******************************************************************************** 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/worm/fasta/RankLinear2.0_40/pax-3.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrIII:3569864-3569944 1.0000 80 chrIII:3564921-3565001 1.0000 80 chrV:12565098-12565178 1.0000 80 chrV:13229707-13229787 1.0000 80 chrV:13072447-13072527 1.0000 80 chrV:12427996-12428076 1.0000 80 chrV:12581617-12581697 1.0000 80 chrV:15303883-15303963 1.0000 80 chrV:15306913-15306993 1.0000 80 chrIII:3567230-3567310 1.0000 80 chrX:17146729-17146809 1.0000 80 chrIII:3563918-3563998 1.0000 80 chrIV:3252200-3252280 1.0000 80 chrIII:8988215-8988295 1.0000 80 chrV:13299523-13299603 1.0000 80 chrV:12586951-12587031 1.0000 80 chrV:12567483-12567563 1.0000 80 chrV:12786511-12786591 1.0000 80 chrIV:639294-639374 1.0000 80 chrIV:10719009-10719089 1.0000 80 chrV:13993685-13993765 1.0000 80 chrV:13992648-13992728 1.0000 80 chrX:13182178-13182258 1.0000 80 chrIII:7832668-7832748 1.0000 80 chrX:14185783-14185863 1.0000 80 chrII:334962-335042 1.0000 80 chrIV:17463356-17463436 1.0000 80 chrII:7146373-7146453 1.0000 80 chrV:13265782-13265862 1.0000 80 chrV:12520425-12520505 1.0000 80 chrV:15427324-15427404 1.0000 80 chrV:12641270-12641350 1.0000 80 chrX:1901641-1901721 1.0000 80 chrV:1410880-1410960 1.0000 80 chrX:15034967-15035047 1.0000 80 chrII:5775056-5775136 1.0000 80 chrV:13075569-13075649 1.0000 80 chrV:14532548-14532628 1.0000 80 chrV:4233434-4233514 1.0000 80 chrX:2854132-2854212 1.0000 80 chrIV:9469444-9469524 1.0000 80 chrIII:3571623-3571703 1.0000 80 chrIV:7300494-7300574 1.0000 80 chrIII:3572718-3572798 1.0000 80 chrX:2064843-2064923 1.0000 80 chrIII:3565122-3565202 1.0000 80 chrX:3416236-3416316 1.0000 80 chrII:13697862-13697942 1.0000 80 chrIII:7837707-7837787 1.0000 80 chrI:10754561-10754641 1.0000 80 chrII:8397819-8397899 1.0000 80 chrII:14745273-14745353 1.0000 80 chrX:16650721-16650801 1.0000 80 chrII:10408779-10408859 1.0000 80 chrIII:482889-482969 1.0000 80 chrIII:11677468-11677548 1.0000 80 chrIII:6654107-6654187 1.0000 80 chrX:14182667-14182747 1.0000 80 chrI:4702512-4702592 1.0000 80 chrI:5311113-5311193 1.0000 80 chrIII:3568680-3568760 1.0000 80 chrIV:5284999-5285079 1.0000 80 chrV:11727640-11727720 1.0000 80 chrV:10241258-10241338 1.0000 80 chrII:7283206-7283286 1.0000 80 chrX:4657709-4657789 1.0000 80 chrV:13076544-13076624 1.0000 80 chrIV:5595706-5595786 1.0000 80 chrIV:8587706-8587786 1.0000 80 chrV:15685784-15685864 1.0000 80 chrV:12784965-12785045 1.0000 80 chrV:9465665-9465745 1.0000 80 chrX:7128799-7128879 1.0000 80 chrV:12365475-12365555 1.0000 80 chrV:12570440-12570520 1.0000 80 chrIII:4452555-4452635 1.0000 80 chrII:12488976-12489056 1.0000 80 chrIV:10253357-10253437 1.0000 80 chrIII:7835815-7835895 1.0000 80 chrX:15655778-15655858 1.0000 80 chrV:4681678-4681758 1.0000 80 chrII:13233896-13233976 1.0000 80 chrIII:9162735-9162815 1.0000 80 chrIV:16221990-16222070 1.0000 80 chrV:5362339-5362419 1.0000 80 chrV:14720531-14720611 1.0000 80 chrII:5327066-5327146 1.0000 80 chrV:8342572-8342652 1.0000 80 chrV:12037922-12038002 1.0000 80 chrIII:7839055-7839135 1.0000 80 chrX:5027629-5027709 1.0000 80 chrV:12390886-12390966 1.0000 80 chrIII:5500853-5500933 1.0000 80 chrV:9272811-9272891 1.0000 80 chrX:8609472-8609552 1.0000 80 chrV:15305681-15305761 1.0000 80 chrV:10862890-10862970 1.0000 80 chrV:13268233-13268313 1.0000 80 chrV:15298732-15298812 1.0000 80 chrII:4505392-4505472 1.0000 80 chrX:10761015-10761095 1.0000 80 chrIII:4220974-4221054 1.0000 80 chrV:3042621-3042701 1.0000 80 chrV:404407-404487 1.0000 80 chrIII:11669208-11669288 1.0000 80 chrI:3989850-3989930 1.0000 80 chrV:5704679-5704759 1.0000 80 chrI:9860307-9860387 1.0000 80 chrX:17356932-17357012 1.0000 80 chrV:14427240-14427320 1.0000 80 chrIII:7834944-7835024 1.0000 80 chrII:4114213-4114293 1.0000 80 chrX:1897099-1897179 1.0000 80 chrX:12524715-12524795 1.0000 80 chrV:14317749-14317829 1.0000 80 chrIII:9658733-9658813 1.0000 80 chrIII:10601047-10601127 1.0000 80 chrV:15290762-15290842 1.0000 80 chrV:13656993-13657073 1.0000 80 chrV:13371903-13371983 1.0000 80 chrIV:3833943-3834023 1.0000 80 chrIV:4611923-4612003 1.0000 80 chrI:9705685-9705765 1.0000 80 chrIII:3573575-3573655 1.0000 80 chrIV:5281625-5281705 1.0000 80 chrX:4117471-4117551 1.0000 80 chrX:9293777-9293857 1.0000 80 chrIV:3250269-3250349 1.0000 80 chrX:8969236-8969316 1.0000 80 chrV:15431776-15431856 1.0000 80 chrV:14129066-14129146 1.0000 80 chrI:6715618-6715698 1.0000 80 chrII:7827894-7827974 1.0000 80 chrV:15305922-15306002 1.0000 80 chrII:12669031-12669111 1.0000 80 chrI:6434570-6434650 1.0000 80 chrIV:10433142-10433222 1.0000 80 chrV:9186191-9186271 1.0000 80 chrX:13177483-13177563 1.0000 80 chrX:625450-625530 1.0000 80 chrV:747995-748075 1.0000 80 chrX:15800173-15800253 1.0000 80 chrV:12644472-12644552 1.0000 80 chrIV:4954002-4954082 1.0000 80 chrV:15318793-15318873 1.0000 80 chrV:13259654-13259734 1.0000 80 chrIV:1843784-1843864 1.0000 80 chrII:5896627-5896707 1.0000 80 chrI:14949297-14949377 1.0000 80 chrIII:1922703-1922783 1.0000 80 chrIV:7937148-7937228 1.0000 80 