******************************************************************************** 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/sptf-2.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrI:13653380-13653460 1.0000 80 chrII:8625265-8625345 1.0000 80 chrII:8602920-8603000 1.0000 80 chrII:8631856-8631936 1.0000 80 chrIII:8446736-8446816 1.0000 80 chrIV:8511616-8511696 1.0000 80 chrV:8495319-8495399 1.0000 80 chrIV:3645715-3645795 1.0000 80 chrIV:13725260-13725340 1.0000 80 chrII:8602719-8602799 1.0000 80 chrIV:7960805-7960885 1.0000 80 chrV:7776914-7776994 1.0000 80 chrX:13782219-13782299 1.0000 80 chrI:5985541-5985621 1.0000 80 chrII:13521460-13521540 1.0000 80 chrIV:5947215-5947295 1.0000 80 chrIV:12834068-12834148 1.0000 80 chrV:2664638-2664718 1.0000 80 chrV:6559697-6559777 1.0000 80 chrV:727447-727527 1.0000 80 chrI:12905801-12905881 1.0000 80 chrI:7058053-7058133 1.0000 80 chrX:5713626-5713706 1.0000 80 chrII:8625465-8625545 1.0000 80 chrIV:16503775-16503855 1.0000 80 chrIII:13019454-13019534 1.0000 80 chrIII:6970251-6970331 1.0000 80 chrI:4790523-4790603 1.0000 80 chrIII:4213367-4213447 1.0000 80 chrX:13714897-13714977 1.0000 80 chrIV:991397-991477 1.0000 80 chrI:6847202-6847282 1.0000 80 chrV:8499622-8499702 1.0000 80 chrIV:4077029-4077109 1.0000 80 chrV:3613000-3613080 1.0000 80 chrI:9328480-9328560 1.0000 80 chrIV:14225093-14225173 1.0000 80 chrX:487907-487987 1.0000 80 chrI:6838257-6838337 1.0000 80 chrV:6335340-6335420 1.0000 80 chrI:229366-229446 1.0000 80 chrX:14437986-14438066 1.0000 80 chrI:6135805-6135885 1.0000 80 chrI:111208-111288 1.0000 80 chrII:9046435-9046515 1.0000 80 chrI:2316403-2316483 1.0000 80 chrX:16643410-16643490 1.0000 80 chrV:8496196-8496276 1.0000 80 chrIV:7313409-7313489 1.0000 80 chrIV:5038918-5038998 1.0000 80 chrII:14019741-14019821 1.0000 80 chrII:3964508-3964588 1.0000 80 chrIV:4254970-4255050 1.0000 80 chrIV:4347758-4347838 1.0000 80 chrX:9024402-9024482 1.0000 80 chrI:1835108-1835188 1.0000 80 chrIV:1904014-1904094 1.0000 80 chrV:14028433-14028513 1.0000 80 chrIII:10506143-10506223 1.0000 80 chrX:7378715-7378795 1.0000 80 chrV:12038876-12038956 1.0000 80 chrIV:8499791-8499871 1.0000 80 chrIV:7313620-7313700 1.0000 80 chrII:10545270-10545350 1.0000 80 chrIII:6374280-6374360 1.0000 80 chrII:4590946-4591026 1.0000 80 chrV:1870810-1870890 1.0000 80 chrIV:1460414-1460494 1.0000 80 chrV:15480021-15480101 1.0000 80 chrV:9318190-9318270 1.0000 80 chrV:1373846-1373926 1.0000 80 chrX:11933748-11933828 1.0000 80 chrIV:2602924-2603004 1.0000 80 chrV:5284764-5284844 1.0000 80 chrX:2362998-2363078 1.0000 80 chrX:6867920-6868000 1.0000 80 chrX:4789109-4789189 1.0000 80 chrII:2378637-2378717 1.0000 80 chrV:14686226-14686306 1.0000 80 chrII:8626973-8627053 1.0000 80 chrIII:4930415-4930495 1.0000 80 chrIII:4999053-4999133 1.0000 80 chrV:8651446-8651526 1.0000 80 chrX:5213587-5213667 1.0000 80 chrV:1806248-1806328 1.0000 80 chrIV:1769276-1769356 1.0000 80 chrX:6286293-6286373 1.0000 80 chrX:5451191-5451271 1.0000 80 chrIV:8662635-8662715 1.0000 80 chrX:5818483-5818563 1.0000 80 chrI:7238183-7238263 1.0000 80 chrII:5661347-5661427 1.0000 80 chrX:13653728-13653808 1.0000 80 chrIV:16399170-16399250 1.0000 80 