1117 -1117 248 -198 -1117 153 -1117 -1117 -290 -34 202 -198 -1117 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 2.6e-001 0.173913 0.000000 0.826087 0.000000 0.000000 0.043478 0.956522 0.000000 0.000000 0.913043 0.086957 0.000000 0.521739 0.000000 0.043478 0.434783 0.000000 0.086957 0.913043 0.000000 0.000000 0.956522 0.043478 0.000000 0.956522 0.000000 0.000000 0.043478 0.260870 0.695652 0.043478 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGCWGCAC MEME-3 regular expression -------------------------------------------------------------------------------- GGC[AT]GCA[CA] -------------------------------------------------------------------------------- Time 20.64 secs. ******************************************************************************** ******************************************************************************** MOTIF CAACACTG MEME-4 width = 8 sites = 8 llr = 90 E-value = 1.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :a9:a::: pos.-specific C a::a:a:: probability G ::1::::a matrix T ::::::a: bits 2.5 * * * * 2.3 * * * * 2.0 * * * * 1.8 * * * * Relative 1.5 ** ***** Entropy 1.3 ******** (16.2 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CAACACTG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:8561592-8561712 89 1.02e-05 GGTCGTTAGC CAACACTG GCGAACATTA chr3L:20313541-20313661 60 1.02e-05 TTGCATTTCA CAACACTG GCATGAGTTA chr2L:1629723-1629843 83 1.02e-05 TTACGCAAGA CAACACTG CGTATGATTT chr3L:9435469-9435589 44 1.02e-05 AGGTGTTTTG CAACACTG GCGAGTCAGT chrX:5309105-5309225 99 1.02e-05 TGCAGTTTAA CAACACTG CCAAACACCG chrX:16782256-16782376 74 1.02e-05 ACTGGTGCTG CAACACTG GAAAAAAATG chr2R:18277169-18277289 38 1.02e-05 AGGGGATATA CAACACTG AAGTGGGCTT chr2R:24869961-24870081 63 1.55e-05 GTACCTTTTC CAGCACTG CAGCCAGAGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:8561592-8561712 1e-05 88_[+4]_24 chr3L:20313541-20313661 1e-05 59_[+4]_53 chr2L:1629723-1629843 1e-05 82_[+4]_30 chr3L:9435469-9435589 1e-05 43_[+4]_69 chrX:5309105-5309225 1e-05 98_[+4]_14 chrX:16782256-16782376 1e-05 73_[+4]_39 chr2R:18277169-18277289 1e-05 37_[+4]_75 chr2R:24869961-24870081 1.5e-05 62_[+4]_50 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAACACTG width=8 seqs=8 chrX:8561592-8561712 ( 89) CAACACTG 1 chr3L:20313541-20313661 ( 60) CAACACTG 1 chr2L:1629723-1629843 ( 83) CAACACTG 1 chr3L:9435469-9435589 ( 44) CAACACTG 1 chrX:5309105-5309225 ( 99) CAACACTG 1 chrX:16782256-16782376 ( 74) CAACACTG 1 chr2R:18277169-18277289 ( 38) CAACACTG 1 chr2R:24869961-24870081 ( 63) CAGCACTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.7856 E= 1.1e+004 -965 254 -965 -965 160 -965 -965 -965 140 -965 -46 -965 -965 254 -965 -965 160 -965 -965 -965 -965 254 -965 -965 -965 -965 -965 161 -965 -965 254 