chrX:17515636-17515716 1.0000 80 chrX:626700-626780 1.0000 80 chrV:12258935-12259015 1.0000 80 chrV:9485664-9485744 1.0000 80 chrV:12395888-12395968 1.0000 80 chrII:147033-147113 1.0000 80 chrX:5151630-5151710 1.0000 80 chrV:13274692-13274772 1.0000 80 chrIV:5908204-5908284 1.0000 80 chrV:13235472-13235552 1.0000 80 chrIII:5332889-5332969 1.0000 80 chrX:2596784-2596864 1.0000 80 chrV:9474025-9474105 1.0000 80 chrX:7702602-7702682 1.0000 80 chrX:9928181-9928261 1.0000 80 chrX:9662721-9662801 1.0000 80 chrIV:6388691-6388771 1.0000 80 chrX:13838189-13838269 1.0000 80 chrV:5736620-5736700 1.0000 80 chrV:284132-284212 1.0000 80 chrX:2827893-2827973 1.0000 80 chrI:9852650-9852730 1.0000 80 chrII:8795400-8795480 1.0000 80 chrV:12153190-12153270 1.0000 80 chrII:9010473-9010553 1.0000 80 chrV:9260604-9260684 1.0000 80 chrV:11636176-11636256 1.0000 80 chrV:4456869-4456949 1.0000 80 chrV:14489986-14490066 1.0000 80 chrI:6392460-6392540 1.0000 80 chrIV:10161884-10161964 1.0000 80 chrII:5329161-5329241 1.0000 80 chrIV:5904171-5904251 1.0000 80 chrI:2571175-2571255 1.0000 80 chrV:20419789-20419869 1.0000 80 chrV:13395243-13395323 1.0000 80 chrX:2604767-2604847 1.0000 80 chrV:3640003-3640083 1.0000 80 chrX:12200636-12200716 1.0000 80 chrX:11612163-11612243 1.0000 80 chrV:11870194-11870274 1.0000 80 chrII:3786711-3786791 1.0000 80 chrIII:5755375-5755455 1.0000 80 chrIV:4613707-4613787 1.0000 80 chrV:13763868-13763948 1.0000 80 chrII:5067094-5067174 1.0000 80 chrIV:17399479-17399559 1.0000 80 chrX:12545273-12545353 1.0000 80 chrV:13255100-13255180 1.0000 80 chrIV:11450902-11450982 1.0000 80 chrII:4163865-4163945 1.0000 80 chrV:13269404-13269484 1.0000 80 chrV:13484737-13484817 1.0000 80 chrX:14793334-14793414 1.0000 80 chrII:6745926-6746006 1.0000 80 chrV:13212720-13212800 1.0000 80 chrIV:9520847-9520927 1.0000 80 chrIV:14621280-14621360 1.0000 80 chrV:15337450-15337530 1.0000 80 chrIII:7831217-7831297 1.0000 80 chrI:9093180-9093260 1.0000 80 chrII:915373-915453 1.0000 80 chrV:10929516-10929596 1.0000 80 chrIII:12615976-12616056 1.0000 80 chrV:4853430-4853510 1.0000 80 chrIV:6514881-6514961 1.0000 80 chrIV:5290087-5290167 1.0000 80 chrIV:648544-648624 1.0000 80 chrI:7657740-7657820 1.0000 80 chrIII:10903391-10903471 1.0000 80 chrIV:3246981-3247061 1.0000 80 chrI:11939051-11939131 1.0000 80 chrX:5559578-5559658 1.0000 80 chrV:13908787-13908867 1.0000 80 chrX:6986185-6986265 1.0000 80 chrV:9795133-9795213 1.0000 80 chrIII:4500838-4500918 1.0000 80 chrV:3870550-3870630 1.0000 80 chrII:4485737-4485817 1.0000 80 chrIII:790759-790839 1.0000 80 chrII:14941210-14941290 1.0000 80 chrV:12394339-12394419 1.0000 80 chrIV:16658891-16658971 1.0000 80 chrII:5335597-5335677 1.0000 80 chrX:14562446-14562526 1.0000 80 chrII:9117911-9117991 1.0000 80 chrI:7209977-7210057 1.0000 80 chrV:12306904-12306984 1.0000 80 chrIV:8143025-8143105 1.0000 80 chrI:3720754-3720834 1.0000 80 chrV:13262878-13262958 1.0000 80 chrIV:11451919-11451999 1.0000 80 chrV:14423456-14423536 1.0000 80 chrIV:8127647-8127727 1.0000 80 chrV:12819293-12819373 1.0000 80 chrV:6627652-6627732 1.0000 80 chrV:7023228-7023308 1.0000 80 chrV:13298577-13298657 1.0000 80 chrIV:643666-643746 1.0000 80 ******************************************************************************** ******************************************************************************** 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/worm/inference_raw/MEME/RankLinear2.0_40_pax-3/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/pax-3.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= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.308 C 0.187 G 0.187 T 0.318 Background letter frequencies (from file dataset with add-one prior applied): A 0.308 C 0.187 G 0.187 T 0.318 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF RGATTAKY MEME-1 width = 8 sites = 32 llr = 263 E-value = 5.1e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 Description -------------------------------------------------------------------------------- Simplified A 4:a::a:: pos.-specific C :::::::4 probability G 6a::::52 matrix T :::aa:54 bits 2.4 * 2.2 * 1.9 * 1.7 ***** Relative 1.5 ***** Entropy 1.2 ****** (11.9 bits) 1.0 ******* 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGATTATC consensus A GT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:790759-790839 43 3.17e-05 AAAATTGAGC GGATTATC CATATTCTAT chrX:5559578-5559658 56 3.17e-05 TATCGAATCT GGATTATC ACTCCGTATG chrIII:9658733-9658813 22 3.17e-05 ACACCAAATC GGATTATC TTGAATGGAT chrIII:9162735-9162815 2 3.17e-05 A GGATTATC GGGTGGTGTG chrIII:3568680-3568760 1 3.17e-05 . GGATTATC TTGAAGAAAC chrV:12520425-12520505 63 3.17e-05 AGATGTAAAA GGATTATC TACGTCAAAA chrIV:3252200-3252280 27 3.17e-05 TGAGATGGGG GGATTATC CGGAAAAGAT chrIII:3569864-3569944 38 3.17e-05 TCAACAAAAG GGATTATC CAAATTGTTG chrX:12545273-12545353 12 7.09e-05 TTATCTGATT GGATTAGT TGAGGAAAAG chrX:8969236-8969316 12 7.09e-05 TTTGTTGGTA AGATTAGC GAATCAATCG chrX:7128799-7128879 14 7.09e-05 GGAATAAATC GGATTAGT TGTCATGGAA chrI:5311113-5311193 16 7.09e-05 GCACAGGACC GGATTAGT CTATATATTC chrX:15034967-15035047 36 7.09e-05 TAATTGAGGG