chrII:13886600-13886680 1.0000 80 chrI:747029-747109 1.0000 80 chrV:14267474-14267554 1.0000 80 chrII:2737168-2737248 1.0000 80 chrIII:1419798-1419878 1.0000 80 chrII:11167233-11167313 1.0000 80 chrV:14324882-14324962 1.0000 80 chrII:2986217-2986297 1.0000 80 chrII:832800-832880 1.0000 80 chrV:9549648-9549728 1.0000 80 chrX:12872338-12872418 1.0000 80 chrX:13886241-13886321 1.0000 80 chrIII:11792750-11792830 1.0000 80 chrIV:3612054-3612134 1.0000 80 chrX:13038875-13038955 1.0000 80 chrX:8624024-8624104 1.0000 80 chrIV:7083652-7083732 1.0000 80 chrI:10553089-10553169 1.0000 80 chrV:19430583-19430663 1.0000 80 chrV:10020895-10020975 1.0000 80 chrX:9091631-9091711 1.0000 80 chrIV:2805686-2805766 1.0000 80 chrX:14946544-14946624 1.0000 80 chrX:461792-461872 1.0000 80 chrI:2304284-2304364 1.0000 80 chrV:15001698-15001778 1.0000 80 chrX:12172014-12172094 1.0000 80 chrIV:2657417-2657497 1.0000 80 chrIII:10624721-10624801 1.0000 80 chrIII:2876056-2876136 1.0000 80 chrV:6276990-6277070 1.0000 80 chrII:7003185-7003265 1.0000 80 chrIII:7727870-7727950 1.0000 80 chrII:3439390-3439470 1.0000 80 chrIII:13225143-13225223 1.0000 80 chrIII:5308447-5308527 1.0000 80 chrIV:9563770-9563850 1.0000 80 chrIV:4243975-4244055 1.0000 80 chrIV:16398412-16398492 1.0000 80 chrV:8349065-8349145 1.0000 80 chrX:8163688-8163768 1.0000 80 chrX:11252622-11252702 1.0000 80 chrIII:11627821-11627901 1.0000 80 chrII:11376765-11376845 1.0000 80 chrV:6606318-6606398 1.0000 80 chrII:8547120-8547200 1.0000 80 chrX:14804834-14804914 1.0000 80 chrI:7658259-7658339 1.0000 80 chrV:20729149-20729229 1.0000 80 chrII:6842761-6842841 1.0000 80 chrIII:11091118-11091198 1.0000 80 chrIV:867005-867085 1.0000 80 chrX:11379502-11379582 1.0000 80 chrV:10855531-10855611 1.0000 80 chrV:20694164-20694244 1.0000 80 chrX:9622809-9622889 1.0000 80 chrX:6089002-6089082 1.0000 80 chrIV:6097195-6097275 1.0000 80 chrIV:17245449-17245529 1.0000 80 chrI:12954675-12954755 1.0000 80 chrV:14833207-14833287 1.0000 80 chrIV:11026166-11026246 1.0000 80 chrI:7492073-7492153 1.0000 80 chrX:1880820-1880900 1.0000 80 chrX:8154629-8154709 1.0000 80 chrII:7001639-7001719 1.0000 80 chrI:2069556-2069636 1.0000 80 chrIII:354796-354876 1.0000 80 chrII:10502778-10502858 1.0000 80 chrI:10330608-10330688 1.0000 80 chrX:7323729-7323809 1.0000 80 chrV:19622462-19622542 1.0000 80 chrX:8608856-8608936 1.0000 80 chrV:11113317-11113397 1.0000 80 chrX:9238848-9238928 1.0000 80 chrIV:6117942-6118022 1.0000 80 chrII:5292337-5292417 1.0000 80 chrX:10772284-10772364 1.0000 80 chrX:8550250-8550330 1.0000 80 chrV:53452-53532 1.0000 80 chrX:1837917-1837997 1.0000 80 chrII:9968429-9968509 1.0000 80 chrIV:12086613-12086693 1.0000 80 chrII:3567723-3567803 1.0000 80 chrV:19126042-19126122 1.0000 80 chrIV:16389311-16389391 1.0000 80 chrX:8638839-8638919 1.0000 80 chrIV:4705361-4705441 1.0000 80 chrX:9078268-9078348 1.0000 80 chrX:768180-768260 1.0000 80 chrIV:9477729-9477809 1.0000 80 chrX:14169770-14169850 1.0000 80 chrI:3823-3903 1.0000 80 chrIV:1420187-1420267 1.0000 80 chrI:2514238-2514318 1.0000 80 chrIII:12399930-12400010 1.0000 80 chrIV:5209692-5209772 1.0000 80 chrI:3638909-3638989 1.0000 80 chrII:15120291-15120371 1.0000 80 chrX:12563807-12563887 