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 1.1e+004 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.875000 0.000000 0.125000 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAACACTG MEME-4 regular expression -------------------------------------------------------------------------------- CAACACTG -------------------------------------------------------------------------------- Time 26.86 secs. ******************************************************************************** ******************************************************************************** MOTIF TTDCAGTG MEME-5 width = 8 sites = 24 llr = 217 E-value = 1.6e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::3:a::: pos.-specific C :31a:::: probability G 2:3::a:a matrix T 874:::a: bits 2.5 * * * 2.3 * * * 2.0 * * * 1.8 * * * Relative 1.5 ***** Entropy 1.3 ***** (13.0 bits) 1.0 ** ***** 0.8 ** ***** 0.5 ** ***** 0.3 ** ***** 0.0 -------- Multilevel TTTCAGTG consensus GCA sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:1350588-1350708 38 1.01e-05 CTATCGGTAT TTGCAGTG CGATACCGAG chr3L:6264602-6264722 110 1.01e-05 AGACAAGTTA TTGCAGTG AAG chr3R:10560728-10560848 100 2.92e-05 TCTACATTTT TTTCAGTG TCCCAATTCA chr2R:13429265-13429385 17 2.92e-05 TATTCTAAGT TTTCAGTG CCGACTAAGT chr3L:13006593-13006713 67 2.92e-05 TATTTAATTT TTTCAGTG TGGTGTGTGA chr3L:3983542-3983662 91 2.92e-05 CCTTATGTTA TTTCAGTG ATTTAGGTTT chr2L:1629723-1629843 104 2.92e-05 ATGATTTCTT TTTCAGTG CGTTGATGT chrX:14602720-14602840 58 2.92e-05 ACTCTGAACA TTTCAGTG GGGAGTCAAC chr3R:28599609-28599729 103 2.92e-05 CCACATAGAT TTTCAGTG GAAACAAGTG chrX:18517543-18517663 50 2.92e-05 TAGTGCTGCG TTTCAGTG TGCAACGTTC chr2L:11417651-11417771 111 3.45e-05 GTATAGTTTT TCGCAGTG TA chrX:14839841-14839961 108 4.45e-05 TTCTGATTTT TCTCAGTG CAAGA chr3R:5413164-5413284 109 4.45e-05 AAGCAATTTC TCTCAGTG CACT chr3R:10203709-10203829 40 6.39e-05 TTATGTTTGC TTACAGTG CATCCGCCTG chr2L:17963186-17963306 11 6.39e-05 ATTTGTTTTT TTACAGTG TTAGTTCTAG chr2R:18140709-18140829 14 6.92e-05 TGGCAGCATT GTGCAGTG GGATTTAATC chr3R:11674113-11674233 87 6.92e-05 GGTTTTATGT GTGCAGTG GGAACAAGTT chr3L:21196724-21196844 8 6.92e-05 AATTTTA GTGCAGTG TATATGCTTC chr2L:11988028-11988148 35 8.94e-05 TAAATGCCAA TCACAGTG ATGCGCGCAC chrX:1370161-1370281 88 8.94e-05 ACAACTTCTT TCACAGTG TATTTAACTG chr3L:20395383-20395503 19 1.07e-04 TTGAATACAT TTCCAGTG CGGTTACATA chr2L:7033451-7033571 47 1.18e-04 TGCAGTGGGT GTACAGTG GGGTGCAAAA chrX:9349370-9349490 101 1.23e-04 GGGAGATTTC TCCCAGTG TAGTTGTAGT chr3L:16544344-16544464 56 1.28e-04 ACATGCATGA GCACAGTG AGTAATTAAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:1350588-1350708 1e-05 37_[+5]_75 chr3L:6264602-6264722 1e-05 109_[+5]_3 chr3R:10560728-10560848 2.9e-05 99_[+5]_13 