GGATTAGT TAGTCAGATC chrX:1901641-1901721 11 7.09e-05 TTTCAAGACC GGATTAGT CACAAAACAC chrIII:7832668-7832748 41 7.09e-05 AAAGGACACT GGATTAGT CGAACGGATT chrX:13182178-13182258 6 7.09e-05 ATTGC AGATTAGC GAGTTTCTGC chrIV:10719009-10719089 33 7.09e-05 TTTGAAGTAC AGATTAGC ACAGGGTATC chrIV:5290087-5290167 56 8.27e-05 CATAGATGAG GGATTAGG TGAACATATT chrII:7827894-7827974 52 8.27e-05 AATGACAAAA GGATTAGG AGTATCAGCC chrII:14941210-14941290 7 1.49e-04 CCGAGC AGATTATC TCAAAATTTT chrIV:7937148-7937228 49 1.49e-04 GCTGTGAAAG AGATTATC ATTCGTGCTG chrX:14182667-14182747 43 1.49e-04 AAAGAAAATG AGATTATC AATAATAAAA chrII:5327066-5327146 69 1.69e-04 TTTTCATAGC GGATTATG ATGC chrII:7283206-7283286 17 1.69e-04 TTGGTGTATT GGATTATG GCATAATAAA chrX:9662721-9662801 67 2.02e-04 GGTGGAAAGA AGATTAGT GAGCTT chrX:5151630-5151710 23 2.02e-04 CGCTGTGAAA AGATTAGT GAAGAAAAAA chrIV:1843784-1843864 4 2.02e-04 CCG AGATTAGT AGATTTGTAT chrV:10241258-10241338 69 2.02e-04 GATTAACTCG AGATTAGT TTCA chrII:6745926-6746006 69 2.77e-04 GTAGCAGGTG AGATTATT TTCA chrV:13993685-13993765 37 2.77e-04 TAATCCGATT AGATTATT CCATTTGTAG chrII:4505392-4505472 57 3.10e-04 GGGGATTTGG AGATTATG TGACATCACA chrV:13229707-13229787 52 3.10e-04 TTATATCATA AGATTATG TTTAGGTTAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:790759-790839 3.2e-05 42_[+1]_30 chrX:5559578-5559658 3.2e-05 55_[+1]_17 chrIII:9658733-9658813 3.2e-05 21_[+1]_51 chrIII:9162735-9162815 3.2e-05 1_[+1]_71 chrIII:3568680-3568760 3.2e-05 [+1]_72 chrV:12520425-12520505 3.2e-05 62_[+1]_10 chrIV:3252200-3252280 3.2e-05 26_[+1]_46 chrIII:3569864-3569944 3.2e-05 37_[+1]_35 chrX:12545273-12545353 7.1e-05 11_[+1]_61 chrX:8969236-8969316 7.1e-05 11_[+1]_61 chrX:7128799-7128879 7.1e-05 13_[+1]_59 chrI:5311113-5311193 7.1e-05 15_[+1]_57 chrX:15034967-15035047 7.1e-05 35_[+1]_37 chrX:1901641-1901721 7.1e-05 10_[+1]_62 chrIII:7832668-7832748 7.1e-05 40_[+1]_32 chrX:13182178-13182258 7.1e-05 5_[+1]_67 chrIV:10719009-10719089 7.1e-05 32_[+1]_40 chrIV:5290087-5290167 8.3e-05 55_[+1]_17 chrII:7827894-7827974 8.3e-05 51_[+1]_21 chrII:14941210-14941290 0.00015 6_[+1]_66 chrIV:7937148-7937228 0.00015 48_[+1]_24 chrX:14182667-14182747 0.00015 42_[+1]_30 chrII:5327066-5327146 0.00017 68_[+1]_4 chrII:7283206-7283286 0.00017 16_[+1]_56 chrX:9662721-9662801 0.0002 66_[+1]_6 chrX:5151630-5151710 0.0002 22_[+1]_50 chrIV:1843784-1843864 0.0002 3_[+1]_69 chrV:10241258-10241338 0.0002 68_[+1]_4 chrII:6745926-6746006 0.00028 68_[+1]_4 chrV:13993685-13993765 0.00028 36_[+1]_36 chrII:4505392-4505472 0.00031 56_[+1]_16 chrV:13229707-13229787 0.00031 51_[+1]_21 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RGATTAKY width=8 seqs=32 chrIII:790759-790839 ( 43) GGATTATC 1 chrX:5559578-5559658 ( 56) GGATTATC 1 chrIII:9658733-9658813 ( 22) GGATTATC 1 chrIII:9162735-9162815 ( 2) GGATTATC 1 chrIII:3568680-3568760 ( 1) GGATTATC 1 chrV:12520425-12520505 ( 63) GGATTATC 1 chrIV:3252200-3252280 ( 27) GGATTATC 1 chrIII:3569864-3569944 ( 38) GGATTATC 1 chrX:12545273-12545353 ( 12) GGATTAGT 1 chrX:8969236-8969316 ( 12) AGATTAGC 1 chrX:7128799-7128879 ( 14) GGATTAGT 1 chrI:5311113-5311193 ( 16) GGATTAGT 1 chrX:15034967-15035047 ( 36) GGATTAGT 1 chrX:1901641-1901721 ( 11) GGATTAGT 1 chrIII:7832668-7832748 ( 41) GGATTAGT 1 chrX:13182178-13182258 ( 6) AGATTAGC 1 chrIV:10719009-10719089 ( 33) AGATTAGC 1 chrIV:5290087-5290167 ( 56) GGATTAGG 1 chrII:7827894-7827974 ( 52) GGATTAGG 1 chrII:14941210-14941290 ( 7) AGATTATC 1 chrIV:7937148-7937228 ( 49) AGATTATC 1 chrX:14182667-14182747 ( 43) AGATTATC 1 chrII:5327066-5327146 ( 69) GGATTATG 1 chrII:7283206-7283286 ( 17) GGATTATG 1 chrX:9662721-9662801 ( 67) AGATTAGT 1 chrX:5151630-5151710 ( 23) AGATTAGT 1 chrIV:1843784-1843864 ( 4) AGATTAGT 1 chrV:10241258-10241338 ( 69) AGATTAGT 1 chrII:6745926-6746006 ( 69) AGATTATT 1 chrV:13993685-13993765 ( 37) AGATTATT 1 chrII:4505392-4505472 ( 57) AGATTATG 1 chrV:13229707-13229787 ( 52) AGATTATG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.4765 E= 5.1e+002 50 -1164 159 -1164 -1164 -1164 242 -1164 170 -1164 -1164 -1164 -1164 -1164 -1164 165 -1164 -1164 -1164 165 170 -1164 -1164 -1164 -1164 -1164 133 74 -1164 123 0 24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 5.1e+002 0.437500 0.000000 0.562500 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.468750 0.531250 0.000000 0.437500 0.187500 0.375000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RGATTAKY MEME-1 regular expression -------------------------------------------------------------------------------- [GA]GATTA[TG][CT] -------------------------------------------------------------------------------- Time 8.41 secs. ******************************************************************************** ******************************************************************************** MOTIF WGTTKTKG MEME-2 width = 8 sites = 26 llr = 225 E-value = 3.2e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 Description -------------------------------------------------------------------------------- Simplified A 3::::::: pos.