1.0000 80 chrX:6292306-6292386 1.0000 80 chrII:5782087-5782167 1.0000 80 chrV:12659592-12659672 1.0000 80 chrIV:11594301-11594381 1.0000 80 chrX:3605902-3605982 1.0000 80 chrII:5358315-5358395 1.0000 80 chrX:12655576-12655656 1.0000 80 chrIV:7507566-7507646 1.0000 80 chrII:8107266-8107346 1.0000 80 chrX:9637801-9637881 1.0000 80 chrIII:835962-836042 1.0000 80 chrX:12458151-12458231 1.0000 80 chrII:14018431-14018511 1.0000 80 chrI:11323366-11323446 1.0000 80 chrIII:8639240-8639320 1.0000 80 chrV:14688585-14688665 1.0000 80 chrX:17631061-17631141 1.0000 80 chrIII:10634192-10634272 1.0000 80 chrV:12780460-12780540 1.0000 80 chrII:2889357-2889437 1.0000 80 chrII:14617024-14617104 1.0000 80 chrV:20580695-20580775 1.0000 80 chrII:6968322-6968402 1.0000 80 chrX:1379643-1379723 1.0000 80 chrV:9970287-9970367 1.0000 80 chrIV:6556741-6556821 1.0000 80 chrX:7068580-7068660 1.0000 80 chrIII:1604624-1604704 1.0000 80 chrIII:4689689-4689769 1.0000 80 chrII:8075535-8075615 1.0000 80 chrII:11484806-11484886 1.0000 80 chrX:11757828-11757908 1.0000 80 chrIV:3636704-3636784 1.0000 80 chrI:10565392-10565472 1.0000 80 chrIV:8527812-8527892 1.0000 80 chrIII:5602158-5602238 1.0000 80 chrX:12661208-12661288 1.0000 80 chrX:13442636-13442716 1.0000 80 chrIV:11474174-11474254 1.0000 80 chrX:2227116-2227196 1.0000 80 chrII:15025832-15025912 1.0000 80 chrX:6903099-6903179 1.0000 80 chrV:16370219-16370299 1.0000 80 chrI:6212852-6212932 1.0000 80 chrIII:8937703-8937783 1.0000 80 chrX:15492864-15492944 1.0000 80 chrI:8259521-8259601 1.0000 80 chrIII:10461292-10461372 1.0000 80 chrI:5706960-5707040 1.0000 80 chrIV:3294635-3294715 1.0000 80 chrII:4299390-4299470 1.0000 80 chrV:15085553-15085633 1.0000 80 chrV:16356002-16356082 1.0000 80 chrII:7200286-7200366 1.0000 80 chrV:6888932-6889012 1.0000 80 chrV:12491258-12491338 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_sptf-2/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/sptf-2.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 0.259 C 0.234 G 0.246 T 0.26 Background letter frequencies (from file dataset with add-one prior applied): A 0.259 C 0.234 G 0.246 T 0.26 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TAGCTCAG MEME-1 width = 8 sites = 21 llr = 217 E-value = 1.1e-011 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :a::::a: pos.-specific C :::a:a:: probability G ::a::::a matrix T a:::9::: bits 2.1 ** * * 1.9 ** *** 1.7 **** *** 1.5 ******** Relative 1.3 ******** Entropy 1.0 ******** (14.9 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TAGCTCAG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV:19126042-19126122 9 1.50e-05 TGCCTCGA TAGCTCAG TTGGGAGAGC chrII:5292337-5292417 2 1.50e-05 A TAGCTCAG TGGTAGAGCG chrX:9238848-9238928 23 1.50e-05 AGCGGGGGTA TAGCTCAG TGGTAGAGCG chrX:7323729-7323809 31 1.50e-05 TCAGGGGGTA TAGCTCAG TGGTAGAGCG chrX:14804834-14804914 50 1.50e-05 CACGGGGGTA TAGCTCAG TGGCAGAGCA chrIII:11792750-11792830 39 1.50e-05 GACGCCCGTA TAGCTCAG TGGCAGAGCG chrIV:16399170-16399250 21 1.50e-05 TGCGGGGGTA TAGCTCAG TGGTAGAGCG chrX:13653728-13653808 7 1.50e-05 CCCTTA TAGCTCAG TGGTAGAGCG chrX:6286293-6286373 35 1.50e-05 TGCGGGGGTA TAGCTCAG GGGTAGAGCG chrX:4789109-4789189 