chr2R:13429265-13429385 2.9e-05 16_[+5]_96 chr3L:13006593-13006713 2.9e-05 66_[+5]_46 chr3L:3983542-3983662 2.9e-05 90_[+5]_22 chr2L:1629723-1629843 2.9e-05 103_[+5]_9 chrX:14602720-14602840 2.9e-05 57_[+5]_55 chr3R:28599609-28599729 2.9e-05 102_[+5]_10 chrX:18517543-18517663 2.9e-05 49_[+5]_63 chr2L:11417651-11417771 3.4e-05 110_[+5]_2 chrX:14839841-14839961 4.4e-05 107_[+5]_5 chr3R:5413164-5413284 4.4e-05 108_[+5]_4 chr3R:10203709-10203829 6.4e-05 39_[+5]_73 chr2L:17963186-17963306 6.4e-05 10_[+5]_102 chr2R:18140709-18140829 6.9e-05 13_[+5]_99 chr3R:11674113-11674233 6.9e-05 86_[+5]_26 chr3L:21196724-21196844 6.9e-05 7_[+5]_105 chr2L:11988028-11988148 8.9e-05 34_[+5]_78 chrX:1370161-1370281 8.9e-05 87_[+5]_25 chr3L:20395383-20395503 0.00011 18_[+5]_94 chr2L:7033451-7033571 0.00012 46_[+5]_66 chrX:9349370-9349490 0.00012 100_[+5]_12 chr3L:16544344-16544464 0.00013 55_[+5]_57 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTDCAGTG width=8 seqs=24 chr3L:1350588-1350708 ( 38) TTGCAGTG 1 chr3L:6264602-6264722 ( 110) TTGCAGTG 1 chr3R:10560728-10560848 ( 100) TTTCAGTG 1 chr2R:13429265-13429385 ( 17) TTTCAGTG 1 chr3L:13006593-13006713 ( 67) TTTCAGTG 1 chr3L:3983542-3983662 ( 91) TTTCAGTG 1 chr2L:1629723-1629843 ( 104) TTTCAGTG 1 chrX:14602720-14602840 ( 58) TTTCAGTG 1 chr3R:28599609-28599729 ( 103) TTTCAGTG 1 chrX:18517543-18517663 ( 50) TTTCAGTG 1 chr2L:11417651-11417771 ( 111) TCGCAGTG 1 chrX:14839841-14839961 ( 108) TCTCAGTG 1 chr3R:5413164-5413284 ( 109) TCTCAGTG 1 chr3R:10203709-10203829 ( 40) TTACAGTG 1 chr2L:17963186-17963306 ( 11) TTACAGTG 1 chr2R:18140709-18140829 ( 14) GTGCAGTG 1 chr3R:11674113-11674233 ( 87) GTGCAGTG 1 chr3L:21196724-21196844 ( 8) GTGCAGTG 1 chr2L:11988028-11988148 ( 35) TCACAGTG 1 chrX:1370161-1370281 ( 88) TCACAGTG 1 chr3L:20395383-20395503 ( 19) TTCCAGTG 1 chr2L:7033451-7033571 ( 47) GTACAGTG 1 chrX:9349370-9349490 ( 101) TCCCAGTG 1 chr3L:16544344-16544464 ( 56) GCACAGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 11.3 E= 1.6e+004 -1123 -1123 28 128 -1123 77 -1123 112 -40 -104 54 35 -1123 254 -1123 -1123 160 -1123 -1123 -1123 -1123 -1123 254 -1123 -1123 -1123 -1123 161 -1123 -1123 254 -1123 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.6e+004 0.000000 0.000000 0.208333 0.791667 0.000000 0.291667 0.000000 0.708333 0.250000 0.083333 0.250000 0.416667 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTDCAGTG MEME-5 regular expression -------------------------------------------------------------------------------- [TG][TC][TAG]CAGTG -------------------------------------------------------------------------------- Time 33.08 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:18125809-18125929 7.89e-04 21_[+2(8.09e-05)]_13_[+3(5.54e-06)]_\ 70 chr2L:8554451-8554571 