-specific C :::::::: probability G :a::3:4a matrix T 7:aa7a6: bits 2.4 * * 2.2 * * 1.9 * * 1.7 *** * * Relative 1.5 *** * * Entropy 1.2 *** * * (12.5 bits) 1.0 ******* 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGTTTTTG consensus A G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:17399479-17399559 16 2.13e-05 CAAAATTTAA TGTTTTGG AAATTTGTAA chrII:9010473-9010553 73 2.13e-05 AAAATCTGTG TGTTTTGG chrIV:6388691-6388771 14 2.13e-05 AGATTTGCGA TGTTTTGG AGACTATGAA chrIV:17463356-17463436 30 2.13e-05 CTTTATGCTA TGTTTTGG CTCTCCTTCT chrX:14562446-14562526 5 6.99e-05 CCAA TGTTGTGG ATCACAAGGT chrV:12258935-12259015 64 6.99e-05 GGTGTCGAAA TGTTGTGG GCTTTCATC chrX:17515636-17515716 2 6.99e-05 G TGTTGTGG TTTTTTGAAC chrI:9705685-9705765 39 6.99e-05 TCATCCAAAG TGTTTTTG TGCCAGAAAT chrV:14317749-14317829 20 6.99e-05 CAAAATTAAT TGTTTTTG AGTTAACGGG chrX:15655778-15655858 53 6.99e-05 AAATATCATG TGTTTTTG TAGGAATTAC chrII:8397819-8397899 61 6.99e-05 TACTAAAGAT TGTTGTGG TGAATATCAT chrV:4233434-4233514 30 6.99e-05 ATCTCCCGCA TGTTTTTG CGCTTTTGAT chrIV:10719009-10719089 19 6.99e-05 AATCATAATC TGTTTTTG AAGTACAGAT chrV:14489986-14490066 45 9.12e-05 AAATGACAGG tgttgttg gtgagataat chrI:9852650-9852730 20 9.12e-05 CGAAGCGAAA TGTTGTTG CTCGGGGCGA chrX:8969236-8969316 50 9.12e-05 ATCCATTTTT TGTTGTTG TTATTTTATC chrV:13299523-13299603 9 9.12e-05 AAGATTTT TGTTGTTG AGGGTTCTCT chrI:2571175-2571255 6 1.12e-04 CGGGA AGTTTTGG ACGTGAACTT chrIV:11451919-11451999 30 1.59e-04 CACGTGCTCA AGTTTTTG AAACGGAGAT chrI:7657740-7657820 43 1.59e-04 CAGATTCATT AGTTTTTG TTTTCCGGCA chrIV:5290087-5290167 35 1.59e-04 CTAATCCAAT AGTTTTTG TGCCATAGAT chrV:13484737-13484817 68 1.59e-04 TATTATACAT AGTTTTTG GAAAA chrX:15800173-15800253 55 1.59e-04 CAGAGACCCT AGTTTTTG GAATTCGCAA chrIV:16221990-16222070 39 1.59e-04 AAAAACCAAG AGTTTTTG GAAAAGATGT chrIII:3572718-3572798 17 1.59e-04 CTTTTGCATT AGTTTTTG CGTAGCACCC chrV:13075569-13075649 14 1.59e-04 ACCGCATGGC AGTTGTGG AGGCTCCAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:17399479-17399559 2.1e-05 15_[+2]_57 chrII:9010473-9010553 2.1e-05 72_[+2] chrIV:6388691-6388771 2.1e-05 13_[+2]_59 chrIV:17463356-17463436 2.1e-05 29_[+2]_43 chrX:14562446-14562526 7e-05 4_[+2]_68 chrV:12258935-12259015 7e-05 63_[+2]_9 chrX:17515636-17515716 7e-05 1_[+2]_71 chrI:9705685-9705765 7e-05 38_[+2]_34 chrV:14317749-14317829 7e-05 19_[+2]_53 chrX:15655778-15655858 7e-05 52_[+2]_20 chrII:8397819-8397899 7e-05 60_[+2]_12 chrV:4233434-4233514 7e-05 29_[+2]_43 chrIV:10719009-10719089 7e-05 18_[+2]_54 chrV:14489986-14490066 9.1e-05 44_[+2]_28 chrI:9852650-9852730 9.1e-05 19_[+2]_53 chrX:8969236-8969316 9.1e-05 49_[+2]_23 chrV:13299523-13299603 9.1e-05 8_[+2]_64 chrI:2571175-2571255 0.00011 5_[+2]_67 chrIV:11451919-11451999 0.00016 29_[+2]_43 chrI:7657740-7657820 0.00016 42_[+2]_30 chrIV:5290087-5290167 0.00016 34_[+2]_38 chrV:13484737-13484817 0.00016 67_[+2]_5 chrX:15800173-15800253 0.00016 54_[+2]_18 chrIV:16221990-16222070 0.00016 38_[+2]_34 chrIII:3572718-3572798 0.00016 16_[+2]_56 chrV:13075569-13075649 0.00016 13_[+2]_59 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF WGTTKTKG width=8 seqs=26 chrIV:17399479-17399559 ( 16) TGTTTTGG 1 chrII:9010473-9010553 ( 73) TGTTTTGG 1 chrIV:6388691-6388771 ( 14) TGTTTTGG 1 chrIV:17463356-17463436 ( 30) TGTTTTGG 1 chrX:14562446-14562526 ( 5) TGTTGTGG 1 chrV:12258935-12259015 ( 64) TGTTGTGG 1 chrX:17515636-17515716 ( 2) TGTTGTGG 1 chrI:9705685-9705765 ( 39) TGTTTTTG 1 chrV:14317749-14317829 ( 20) TGTTTTTG 1 chrX:15655778-15655858 ( 53) TGTTTTTG 1 chrII:8397819-8397899 ( 61) TGTTGTGG 1 chrV:4233434-4233514 ( 30) TGTTTTTG 1 chrIV:10719009-10719089 ( 19) TGTTTTTG 1 chrV:14489986-14490066 ( 45) TGTTGTTG 1 chrI:9852650-9852730 ( 20) TGTTGTTG 1 chrX:8969236-8969316 ( 50) TGTTGTTG 1 chrV:13299523-13299603 ( 9) TGTTGTTG 1 chrI:2571175-2571255 ( 6) AGTTTTGG 1 chrIV:11451919-11451999 ( 30) AGTTTTTG 1 chrI:7657740-7657820 ( 43) AGTTTTTG 1 chrIV:5290087-5290167 ( 35) AGTTTTTG 1 chrV:13484737-13484817 ( 68) AGTTTTTG 1 chrX:15800173-15800253 ( 55) AGTTTTTG 1 chrIV:16221990-16222070 ( 39) AGTTTTTG 1 chrIII:3572718-3572798 ( 17) AGTTTTTG 1 chrV:13075569-13075649 ( 14) AGTTGTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.98426 E= 3.2e+002 17 -1134 -1134 104 -1134 -1134 242 -1134 -1134 -1134 -1134 165 -1134 -1134 -1134 165 -1134 -1134 89 104 -1134 -1134 -1134 165 -1134 -1134 104 95 -1134 -1134 242 -1134 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.2e+002 0.346154 0.000000 0.000000 0.653846 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.346154 0.653846 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.384615 0.615385 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WGTTKTKG MEME-2 regular expression -------------------------------------------------------------------------------- [TA]GTT[TG]T[TG]G -------------------------------------------------------------------------------- Time 12.17 secs. ******************************************************************************** ******************************************************************************** MOTIF SATAATCC MEME-3 width = 8 sites = 17 llr = 158 E-value = 4.8e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :6:aa::: pos.