30 1.50e-05 TGGGCCTCCT TAGCTCAG TTGGTAGAGC chrV:9318190-9318270 19 1.50e-05 CGTGGGGGTA TAGCTCAG GGGTAGAGCG chrIV:5038918-5038998 9 1.50e-05 GGCCTCCT TAGCTCAG TTGGTAGAGC chrI:6135805-6135885 32 1.50e-05 GTGCCGTCGA TAGCTCAG TTGGTAGAGC chrV:6335340-6335420 65 1.50e-05 TCGTGGGGTA TAGCTCAG TGGCAGAG chrX:5713626-5713706 33 1.50e-05 AGGGCCTCCT TAGCTCAG TTGGTAGAGC chrV:6559697-6559777 67 1.50e-05 CATGGGGGTA TAGCTCAG TGGCAG chrX:13782219-13782299 37 1.50e-05 GCCGCCCGGT TAGCTCAG TCGGTAGAGC chrI:3823-3903 44 5.56e-05 GCCATCCTTC TCGCTCAG AGAATGGATT chrX:11252622-11252702 52 5.56e-05 CACAGACTGC TAGCCCAG TCAAAATAGA chrI:7058053-7058133 1 5.56e-05 . CAGCTCAG CCAATCCTTC chrIV:12086613-12086693 31 6.99e-05 TCGTTCAGCG TAGCGCAG TTGGGTGTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV:19126042-19126122 1.5e-05 8_[+1]_64 chrII:5292337-5292417 1.5e-05 1_[+1]_71 chrX:9238848-9238928 1.5e-05 22_[+1]_50 chrX:7323729-7323809 1.5e-05 30_[+1]_42 chrX:14804834-14804914 1.5e-05 49_[+1]_23 chrIII:11792750-11792830 1.5e-05 38_[+1]_34 chrIV:16399170-16399250 1.5e-05 20_[+1]_52 chrX:13653728-13653808 1.5e-05 6_[+1]_66 chrX:6286293-6286373 1.5e-05 34_[+1]_38 chrX:4789109-4789189 1.5e-05 29_[+1]_43 chrV:9318190-9318270 1.5e-05 18_[+1]_54 chrIV:5038918-5038998 1.5e-05 8_[+1]_64 chrI:6135805-6135885 1.5e-05 31_[+1]_41 chrV:6335340-6335420 1.5e-05 64_[+1]_8 chrX:5713626-5713706 1.5e-05 32_[+1]_40 chrV:6559697-6559777 1.5e-05 66_[+1]_6 chrX:13782219-13782299 1.5e-05 36_[+1]_36 chrI:3823-3903 5.6e-05 43_[+1]_29 chrX:11252622-11252702 5.6e-05 51_[+1]_21 chrI:7058053-7058133 5.6e-05 [+1]_72 chrIV:12086613-12086693 7e-05 30_[+1]_42 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAGCTCAG width=8 seqs=21 chrV:19126042-19126122 ( 9) TAGCTCAG 1 chrII:5292337-5292417 ( 2) TAGCTCAG 1 chrX:9238848-9238928 ( 23) TAGCTCAG 1 chrX:7323729-7323809 ( 31) TAGCTCAG 1 chrX:14804834-14804914 ( 50) TAGCTCAG 1 chrIII:11792750-11792830 ( 39) TAGCTCAG 1 chrIV:16399170-16399250 ( 21) TAGCTCAG 1 chrX:13653728-13653808 ( 7) TAGCTCAG 1 chrX:6286293-6286373 ( 35) TAGCTCAG 1 chrX:4789109-4789189 ( 30) TAGCTCAG 1 chrV:9318190-9318270 ( 19) TAGCTCAG 1 chrIV:5038918-5038998 ( 9) TAGCTCAG 1 chrI:6135805-6135885 ( 32) TAGCTCAG 1 chrV:6335340-6335420 ( 65) TAGCTCAG 1 chrX:5713626-5713706 ( 33) TAGCTCAG 1 chrV:6559697-6559777 ( 67) TAGCTCAG 1 chrX:13782219-13782299 ( 37) TAGCTCAG 1 chrI:3823-3903 ( 44) TCGCTCAG 1 chrX:11252622-11252702 ( 52) TAGCCCAG 1 chrI:7058053-7058133 ( 1) CAGCTCAG 1 chrIV:12086613-12086693 ( 31) TAGCGCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.0668 E= 1.1e-011 -1104 -230 -1104 187 188 -230 -1104 -1104 -1104 -1104 202 -1104 -1104 209 -1104 -1104 -1104 -230 -237 180 -1104 209 -1104 -1104 195 -1104 -1104 -1104 -1104 -1104 202 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 1.1e-011 0.000000 0.047619 0.000000 0.952381 0.952381 0.047619 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.047619 0.047619 0.904762 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAGCTCAG MEME-1 regular expression -------------------------------------------------------------------------------- TAGCTCAG -------------------------------------------------------------------------------- Time 7.35 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTAGAGC MEME-2 width = 8 sites = 19 llr = 193 E-value = 3.3e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::9:9:: pos.