6.08e-01 120 chrX:3538884-3539004 9.92e-02 120 chr2L:15254386-15254506 1.00e+00 120 chrX:15653668-15653788 5.85e-04 29_[+2(1.71e-05)]_49_[+1(2.22e-05)]_\ 26 chr3R:21612966-21613086 7.99e-01 120 chr3R:24318527-24318647 5.28e-01 120 chr2L:1619313-1619433 8.92e-01 120 chr2L:1158196-1158316 6.52e-01 120 chr2R:16847139-16847259 3.92e-01 120 chr2R:16202891-16203011 1.38e-02 18_[+2(4.84e-05)]_94 chr3R:18215451-18215571 6.35e-02 11_[+3(1.77e-05)]_101 chr2L:838153-838273 8.43e-01 120 chr3R:26436660-26436780 8.98e-01 120 chrX:18517543-18517663 1.87e-06 29_[+1(7.74e-06)]_12_[+5(2.92e-05)]_\ 16_[+2(5.58e-06)]_39 chr3L:14172649-14172769 1.64e-01 120 chr3R:15347921-15348041 9.84e-01 120 chr2R:19310990-19311110 8.50e-01 120 chr3R:27289771-27289891 7.39e-01 120 chrX:10628988-10629108 9.88e-01 120 chrX:17175921-17176041 8.53e-03 65_[+1(3.73e-05)]_47 chr2R:20906674-20906794 3.50e-06 8_[+2(1.16e-05)]_63_[+1(4.21e-06)]_\ 33 chr3L:8604396-8604516 9.85e-01 120 chr2R:5122242-5122362 8.56e-01 120 chr3L:5604049-5604169 2.17e-01 120 chr3R:16769526-16769646 8.26e-01 120 chr3R:16748689-16748809 1.10e-05 42_[+1(4.21e-06)]_13_[+2(1.71e-05)]_\ 49 chr3R:11617530-11617650 9.52e-01 120 chr2L:4459713-4459833 7.37e-01 120 chr3R:5856389-5856509 6.22e-01 120 chr2R:14411664-14411784 2.11e-01 120 chr2L:11417651-11417771 2.49e-01 110_[+5(3.45e-05)]_2 chr3L:16571516-16571636 8.88e-01 120 chr3L:18357770-18357890 4.07e-01 120 chr3R:14741455-14741575 2.20e-02 21_[+1(1.73e-05)]_91 chr3L:10899325-10899445 1.19e-04 56_[+2(5.58e-06)]_56 chr3L:8748993-8749113 9.95e-04 31_[+1(1.44e-06)]_81 chr2R:7077019-7077139 1.74e-01 120 chr2R:24571709-24571829 5.50e-01 120 chr2L:14376963-14377083 9.00e-01 120 chr3L:6059211-6059331 3.81e-02 112_[+3(2.31e-05)] chr2L:493421-493541 9.26e-01 120 chr3R:28599609-28599729 1.10e-01 102_[+5(2.92e-05)]_10 chr3L:16054332-16054452 8.62e-01 120 chr2R:10122615-10122735 8.46e-01 120 chr3R:22260402-22260522 8.62e-04 61_[+2(2.56e-05)]_26_[+3(1.77e-05)]_\ 17 chr3L:6264602-6264722 1.82e-06 2_[+2(2.74e-06)]_45_[+1(2.36e-05)]_\ 46_[+5(1.01e-05)]_3 chr3R:13446625-13446745 7.24e-01 120 chr3R:5413164-5413284 1.63e-01 108_[+5(4.45e-05)]_4 chr2R:21910013-21910133 1.21e-01 35_[+3(3.40e-05)]_77 chr2L:295046-295166 4.06e-01 120 chr3R:14470743-14470863 7.89e-01 120 chr3L:16760379-16760499 7.06e-01 120 chrX:1349424-1349544 4.85e-02 120 chrX:17176673-17176793 3.29e-01 120 chr3L:745691-745811 8.13e-01 120 chr3L:7861169-7861289 9.96e-01 120 chr2L:1428467-1428587 1.00e+00 120 chr2L:7632890-7633010 3.78e-02 79_[+3(1.77e-05)]_33 chr2R:12772737-12772857 9.98e-01 120 chr2L:11338381-11338501 9.35e-01 120 chr3R:26235164-26235284 2.64e-01 120 chrX:10600655-10600775 8.56e-02 120 chr3R:4775459-4775579 8.26e-01 120 chr3R:9039648-9039768 8.21e-01 120 