-specific C 62::::aa probability G 4::::::: matrix T :2a::a:: bits 2.4 ** 2.2 ** 1.9 ** 1.7 ****** Relative 1.5 * ****** Entropy 1.2 * ****** (13.4 bits) 1.0 * ****** 0.7 * ****** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CATAATCC consensus GT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:2604767-2604847 42 1.93e-05 GCTGCTCTTC CATAATCC AGGTAGGATT chrII:8795400-8795480 31 1.93e-05 CCTAGAATCA CATAATCC AAACAAGATA chrX:5151630-5151710 6 1.93e-05 AATTT CATAATCC GCTGTGAAAA chrIII:10601047-10601127 11 1.93e-05 CATTTCCGTG CATAATCC GATTCCAATA chrIII:7839055-7839135 42 1.93e-05 ATTCATCTTT CATAATCC GATTAGCAAT chrV:12567483-12567563 41 1.93e-05 ATTACCAAAC CATAATCC TTTAATCTGG chrV:12427996-12428076 66 1.93e-05 ACATCATAAT CATAATCC TCTTGAA chrIV:643666-643746 14 3.86e-05 AAGATTTCGT GATAATCC ATGTGGGTGG chrV:13656993-13657073 16 3.86e-05 TGGTGGCATC GATAATCC CTTAGCAAAA chrIII:7837707-7837787 58 3.86e-05 GCTCAATCCG GATAATCC TCTCACTCCC chrIII:8988215-8988295 16 5.04e-05 TTTTCGTTTT CCTAATCC CTTCTTGGTA chrX:6986185-6986265 44 7.03e-05 AAATCCTTTT CTTAATCC TCTTTCGACC chrV:13993685-13993765 25 7.03e-05 GCTTTCCATT CTTAATCC GATTAGATTA chrV:4853430-4853510 17 8.21e-05 ATCTCTTATA GCTAATCC CCACAATCCC chrX:12524715-12524795 43 8.21e-05 ATCCAATAAG GCTAATCC GTGACAGGAA chrX:14793334-14793414 41 1.02e-04 CCAAAAAAAT GTTAATCC GATTGTCTAA chrIV:4613707-4613787 64 1.02e-04 GAAAATTTGT GTTAATCC AATATGGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:2604767-2604847 1.9e-05 41_[+3]_31 chrII:8795400-8795480 1.9e-05 30_[+3]_42 chrX:5151630-5151710 1.9e-05 5_[+3]_67 chrIII:10601047-10601127 1.9e-05 10_[+3]_62 chrIII:7839055-7839135 1.9e-05 41_[+3]_31 chrV:12567483-12567563 1.9e-05 40_[+3]_32 chrV:12427996-12428076 1.9e-05 65_[+3]_7 chrIV:643666-643746 3.9e-05 13_[+3]_59 chrV:13656993-13657073 3.9e-05 15_[+3]_57 chrIII:7837707-7837787 3.9e-05 57_[+3]_15 chrIII:8988215-8988295 5e-05 15_[+3]_57 chrX:6986185-6986265 7e-05 43_[+3]_29 chrV:13993685-13993765 7e-05 24_[+3]_48 chrV:4853430-4853510 8.2e-05 16_[+3]_56 chrX:12524715-12524795 8.2e-05 42_[+3]_30 chrX:14793334-14793414 0.0001 40_[+3]_32 chrIV:4613707-4613787 0.0001 63_[+3]_9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF SATAATCC width=8 seqs=17 chrX:2604767-2604847 ( 42) CATAATCC 1 chrII:8795400-8795480 ( 31) CATAATCC 1 chrX:5151630-5151710 ( 6) CATAATCC 1 chrIII:10601047-10601127 ( 11) CATAATCC 1 chrIII:7839055-7839135 ( 42) CATAATCC 1 chrV:12567483-12567563 ( 41) CATAATCC 1 chrV:12427996-12428076 ( 66) CATAATCC 1 chrIV:643666-643746 ( 14) GATAATCC 1 chrV:13656993-13657073 ( 16) GATAATCC 1 chrIII:7837707-7837787 ( 58) GATAATCC 1 chrIII:8988215-8988295 ( 16) CCTAATCC 1 chrX:6986185-6986265 ( 44) CTTAATCC 1 chrV:13993685-13993765 ( 25) CTTAATCC 1 chrV:4853430-4853510 ( 17) GCTAATCC 1 chrX:12524715-12524795 ( 43) GCTAATCC 1 chrX:14793334-14793414 ( 41) GTTAATCC 1 chrIV:4613707-4613787 ( 64) GTTAATCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1364 E= 4.8e+003 -1073 165 114 -1073 93 -8 -1073 -43 -1073 -1073 -1073 165 170 -1073 -1073 -1073 170 -1073 -1073 -1073 -1073 -1073 -1073 165 -1073 242 -1073 -1073 -1073 242 -1073 -1073 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 17 E= 4.8e+003 0.000000 0.588235 0.411765 0.000000 0.588235 0.176471 0.000000 0.235294 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SATAATCC MEME-3 regular expression -------------------------------------------------------------------------------- [CG][AT]TAATCC -------------------------------------------------------------------------------- Time 17.49 secs. ******************************************************************************** ******************************************************************************** MOTIF CTCCHCSC MEME-4 width = 8 sites = 8 llr = 83 E-value = 1.1e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::::3::: pos.-specific C a:9a4a6a probability G ::::::4: matrix T :a1:4::: bits 2.4 * * * * 2.2 * * * * 1.9 * * * * 1.7 **** * * Relative 1.5 **** *** Entropy 1.2 **** *** (15.0 bits) 1.0 **** *** 0.7 **** *** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CTCCCCCC consensus T G sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:2596784-2596864 13 2.54e-06 TTCACGCTCC CTCCCCCC AAAAAATTTT chrIII:7837707-7837787 71 2.54e-06 AATCCTCTCA CTCCCCCC GC chrIII:12615976-12616056 43 9.41e-06 TAAACAAGTG CTCCCCGC TCCGACGACG chrIII:10601047-10601127 73 9.41e-06 CACATAAAAA CTCCTCCC chrIII:9162735-9162815 39 9.41e-06 CAGCGCTTCT CTCCTCCC CTTTTTGGCT chrV:11727640-11727720 53 1.36e-05 GAGAGGAGAG CTCCACCC CCGTTTTACC chrX:11612163-11612243 16 2.21e-05 TTTATTTCCT CTCCACGC CGGAACCGTG chrIII:4452555-4452635 6 5.26e-05 ATTTT CTTCTCGC GCGCGCGATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:2596784-2596864 2.5e-06 12_[+4]_60 chrIII:7837707-7837787 2.5e-06 70_[+4]_2 chrIII:12615976-12616056 9.4e-06 42_[+4]_30 chrIII:10601047-10601127 9.4e-06 72_[+4] chrIII:9162735-9162815 9.4e-06 38_[+4]_34 chrV:11727640-11727720 1.4e-05 52_[+4]_20 chrX:11612163-11612243 2.2e-05 15_[+4]_57 chrIII:4452555-4452635 5.3e-05 5_[+4]_67 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTCCHCSC width=8 seqs=8 chrX:2596784-2596864 ( 13) CTCCCCCC 1 chrIII:7837707-7837787 ( 71) CTCCCCCC 1 chrIII:12615976-12616056 ( 43) CTCCCCGC 1 chrIII:10601047-10601127 ( 73) CTCCTCCC 1 chrIII:9162735-9162815 ( 39) CTCCTCCC 1 chrV:11727640-11727720 ( 53) CTCCACCC 1 chrX:11612163-11612243 ( 16) CTCCACGC 1 chrIII:4452555-4452635 ( 6) CTTCTCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.155 E= 1.1e+005 -965 242 -965 -965 -965 -965 -965 165 -965 223 -965 -134 -965 242 -965 -965 -30 101 -965 24 -965 242 -965 -965 -965 174 100 -965 -965 242 -965 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 1.1e+005 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.875000 0.000000 0.125000 0.000000 1.000000 0.000000 0.000000 0.250000 0.375000 0.000000 0.375000 0.000000 1.000000 0.000000 0.000000 0.000000 0.625000 0.375000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTCCHCSC MEME-4 regular expression -------------------------------------------------------------------------------- CTCC[CTA]C[CG]C -------------------------------------------------------------------------------- Time 22.55 secs. ******************************************************************************** ******************************************************************************** MOTIF KCACGWGM MEME-5 width = 8 sites = 18 llr = 163 E-value = 1.3e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::a2:7:4 pos.-specific C :a:8:::4 probability G 6:::a:a2 matrix T 4::::3:: bits 2.4 * * * 2.2 * * * 1.9 * * * 1.7 ** * * Relative 1.5 **** * Entropy 1.2 ***** * (13.0 bits) 1.0 ***** * 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GCACGAGC consensus T A T A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:9852650-9852730 64 4.06e-06 GAGGCGCATT GCACGAGC AGCATGGAC chrI:6434570-6434650 58 1.07e-05 AAGTTGGAAA GCACGAGA GATATAGAAG chrII:12669031-12669111 6 1.07e-05 CATGT GCACGAGA TCTAATGAAA chrIV:11451919-11451999 19 1.49e-05 TAAGCGAATT GCACGTGC TCAAGTTTTT chrI:7657740-7657820 58 1.49e-05 TTGTTTTCCG GCACGTGC TCTCTTCCCA chrI:4702512-4702592 30 2.59e-05 ATACACAGAA TCACGAGC AAATTGGCTA chrIV:639294-639374 43 2.59e-05 TTTTTCTAGG TCACGAGC TCCTTATGAC chrIII:4500838-4500918 49 3.28e-05 GCTCGAATGG GCACGTGA GGATGGCGAC chrI:14949297-14949377 34 3.28e-05 CTGGCTTCGA GCACGTGA GAAAAAGCGG chrI:3720754-3720834 24 4.41e-05 TATGACAACA TCACGAGA CTTGGTGTTA chrV:1410880-1410960 41 4.41e-05 TGCAACATTA TCACGAGA TGTGATTTGT chrV:12819293-12819373 4 6.21e-05 GAA GCAAGAGC CGACTGGCGA chrX:17356932-17357012 39 6.21e-05 CATATCATTT GCACGTGG CATTTTTGGT chrX:4657709-4657789 51 6.21e-05 ATCTAAAAGT GCAAGAGC TTTATGAATA chrV:13656993-13657073 56 6.90e-05 ATTCGAGTTG TCACGAGG ACGAAGAGTA chrIV:5284999-5285079 8 9.18e-05 ATTATCT GCAAGAGA CGTTTTCAAT chrV:20419789-20419869 8 1.24e-04 GAGGAGC TCACGTGG TCAGGCGTGC chrIV:9469444-9469524 3 1.24e-04 GA TCAAGAGC ATAACAAAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:9852650-9852730 4.1e-06 63_[+5]_9 chrI:6434570-6434650 1.1e-05 57_[+5]_15 chrII:12669031-12669111 1.1e-05 5_[+5]_67 chrIV:11451919-11451999 1.5e-05 18_[+5]_54 chrI:7657740-7657820 1.5e-05 57_[+5]_15 chrI:4702512-4702592 2.6e-05 29_[+5]_43 chrIV:639294-639374 2.6e-05 42_[+5]_30 chrIII:4500838-4500918 3.3e-05 48_[+5]_24 chrI:14949297-14949377 3.3e-05 33_[+5]_39 chrI:3720754-3720834 4.4e-05 23_[+5]_49 chrV:1410880-1410960 4.4e-05 40_[+5]_32 chrV:12819293-12819373 6.2e-05 3_[+5]_69 chrX:17356932-17357012 6.2e-05 38_[+5]_34 chrX:4657709-4657789 6.2e-05 50_[+5]_22 chrV:13656993-13657073 6.9e-05 55_[+5]_17 chrIV:5284999-5285079 9.2e-05 7_[+5]_65 chrV:20419789-20419869 0.00012 7_[+5]_65 chrIV:9469444-9469524 0.00012 2_[+5]_70 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KCACGWGM width=8 seqs=18 chrI:9852650-9852730 ( 64) GCACGAGC 1 chrI:6434570-6434650 ( 58) GCACGAGA 1 chrII:12669031-12669111 ( 6) GCACGAGA 1 chrIV:11451919-11451999 ( 19) GCACGTGC 1 chrI:7657740-7657820 ( 58) GCACGTGC 1 chrI:4702512-4702592 ( 30) TCACGAGC 1 chrIV:639294-639374 ( 43) TCACGAGC 1 chrIII:4500838-4500918 ( 49) GCACGTGA 1 chrI:14949297-14949377 ( 34) GCACGTGA 1 chrI:3720754-3720834 ( 24) TCACGAGA 1 chrV:1410880-1410960 ( 41) TCACGAGA 1 chrV:12819293-12819373 ( 4) GCAAGAGC 1 chrX:17356932-17357012 ( 39) GCACGTGG 1 chrX:4657709-4657789 ( 51) GCAAGAGC 1 chrV:13656993-13657073 ( 56) TCACGAGG 1 chrIV:5284999-5285079 ( 8) GCAAGAGA 1 chrV:20419789-20419869 ( 8) TCACGTGG 1 chrIV:9469444-9469524 ( 3) TCAAGAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8329 E= 1.3e+005 -1081 -1081 171 29 -1081 242 -1081 -1081 170 -1081 -1081 -1081 -47 206 -1081 -1081 -1081 -1081 242 -1081 111 -1081 -1081 7 -1081 -1081 242 -1081 33 125 -17 -1081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 1.3e+005 0.000000 0.000000 0.611111 0.388889 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.222222 0.777778 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.666667 0.000000 0.000000 0.333333 0.000000 0.000000 1.000000 0.000000 0.388889 0.444444 0.166667 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KCACGWGM MEME-5 regular expression -------------------------------------------------------------------------------- [GT]CA[CA]G[AT]G[CA] -------------------------------------------------------------------------------- Time 