-specific C ::11:1:a probability G aa1:a:a: matrix T ::8::::: bits 2.1 ** * ** 1.9 ** * ** 1.7 ** ***** 1.5 ** ***** Relative 1.3 ******** Entropy 1.0 ******** (14.7 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGTAGAGC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:5292337-5292417 11 1.49e-05 ATAGCTCAGT GGTAGAGC GCTCCCTTAG chrX:9238848-9238928 32 1.49e-05 ATAGCTCAGT GGTAGAGC GCTCCCTTAG chrX:7323729-7323809 40 1.49e-05 ATAGCTCAGT GGTAGAGC GCTCCCTTAG chrII:7001639-7001719 4 1.49e-05 AGG GGTAGAGC GCTCGCTTTG chrIV:16399170-16399250 30 1.49e-05 ATAGCTCAGT GGTAGAGC GCTCCCTTAG chrX:13653728-13653808 16 1.49e-05 ATAGCTCAGT GGTAGAGC GTTGGTCTTG chrX:6286293-6286373 44 1.49e-05 ATAGCTCAGG GGTAGAGC GCTCGCTTTG chrX:4789109-4789189 40 1.49e-05 TAGCTCAGTT GGTAGAGC GTGAGACTTT chrV:9318190-9318270 28 1.49e-05 ATAGCTCAGG GGTAGAGC GCTCGCTTCG chrIV:5038918-5038998 19 1.49e-05 TAGCTCAGTT GGTAGAGC GTGAGACTTT chrI:6135805-6135885 42 1.49e-05 TAGCTCAGTT GGTAGAGC GGAGGACTGT chrX:13714897-13714977 8 1.49e-05 CTCAGTC GGTAGAGC ACCAGACTCT chrX:5713626-5713706 43 1.49e-05 TAGCTCAGTT GGTAGAGC GTGAGACTTT chrX:13782219-13782299 47 1.49e-05 TAGCTCAGTC GGTAGAGC ACCAGACTCT chrX:14804834-14804914 59 2.84e-05 ATAGCTCAGT GGCAGAGC ATTCGACTGC chrIII:11792750-11792830 48 2.84e-05 ATAGCTCAGT GGCAGAGC GTCTGTCTCG chrV:19126042-19126122 19 4.25e-05 TAGCTCAGTT GGGAGAGC GCACGACTGA chrV:9970287-9970367 1 6.95e-05 . GGTCGAGC TAGCGATGCC chrII:14617024-14617104 73 6.95e-05 TGGCGCAGGC GGTAGCGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:5292337-5292417 1.5e-05 10_[+2]_62 chrX:9238848-9238928 1.5e-05 31_[+2]_41 chrX:7323729-7323809 1.5e-05 39_[+2]_33 chrII:7001639-7001719 1.5e-05 3_[+2]_69 chrIV:16399170-16399250 1.5e-05 29_[+2]_43 chrX:13653728-13653808 1.5e-05 15_[+2]_57 chrX:6286293-6286373 1.5e-05 43_[+2]_29 chrX:4789109-4789189 1.5e-05 39_[+2]_33 chrV:9318190-9318270 1.5e-05 27_[+2]_45 chrIV:5038918-5038998 1.5e-05 18_[+2]_54 chrI:6135805-6135885 1.5e-05 41_[+2]_31 chrX:13714897-13714977 1.5e-05 7_[+2]_65 chrX:5713626-5713706 1.5e-05 42_[+2]_30 chrX:13782219-13782299 1.5e-05 46_[+2]_26 chrX:14804834-14804914 2.8e-05 58_[+2]_14 chrIII:11792750-11792830 2.8e-05 47_[+2]_25 chrV:19126042-19126122 4.3e-05 18_[+2]_54 chrV:9970287-9970367 7e-05 [+2]_72 chrII:14617024-14617104 7e-05 72_[+2] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTAGAGC width=8 seqs=19 chrII:5292337-5292417 ( 11) GGTAGAGC 1 chrX:9238848-9238928 ( 32) GGTAGAGC 1 chrX:7323729-7323809 ( 40) GGTAGAGC 1 chrII:7001639-7001719 ( 4) GGTAGAGC 1 chrIV:16399170-16399250 ( 30) GGTAGAGC 1 chrX:13653728-13653808 ( 16) GGTAGAGC 1 chrX:6286293-6286373 ( 44) GGTAGAGC 1 chrX:4789109-4789189 ( 40) GGTAGAGC 1 chrV:9318190-9318270 ( 28) GGTAGAGC 1 chrIV:5038918-5038998 ( 19) GGTAGAGC 1 chrI:6135805-6135885 ( 42) GGTAGAGC 1 chrX:13714897-13714977 ( 8) GGTAGAGC 1 chrX:5713626-5713706 ( 43) GGTAGAGC 1 chrX:13782219-13782299 ( 47) GGTAGAGC 1 chrX:14804834-14804914 ( 59) GGCAGAGC 1 chrIII:11792750-11792830 ( 48) GGCAGAGC 1 chrV:19126042-19126122 ( 19) GGGAGAGC 1 chrV:9970287-9970367 ( 1) GGTCGAGC 1 chrII:14617024-14617104 ( 73) GGTAGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1012 E= 3.3e-007 -1089 -1089 202 -1089 -1089 -1089 202 -1089 -1089 -115 -222 169 187 -215 -1089 -1089 -1089 -1089 202 -1089 187 -215 -1089 -1089 -1089 -1089 202 -1089 -1089 209 -1089 -1089 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.3e-007 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.105263 0.052632 0.842105 0.947368 0.052632 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.947368 0.052632 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTAGAGC MEME-2 regular expression -------------------------------------------------------------------------------- GGTAGAGC -------------------------------------------------------------------------------- Time 11.04 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGTTCRA MEME-3 width = 8 sites = 21 llr = 199 E-value = 3.5e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::2:::5a pos.-specific C :::1:a:: probability G aa8:::5: matrix T :::9a::: bits 2.1 ** * 1.9 ** ** * 1.7 ** ** * 1.5 ** *** * Relative 1.3 ****** * Entropy 1.0 ******** (13.7 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGTTCGA consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:11757828-11757908 14 1.50e-05 AGCACGAGTG GGGTTCGA ACCCACGAGG chrII:7001639-7001719 37 1.50e-05 GAGAAGTCTG GGGTTCGA TTCCCCATAC chrIV:2657417-2657497 26 1.50e-05 GCACATAGCG GGGTTCGA ACCAGGGAGT chrX:4789109-4789189 73 1.50e-05 TTAAGGTCAG GGGTTCGA chrIV:5038918-5038998 52 1.50e-05 TTAAGGTCAG GGGTTCGA GTCCCCTAGG chrX:13714897-13714977 41 1.50e-05 TGGTTGTCGC GGGTTCGA GCCCCGCATT chrV:8495319-8495399 33 1.50e-05 TTAAGGTCAG GGGTTCGA GTCCCCTAGG chrII:5292337-5292417 44 3.08e-05 GAGAGGGCTG GGGTTCAA TTCCCCATAC chrX:9238848-9238928 65 3.08e-05 GAGAGGGCTG GGGTTCAA TTCCCCAT chrX:7323729-7323809 73 3.08e-05 GAGAGGGCTG GGGTTCAA chrIV:16398412-16398492 21 3.08e-05 GAGAGGGCTG GGGTTCAA TTCCCCATAC chrIV:16399170-16399250 63 3.08e-05 GAGAGGGCTG GGGTTCAA TTCCCCATAC chrV:9318190-9318270 61 3.08e-05 GAGAAGTCTG GGGTTCAA TTCCCCATAC chrIV:14225093-14225173 58 3.08e-05 GAGAGGTCCC GGGTTCAA TCCCCGGTTC chrX:6903099-6903179 26 4.66e-05 GAAGAGAGTG GGATTCGA ACCCACGCCC chrIII:12399930-12400010 10 6.32e-05 CGGGTCGCA GGATTCAA AGTCCTGAGT chrX:9078268-9078348 17 6.32e-05 TCGGGTCGCA GGATTCAA AGTCCTGAGT chrIII:6970251-6970331 38 6.32e-05 AGTCGGTGAA GGATTCAA CACAAAGTGG chrII:3567723-3567803 52 7.67e-05 GCCCAATGCG GGGCTCGA ACCCGCGACA chrIII:13225143-13225223 30 7.67e-05 GCTCCCGGGT GGGCTCGA ACCACCAACC chrII:3439390-3439470 15 7.67e-05 GCCCAATGCG GGGCTCGA ACCCGCGACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:11757828-11757908 1.5e-05 13_[+3]_59 chrII:7001639-7001719 1.5e-05 36_[+3]_36 chrIV:2657417-2657497 1.5e-05 25_[+3]_47 chrX:4789109-4789189 1.5e-05 72_[+3] chrIV:5038918-5038998 1.5e-05 51_[+3]_21 chrX:13714897-13714977 1.5e-05 40_[+3]_32 chrV:8495319-8495399 1.5e-05 32_[+3]_40 chrII:5292337-5292417 3.1e-05 43_[+3]_29 chrX:9238848-9238928 3.1e-05 64_[+3]_8 chrX:7323729-7323809 3.1e-05 72_[+3] chrIV:16398412-16398492 3.1e-05 20_[+3]_52 chrIV:16399170-16399250 3.1e-05 62_[+3]_10 chrV:9318190-9318270 