chrX:14602720-14602840 1.82e-03 57_[+5(2.92e-05)]_55 chr3R:27677202-27677322 5.17e-01 120 chr3L:12336434-12336554 3.36e-02 30_[+3(4.78e-05)]_82 chr2L:7702597-7702717 2.75e-01 120 chr3R:21850263-21850383 5.78e-01 120 chr3L:5152446-5152566 9.98e-01 120 chr3L:11429848-11429968 6.64e-01 120 chr2R:21535569-21535689 1.38e-04 33_[+1(1.44e-06)]_2_[+3(5.34e-05)]_\ 48_[+1(3.73e-05)]_13 chr3L:16544344-16544464 1.03e-01 120 chr2L:17963186-17963306 4.96e-02 10_[+5(6.39e-05)]_102 chr2R:18126011-18126131 2.64e-02 120 chr2L:3472396-3472516 3.21e-06 19_[+1(4.21e-06)]_44_[+2(4.17e-06)]_\ 5_[+2(4.07e-05)]_28 chr2R:25085540-25085660 4.64e-04 32_[+2(2.74e-06)]_80 chr3R:13078446-13078566 1.82e-02 43_[+2(1.16e-05)]_69 chr3R:23300726-23300846 7.59e-01 120 chr2R:14906663-14906783 9.67e-01 120 chr3R:21993050-21993170 8.53e-01 120 chr3L:5752300-5752420 3.14e-01 120 chr3L:13411160-13411280 1.76e-02 43_[+2(1.16e-05)]_69 chr2R:7241761-7241881 8.18e-01 120 chr2L:20881506-20881626 1.96e-01 120 chr3L:3770994-3771114 1.38e-01 120 chr3R:10203709-10203829 5.87e-04 39_[+5(6.39e-05)]_16_[+1(4.21e-06)]_\ 49 chr2R:16551979-16552099 9.63e-05 25_[+2(4.17e-06)]_87 chr3L:5813160-5813280 3.07e-01 120 chr2L:10856638-10856758 9.88e-01 120 chr2R:23652367-23652487 2.14e-05 19_[+2(2.74e-06)]_31_[+2(4.17e-06)]_\ 54 chr2R:14913174-14913294 8.04e-01 120 chr2R:14357274-14357394 4.36e-04 96_[+1(1.94e-05)]_16 chrX:2149666-2149786 2.51e-01 120 chr2L:11331772-11331892 8.47e-01 120 chr2L:11091269-11091389 6.29e-01 120 chr2R:18277169-18277289 2.32e-02 37_[+4(1.02e-05)]_75 chr3L:21196724-21196844 3.67e-02 7_[+5(6.92e-05)]_105 chrX:15583010-15583130 8.69e-01 120 chr3L:11074654-11074774 4.56e-01 120 chr2L:20950833-20950953 9.13e-02 25_[+3(1.77e-05)]_87 chrX:18635406-18635526 3.29e-04 48_[+1(4.21e-06)]_3_[+3(3.40e-05)]_\ 21_[+1(1.44e-06)]_24 chrX:1370161-1370281 2.93e-02 87_[+5(8.94e-05)]_25 chr3R:23679954-23680074 1.10e-05 15_[+2(2.74e-06)]_97 chrX:16782256-16782376 7.57e-05 73_[+4(1.02e-05)]_23_[+1(1.05e-05)]_\ 8 chr2R:10103815-10103935 7.80e-01 120 chrX:17751827-17751947 2.37e-04 99_[+1(1.19e-05)]_13 chrX:5309105-5309225 1.48e-02 98_[+4(1.02e-05)]_14 chr3L:554702-554822 1.00e+00 120 chr2L:14020902-14021022 9.78e-01 120 chrX:9137276-9137396 9.86e-01 120 chr2R:11809428-11809548 4.81e-01 120 chr3R:30413930-30414050 9.99e-01 120 chr2L:20715180-20715300 9.11e-01 120 chr2R:13999339-13999459 5.09e-01 120 chr3R:6818701-6818821 8.10e-01 120 chr4:406959-407079 1.76e-02 18_[+1(3.73e-05)]_49_[+1(1.19e-05)]_\ 37 chr3R:14357523-14357643 5.30e-01 120 chr2L:16310721-16310841 2.91e-04 38_[+3(2.79e-06)]_74 chrX:5883521-5883641 9.83e-04 65_[+3(1.77e-05)]_19_[+1(5.68e-05)]_\ 20 chr3R:26888439-26888559 3.72e-01 120 chr2R:11921150-11921270 9.39e-01 120 chr2L:7258233-7258353 7.29e-04 