26.14 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:3569864-3569944 9.81e-03 37_[+1(3.17e-05)]_35 chrIII:3564921-3565001 4.46e-01 80 chrV:12565098-12565178 1.40e-01 80 chrV:13229707-13229787 1.32e-02 80 chrV:13072447-13072527 1.73e-01 80 chrV:12427996-12428076 4.26e-02 65_[+3(1.93e-05)]_7 chrV:12581617-12581697 5.87e-01 80 chrV:15303883-15303963 8.18e-01 80 chrV:15306913-15306993 5.98e-01 80 chrIII:3567230-3567310 9.24e-01 80 chrX:17146729-17146809 9.98e-01 80 chrIII:3563918-3563998 4.19e-01 80 chrIV:3252200-3252280 7.87e-03 26_[+1(3.17e-05)]_46 chrIII:8988215-8988295 7.31e-02 15_[+3(5.04e-05)]_57 chrV:13299523-13299603 9.60e-02 8_[+2(9.12e-05)]_64 chrV:12586951-12587031 6.06e-01 80 chrV:12567483-12567563 2.61e-03 40_[+3(1.93e-05)]_32 chrV:12786511-12786591 1.52e-01 80 chrIV:639294-639374 4.12e-02 42_[+5(2.59e-05)]_30 chrIV:10719009-10719089 9.11e-04 18_[+2(6.99e-05)]_6_[+1(7.09e-05)]_\ 40 chrV:13993685-13993765 1.99e-02 24_[+3(7.03e-05)]_48 chrV:13992648-13992728 4.78e-01 80 chrX:13182178-13182258 5.64e-02 5_[+1(7.09e-05)]_67 chrIII:7832668-7832748 2.65e-01 40_[+1(7.09e-05)]_32 chrX:14185783-14185863 1.22e-01 80 chrII:334962-335042 5.70e-01 80 chrIV:17463356-17463436 9.07e-03 29_[+2(2.13e-05)]_43 chrII:7146373-7146453 4.71e-01 80 chrV:13265782-13265862 9.34e-01 80 chrV:12520425-12520505 1.02e-01 62_[+1(3.17e-05)]_10 chrV:15427324-15427404 1.69e-01 80 chrV:12641270-12641350 5.60e-01 80 chrX:1901641-1901721 8.46e-02 10_[+1(7.09e-05)]_62 chrV:1410880-1410960 2.78e-02 40_[+5(4.41e-05)]_32 chrX:15034967-15035047 3.67e-02 35_[+1(7.09e-05)]_37 chrII:5775056-5775136 6.62e-01 80 chrV:13075569-13075649 1.10e-01 80 chrV:14532548-14532628 7.74e-01 80 chrV:4233434-4233514 1.03e-01 29_[+2(6.99e-05)]_43 chrX:2854132-2854212 6.78e-01 80 chrIV:9469444-9469524 2.50e-01 80 chrIII:3571623-3571703 1.97e-02 14_[+4(5.97e-05)]_58 chrIV:7300494-7300574 9.98e-01 80 chrIII:3572718-3572798 1.00e-01 80 chrX:2064843-2064923 2.24e-01 80 chrIII:3565122-3565202 9.67e-01 80 chrX:3416236-3416316 2.48e-01 80 chrII:13697862-13697942 2.64e-01 80 chrIII:7837707-7837787 9.62e-05 57_[+3(3.86e-05)]_5_[+4(2.54e-06)]_\ 2 chrI:10754561-10754641 7.19e-02 80 chrII:8397819-8397899 2.67e-02 60_[+2(6.99e-05)]_12 chrII:14745273-14745353 8.07e-01 80 chrX:16650721-16650801 1.28e-01 80 chrII:10408779-10408859 1.90e-01 80 chrIII:482889-482969 8.31e-01 80 chrIII:11677468-11677548 1.10e-01 80 chrIII:6654107-6654187 4.03e-01 80 chrX:14182667-14182747 1.56e-01 80 chrI:4702512-4702592 3.75e-02 29_[+5(2.59e-05)]_43 chrI:5311113-5311193 3.31e-02 15_[+1(7.09e-05)]_57 chrIII:3568680-3568760 7.93e-02 [+1(3.17e-05)]_72 chrIV:5284999-5285079 9.91e-02 7_[+5(9.18e-05)]_65 chrV:11727640-11727720 4.44e-02 52_[+4(1.36e-05)]_20 chrV:10241258-10241338 1.74e-01 80 chrII:7283206-7283286 6.41e-03 80 chrX:4657709-4657789 3.09e-01 50_[+5(6.21e-05)]_22 chrV:13076544-13076624 4.00e-01 80 chrIV:5595706-5595786 5.96e-01 80 chrIV:8587706-8587786 3.42e-01 80 chrV:15685784-15685864 1.14e-01 80 chrV:12784965-12785045 3.01e-02 39_[+4(7.88e-05)]_33 chrV:9465665-9465745 3.37e-01 80 chrX:7128799-7128879 1.95e-01 13_[+1(7.09e-05)]_59 chrV:12365475-12365555 8.86e-02 80 chrV:12570440-12570520 1.05e-01 80 chrIII:4452555-4452635 1.40e-01 5_[+4(5.26e-05)]_67 chrII:12488976-12489056 7.57e-01 80 chrIV:10253357-10253437 5.01e-01 80 chrIII:7835815-7835895 1.58e-01 80 chrX:15655778-15655858 5.01e-02 52_[+2(6.99e-05)]_20 chrV:4681678-4681758 1.20e-01 80 chrII:13233896-13233976 6.32e-01 80 chrIII:9162735-9162815 4.05e-05 1_[+1(3.17e-05)]_29_[+4(9.41e-06)]_\ 34 chrIV:16221990-16222070 1.41e-01 80 chrV:5362339-5362419 3.35e-01 80 chrV:14720531-14720611 8.04e-01 80 chrII:5327066-5327146 1.35e-02 80 chrV:8342572-8342652 3.57e-01 80 chrV:12037922-12038002 6.76e-01 80 chrIII:7839055-7839135 9.89e-03 41_[+3(1.93e-05)]_31 chrX:5027629-5027709 1.99e-01 80 chrV:12390886-12390966 4.32e-02 80 chrIII:5500853-5500933 8.82e-01 80 chrV:9272811-9272891 2.03e-01 80 chrX:8609472-8609552 1.10e-01 80 chrV:15305681-15305761 9.37e-01 80 chrV:10862890-10862970 6.64e-01 80 chrV:13268233-13268313 9.89e-01 80 chrV:15298732-15298812 4.66e-01 80 chrII:4505392-4505472 1.57e-01 80 chrX:10761015-10761095 8.94e-01 80 chrIII:4220974-4221054 1.70e-01 80 chrV:3042621-3042701 9.77e-01 80 chrV:404407-404487 6.90e-01 80 chrIII:11669208-11669288 3.87e-01 80 chrI:3989850-3989930 1.95e-01 80 chrV:5704679-5704759 3.64e-01 80 chrI:9860307-9860387 5.51e-01 80 chrX:17356932-17357012 7.75e-02 38_[+5(6.21e-05)]_34 chrV:14427240-14427320 2.52e-01 80 chrIII:7834944-7835024 2.96e-01 80 chrII:4114213-4114293 1.26e-01 80 chrX:1897099-1897179 3.35e-02 80 chrX:12524715-12524795 3.73e-02 42_[+3(8.21e-05)]_30 chrV:14317749-14317829 1.78e-01 19_[+2(6.99e-05)]_53 chrIII:9658733-9658813 1.09e-01 21_[+1(3.17e-05)]_51 chrIII:10601047-10601127 2.69e-04 10_[+3(1.93e-05)]_54_[+4(9.41e-06)] chrV:15290762-15290842 3.09e-01 80 chrV:13656993-13657073 3.98e-03 15_[+3(3.86e-05)]_32_[+5(6.90e-05)]_\ 17 chrV:13371903-13371983 8.64e-01 80 chrIV:3833943-3834023 3.53e-01 80 chrIV:4611923-4612003 9.99e-02 80 chrI:9705685-9705765 1.27e-02 