3.1e-05 60_[+3]_12 chrIV:14225093-14225173 3.1e-05 57_[+3]_15 chrX:6903099-6903179 4.7e-05 25_[+3]_47 chrIII:12399930-12400010 6.3e-05 9_[+3]_63 chrX:9078268-9078348 6.3e-05 16_[+3]_56 chrIII:6970251-6970331 6.3e-05 37_[+3]_35 chrII:3567723-3567803 7.7e-05 51_[+3]_21 chrIII:13225143-13225223 7.7e-05 29_[+3]_43 chrII:3439390-3439470 7.7e-05 14_[+3]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGTTCRA width=8 seqs=21 chrX:11757828-11757908 ( 14) GGGTTCGA 1 chrII:7001639-7001719 ( 37) GGGTTCGA 1 chrIV:2657417-2657497 ( 26) GGGTTCGA 1 chrX:4789109-4789189 ( 73) GGGTTCGA 1 chrIV:5038918-5038998 ( 52) GGGTTCGA 1 chrX:13714897-13714977 ( 41) GGGTTCGA 1 chrV:8495319-8495399 ( 33) GGGTTCGA 1 chrII:5292337-5292417 ( 44) GGGTTCAA 1 chrX:9238848-9238928 ( 65) GGGTTCAA 1 chrX:7323729-7323809 ( 73) GGGTTCAA 1 chrIV:16398412-16398492 ( 21) GGGTTCAA 1 chrIV:16399170-16399250 ( 63) GGGTTCAA 1 chrV:9318190-9318270 ( 61) GGGTTCAA 1 chrIV:14225093-14225173 ( 58) GGGTTCAA 1 chrX:6903099-6903179 ( 26) GGATTCGA 1 chrIII:12399930-12400010 ( 10) GGATTCAA 1 chrX:9078268-9078348 ( 17) GGATTCAA 1 chrIII:6970251-6970331 ( 38) GGATTCAA 1 chrII:3567723-3567803 ( 52) GGGCTCGA 1 chrIII:13225143-13225223 ( 30) GGGCTCGA 1 chrII:3439390-3439470 ( 15) GGGCTCGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.0668 E= 3.5e-003 -1104 -1104 202 -1104 -1104 -1104 202 -1104 -44 -1104 172 -1104 -1104 -71 -1104 172 -1104 -1104 -1104 194 -1104 209 -1104 -1104 88 -1104 109 -1104 195 -1104 -1104 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 3.5e-003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.190476 0.000000 0.809524 0.000000 0.000000 0.142857 0.000000 0.857143 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.476190 0.000000 0.523810 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGTTCRA MEME-3 regular expression -------------------------------------------------------------------------------- GGGTTC[GA]A -------------------------------------------------------------------------------- Time 14.70 secs. ******************************************************************************** ******************************************************************************** MOTIF GCGCTCTA MEME-4 width = 8 sites = 14 llr = 138 E-value = 3.8e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 Description -------------------------------------------------------------------------------- Simplified A 1:1::::a pos.-specific C :a1a:a:: probability G 9:7::::: matrix T ::1:a:a: bits 2.1 * * * 1.9 * ***** 1.7 * ***** 1.5 ** ***** Relative 1.3 ** ***** Entropy 1.0 ** ***** (14.3 bits) 0.8 ** ***** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCGCTCTA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:2889357-2889437 25 1.36e-05 TTAGGCAAGC GCGCTCTA TGGAGAATCG chrX:12458151-12458231 71 1.36e-05 TGCTAAGGGA GCGCTCTA CC chrX:6292306-6292386 18 1.36e-05 TGCAAAGCGA GCGCTCTA CCCCTGAGCT chrIV:16389311-16389391 33 1.36e-05 AGTTGCAAGT GCGCTCTA ATGATAATTT chrX:9622809-9622889 61 1.36e-05 TGCTAAGGGA GCGCTCTA CCACTGAGCT chrV:9549648-9549728 25 1.36e-05 ccatgcaaat gcgctcta ctgataattg chrV:15480021-15480101 10 1.36e-05 GCGAAGCGG GCGCTCTA CCTCTGAGCT chrI:6838257-6838337 13 1.36e-05 