25_[+2(1.71e-05)]_46_[+2(2.74e-06)]_\ 33 chr3L:16806139-16806259 9.51e-01 120 chr3R:26937595-26937715 7.88e-01 120 chr2L:827572-827692 6.67e-01 120 chrX:20257369-20257489 6.41e-05 48_[+3(2.79e-06)]_64 chr2R:7916573-7916693 9.99e-01 120 chr3L:13923434-13923554 5.55e-01 120 chr3R:23028631-23028751 1.13e-01 60_[+3(3.40e-05)]_52 chr2L:19867151-19867271 1.00e+00 120 chr3L:1414169-1414289 4.50e-01 120 chr3R:5686481-5686601 3.80e-01 120 chr3L:18784690-18784810 1.72e-01 120 chr2R:16800178-16800298 4.05e-06 41_[+2(4.17e-06)]_25_[+1(3.73e-05)]_\ 30_[+1(1.44e-06)] chrX:5972173-5972293 5.62e-03 120 chr3L:10745722-10745842 4.51e-01 120 chr3R:16834794-16834914 3.52e-04 22_[+2(1.16e-05)]_43_[+2(2.74e-06)]_\ 39 chr2R:13923576-13923696 5.56e-01 120 chr3R:16919203-16919323 4.88e-06 21_[+2(4.17e-06)]_43_[+1(3.73e-05)]_\ 40 chr2L:1462174-1462294 2.66e-01 120 chr3L:699376-699496 7.96e-01 120 chr3L:7151923-7152043 8.72e-01 120 chr3L:9435469-9435589 8.44e-05 43_[+4(1.02e-05)]_7_[+1(7.74e-06)]_\ 54 chr2R:8913998-8914118 9.98e-04 99_[+3(2.79e-06)]_13 chr3L:17912559-17912679 4.60e-01 120 chr3R:24206889-24207009 8.46e-01 120 chr3R:26654705-26654825 6.06e-02 120 chr2L:15061489-15061609 9.31e-01 120 chr3L:12803767-12803887 1.00e+00 120 chr2L:1729702-1729822 9.86e-01 120 chr2L:1629723-1629843 8.38e-04 82_[+4(1.02e-05)]_13_[+5(2.92e-05)]_\ 9 chr3R:9791300-9791420 8.68e-01 120 chr2R:11095267-11095387 4.42e-01 120 chr2L:10356632-10356752 3.60e-01 120 chrX:13784617-13784737 9.79e-01 120 chrX:12463088-12463208 2.57e-01 120 chr3L:1350588-1350708 5.74e-03 37_[+5(1.01e-05)]_75 chr3L:21536944-21537064 9.13e-04 99_[+3(2.79e-06)]_13 chr3L:361360-361480 1.11e-01 120 chr3L:4379079-4379199 6.31e-01 120 chr3R:17002339-17002459 3.38e-02 46_[+2(1.71e-05)]_66 chr3L:3983542-3983662 8.57e-04 40_[+3(5.34e-05)]_42_[+5(2.92e-05)]_\ 22 chr3R:26542251-26542371 9.91e-01 120 chr2R:23176777-23176897 7.32e-01 120 chr2R:12605697-12605817 7.86e-01 120 chr2L:20097238-20097358 4.28e-01 120 chr3L:3665433-3665553 9.23e-01 120 chr3L:13006593-13006713 1.41e-01 66_[+5(2.92e-05)]_46 chr2L:4971504-4971624 4.58e-01 120 chr2L:11037941-11038061 2.60e-01 120 chr3R:15472788-15472908 9.81e-01 120 chr2L:21143058-21143178 1.54e-01 120 chr2R:16571757-16571877 8.77e-03 76_[+4(3.08e-05)]_36 chr3L:20395383-20395503 1.14e-01 120 chr3R:10882228-10882348 3.67e-01 120 chr2L:858206-858326 1.03e-02 21_[+3(2.87e-05)]_91 chr3R:11674113-11674233 2.26e-01 86_[+5(6.92e-05)]_26 chr2L:13073946-13074066 7.48e-02 66_[+1(4.26e-05)]_46 chr3R:5758970-5759090 7.26e-02 120 chr2L:7033451-7033571 1.65e-03 74_[+3(1.77e-05)]_38 chr3L:7356574-7356694 3.99e-02 120 chr3L:21509631-21509751 1.30e-01 120 chr3L:20313541-20313661 3.51e-04 59_[+4(1.02e-05)]_38_[+3(2.87e-05)]_\ 7 chr3L:20140767-20140887 9.83e-01 120 