38_[+2(6.99e-05)]_34 chrIII:3573575-3573655 5.00e-01 80 chrIV:5281625-5281705 7.32e-01 80 chrX:4117471-4117551 8.07e-01 80 chrX:9293777-9293857 8.46e-01 80 chrIV:3250269-3250349 2.15e-01 80 chrX:8969236-8969316 1.01e-03 11_[+1(7.09e-05)]_30_[+2(9.12e-05)]_\ 23 chrV:15431776-15431856 1.66e-01 80 chrV:14129066-14129146 9.32e-01 80 chrI:6715618-6715698 3.55e-01 80 chrII:7827894-7827974 1.20e-01 51_[+1(8.27e-05)]_21 chrV:15305922-15306002 7.27e-01 80 chrII:12669031-12669111 3.85e-02 5_[+5(1.07e-05)]_67 chrI:6434570-6434650 3.40e-02 57_[+5(1.07e-05)]_15 chrIV:10433142-10433222 3.67e-01 80 chrV:9186191-9186271 2.24e-01 80 chrX:13177483-13177563 6.06e-01 80 chrX:625450-625530 3.68e-01 80 chrV:747995-748075 8.16e-01 80 chrX:15800173-15800253 1.05e-01 80 chrV:12644472-12644552 8.30e-01 80 chrIV:4954002-4954082 4.97e-01 80 chrV:15318793-15318873 2.25e-01 80 chrV:13259654-13259734 1.10e-01 80 chrIV:1843784-1843864 7.75e-02 80 chrII:5896627-5896707 7.48e-01 80 chrI:14949297-14949377 1.47e-01 33_[+5(3.28e-05)]_39 chrIII:1922703-1922783 3.05e-01 80 chrIV:7937148-7937228 1.41e-01 80 chrX:17515636-17515716 1.23e-02 1_[+2(6.99e-05)]_71 chrX:626700-626780 6.20e-01 80 chrV:12258935-12259015 7.49e-02 63_[+2(6.99e-05)]_9 chrV:9485664-9485744 2.73e-01 80 chrV:12395888-12395968 7.05e-01 80 chrII:147033-147113 8.13e-01 80 chrX:5151630-5151710 1.57e-02 5_[+3(1.93e-05)]_67 chrV:13274692-13274772 8.14e-01 80 chrIV:5908204-5908284 9.86e-01 80 chrV:13235472-13235552 1.54e-01 80 chrIII:5332889-5332969 6.58e-01 80 chrX:2596784-2596864 2.51e-03 12_[+4(2.54e-06)]_60 chrV:9474025-9474105 2.21e-01 80 chrX:7702602-7702682 7.31e-01 80 chrX:9928181-9928261 7.19e-01 80 chrX:9662721-9662801 5.80e-03 80 chrIV:6388691-6388771 6.24e-03 13_[+2(2.13e-05)]_59 chrX:13838189-13838269 5.34e-01 80 chrV:5736620-5736700 7.73e-01 80 chrV:284132-284212 4.88e-01 80 chrX:2827893-2827973 2.79e-01 80 chrI:9852650-9852730 2.12e-03 19_[+2(9.12e-05)]_36_[+5(4.06e-06)]_\ 9 chrII:8795400-8795480 5.26e-02 30_[+3(1.93e-05)]_42 chrV:12153190-12153270 3.93e-01 80 chrII:9010473-9010553 2.64e-02 72_[+2(2.13e-05)] chrV:9260604-9260684 2.44e-01 80 chrV:11636176-11636256 9.34e-01 80 chrV:4456869-4456949 3.93e-01 80 chrV:14489986-14490066 9.18e-02 44_[+2(9.12e-05)]_28 chrI:6392460-6392540 4.62e-01 80 chrIV:10161884-10161964 7.50e-01 80 chrII:5329161-5329241 1.11e-01 80 chrIV:5904171-5904251 8.45e-01 80 chrI:2571175-2571255 1.79e-02 80 chrV:20419789-20419869 2.07e-01 80 chrV:13395243-13395323 3.06e-01 80 chrX:2604767-2604847 3.61e-02 41_[+3(1.93e-05)]_31 chrV:3640003-3640083 5.98e-01 80 chrX:12200636-12200716 2.24e-01 80 chrX:11612163-11612243 7.66e-03 15_[+4(2.21e-05)]_57 chrV:11870194-11870274 9.21e-01 80 chrII:3786711-3786791 7.49e-01 80 chrIII:5755375-5755455 6.80e-01 80 chrIV:4613707-4613787 3.40e-02 80 chrV:13763868-13763948 7.34e-01 80 chrII:5067094-5067174 5.39e-01 80 chrIV:17399479-17399559 2.21e-02 15_[+2(2.13e-05)]_57 chrX:12545273-12545353 1.40e-01 11_[+1(7.09e-05)]_61 chrV:13255100-13255180 6.95e-01 80 chrIV:11450902-11450982 6.91e-01 80 chrII:4163865-4163945 5.34e-01 80 chrV:13269404-13269484 3.93e-01 80 chrV:13484737-13484817 1.87e-01 80 chrX:14793334-14793414 2.51e-01 80 chrII:6745926-6746006 5.93e-02 80 chrV:13212720-13212800 5.63e-01 80 chrIV:9520847-9520927 7.30e-01 80 chrIV:14621280-14621360 6.05e-01 80 chrV:15337450-15337530 8.82e-01 80 chrIII:7831217-7831297 9.89e-01 80 chrI:9093180-9093260 4.74e-01 80 chrII:915373-915453 2.55e-01 80 chrV:10929516-10929596 5.32e-01 80 chrIII:12615976-12616056 2.21e-02 42_[+4(9.41e-06)]_30 chrV:4853430-4853510 4.62e-02 16_[+3(8.21e-05)]_56 chrIV:6514881-6514961 2.38e-01 80 chrIV:5290087-5290167 3.41e-03 55_[+1(8.27e-05)]_17 chrIV:648544-648624 5.41e-02 16_[+4(5.26e-05)]_56 chrI:7657740-7657820 6.29e-04 57_[+5(1.49e-05)]_15 chrIII:10903391-10903471 6.92e-01 80 chrIV:3246981-3247061 2.86e-01 80 chrI:11939051-11939131 2.73e-01 80 chrX:5559578-5559658 1.32e-01 55_[+1(3.17e-05)]_17 chrV:13908787-13908867 4.05e-01 80 chrX:6986185-6986265 9.58e-02 43_[+3(7.03e-05)]_29 chrV:9795133-9795213 2.61e-01 80 chrIII:4500838-4500918 5.63e-02 48_[+5(3.28e-05)]_24 chrV:3870550-3870630 1.12e-01 80 chrII:4485737-4485817 3.70e-01 80 chrIII:790759-790839 2.66e-02 42_[+1(3.17e-05)]_30 chrII:14941210-14941290 3.66e-02 80 chrV:12394339-12394419 9.89e-01 80 chrIV:16658891-16658971 9.43e-01 80 chrII:5335597-5335677 1.89e-01 80 chrX:14562446-14562526 9.26e-02 4_[+2(6.99e-05)]_68 chrII:9117911-9117991 3.53e-01 80 chrI:7209977-7210057 7.86e-01 80 chrV:12306904-12306984 1.16e-01 80 chrIV:8143025-8143105 7.96e-01 80 chrI:3720754-3720834 1.70e-02 23_[+5(4.41e-05)]_49 chrV:13262878-13262958 7.88e-01 80 chrIV:11451919-11451999 5.05e-03 18_[+5(1.49e-05)]_54 chrV:14423456-14423536 9.61e-01 80 chrIV:8127647-8127727 7.90e-01 80 chrV:12819293-12819373 3.57e-02 3_[+5(6.21e-05)]_69 chrV:6627652-6627732 8.69e-01 80 chrV:7023228-7023308 8.89e-01 80 chrV:13298577-13298657 6.04e-02 80 chrIV:643666-643746 6.88e-02 13_[+3(3.86e-05)]_59 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n12.farnam.hpc.yale.internal ********************************************************************************