chr3R:21151545-21151665 9.94e-01 120 chrX:4010327-4010447 1.69e-01 120 chr2L:18666068-18666188 3.80e-02 120 chr2L:20093972-20094092 9.21e-01 120 chr2L:15248756-15248876 7.25e-01 120 chr2L:283267-283387 3.39e-03 35_[+1(5.68e-05)]_77 chrX:9356433-9356553 7.61e-01 120 chr3R:16991916-16992036 7.87e-01 120 chr3R:10564370-10564490 1.13e-01 120 chr3R:14283134-14283254 8.79e-02 14_[+3(4.23e-05)]_98 chr2R:18140709-18140829 1.67e-03 13_[+5(6.92e-05)]_99 chr2R:24869961-24870081 4.73e-02 62_[+4(1.55e-05)]_50 chr3R:29997770-29997890 5.08e-01 120 chr2R:13429265-13429385 1.96e-02 16_[+5(2.92e-05)]_96 chr2L:19335107-19335227 4.92e-01 120 chr2L:1150659-1150779 1.51e-03 41_[+1(2.92e-05)]_71 chr3L:16165775-16165895 9.83e-01 120 chr2R:6017619-6017739 5.00e-01 120 chr2R:18829770-18829890 1.89e-01 44_[+4(9.32e-05)]_68 chrX:20394222-20394342 1.57e-01 120 chrX:7015171-7015291 3.76e-03 79_[+1(2.92e-05)]_33 chr2L:14372416-14372536 4.38e-01 120 chr3R:25004871-25004991 5.47e-01 120 chr2L:5543135-5543255 4.04e-02 120 chrX:9349370-9349490 3.15e-01 120 chr3R:29591624-29591744 4.81e-02 120 chr3R:6468201-6468321 9.42e-01 120 chr3R:12718308-12718428 8.64e-01 120 chr3R:31064784-31064904 8.12e-01 120 chr3R:4387621-4387741 9.19e-01 120 chr3R:21218953-21219073 1.07e-01 57_[+3(3.95e-05)]_55 chr3L:11403703-11403823 3.33e-01 120 chr3R:5998466-5998586 9.26e-01 120 chrX:14839841-14839961 1.30e-01 107_[+5(4.45e-05)]_5 chr2L:16547802-16547922 8.95e-01 120 chr3R:10560728-10560848 2.85e-02 99_[+5(2.92e-05)]_13 chr2L:20681902-20682022 2.60e-01 120 chr2L:15751137-15751257 2.57e-01 120 chr3R:24574219-24574339 9.85e-01 120 chr2L:11988028-11988148 2.27e-02 34_[+5(8.94e-05)]_78 chr3R:17401486-17401606 3.17e-01 120 chr2R:9440388-9440508 8.04e-01 120 chr2R:13926306-13926426 9.48e-01 120 chr2L:21787103-21787223 3.64e-01 120 chr2L:1108407-1108527 8.51e-01 120 chr3R:4220877-4220997 1.38e-03 72_[+2(2.83e-05)]_40 chr3L:18786830-18786950 9.83e-01 120 chr2L:9503232-9503352 9.38e-01 120 chr2L:522861-522981 8.77e-01 120 chrX:14765961-14766081 8.60e-01 120 chr2L:6968296-6968416 5.88e-01 120 chr2R:18971176-18971296 1.55e-01 120 chr2L:20650023-20650143 8.77e-01 120 chrX:12578753-12578873 2.03e-01 107_[+2(4.84e-05)]_5 chr3R:26052422-26052542 9.56e-01 120 chr3L:18226159-18226279 4.20e-03 100_[+3(8.56e-05)]_12 chrX:15599806-15599926 8.26e-02 120 chr3R:21671781-21671901 2.74e-01 120 chr2L:4847343-4847463 1.57e-01 120 chr3L:9367009-9367129 2.28e-01 120 chr3R:23709700-23709820 4.31e-01 120 chrX:8561592-8561712 5.68e-03 88_[+4(1.02e-05)]_24 chr2L:18921387-18921507 9.90e-01 120 chr2R:24748888-24749008 1.21e-01 120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c23n01.farnam.hpc.yale.internal ********************************************************************************