GGGGTGAAGG GCGCTCTA TTGATAAATA chrV:16370219-16370299 9 2.79e-05 TGCACCTT GCACTCTA CGCCTTTCCT chrIII:4213367-4213447 64 2.79e-05 GGCCCAATAG GCACTCTA GTAGGCTCA chrX:5451191-5451271 59 4.22e-05 TAAAAGTCTC ACGCTCTA CCAACTGAGC chrX:9024402-9024482 57 4.22e-05 TACAAGACCA ACGCTCTA CCACTGAGCT chrI:7492073-7492153 72 5.51e-05 ATGTGACTCC GCCCTCTA C chrX:3605902-3605982 66 6.94e-05 ACAAGTCATG GCTCTCTA GTGAGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:2889357-2889437 1.4e-05 24_[+4]_48 chrX:12458151-12458231 1.4e-05 70_[+4]_2 chrX:6292306-6292386 1.4e-05 17_[+4]_55 chrIV:16389311-16389391 1.4e-05 32_[+4]_40 chrX:9622809-9622889 1.4e-05 60_[+4]_12 chrV:9549648-9549728 1.4e-05 24_[+4]_48 chrV:15480021-15480101 1.4e-05 9_[+4]_63 chrI:6838257-6838337 1.4e-05 12_[+4]_60 chrV:16370219-16370299 2.8e-05 8_[+4]_64 chrIII:4213367-4213447 2.8e-05 63_[+4]_9 chrX:5451191-5451271 4.2e-05 58_[+4]_14 chrX:9024402-9024482 4.2e-05 56_[+4]_16 chrI:7492073-7492153 5.5e-05 71_[+4]_1 chrX:3605902-3605982 6.9e-05 65_[+4]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGCTCTA width=8 seqs=14 chrII:2889357-2889437 ( 25) GCGCTCTA 1 chrX:12458151-12458231 ( 71) GCGCTCTA 1 chrX:6292306-6292386 ( 18) GCGCTCTA 1 chrIV:16389311-16389391 ( 33) GCGCTCTA 1 chrX:9622809-9622889 ( 61) GCGCTCTA 1 chrV:9549648-9549728 ( 25) GCGCTCTA 1 chrV:15480021-15480101 ( 10) GCGCTCTA 1 chrI:6838257-6838337 ( 13) GCGCTCTA 1 chrV:16370219-16370299 ( 9) GCACTCTA 1 chrIII:4213367-4213447 ( 64) GCACTCTA 1 chrX:5451191-5451271 ( 59) ACGCTCTA 1 chrX:9024402-9024482 ( 57) ACGCTCTA 1 chrI:7492073-7492153 ( 72) GCCCTCTA 1 chrX:3605902-3605982 ( 66) GCTCTCTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.9532 E= 3.8e+001 -86 -1045 180 -1045 -1045 209 -1045 -1045 -86 -171 154 -186 -1045 209 -1045 -1045 -1045 -1045 -1045 194 -1045 209 -1045 -1045 -1045 -1045 -1045 194 195 -1045 -1045 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 3.8e+001 0.142857 0.000000 0.857143 0.000000 0.000000 1.000000 0.000000 0.000000 0.142857 0.071429 0.714286 0.071429 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGCTCTA MEME-4 regular expression -------------------------------------------------------------------------------- GCGCTCTA -------------------------------------------------------------------------------- Time 18.31 secs. ******************************************************************************** ******************************************************************************** MOTIF TGGSMGAG MEME-5 width = 8 sites = 16 llr = 156 E-value = 1.2e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::4:a: pos.-specific C :::46::: probability G :aa6:a:a matrix T a::::::: bits 2.1 ** * * 1.9 *** *** 1.7 *** *** 1.5 *** *** Relative 1.3 *** *** Entropy 1.0 ******** (14.1 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGGGCGAG consensus CA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIII:354796-354876 27 1.42e-05 GAGTAAGCGA TGGGCGAG TGTCACACGA chrII:13886600-13886680 73 1.42e-05 CGGGCACTGC TGGGCGAG chrV:727447-727527 17 1.42e-05 CCAATCACGT TGGGCGAG GTAGTCCTCG chrI:5706960-5707040 30 2.77e-05 GACGCGTTGC TGGCCGAG TGGTTGTGCG chrX:13442636-13442716 14 2.77e-05 TGTGATCAGG TGGCCGAG TGGTTAAGGC chrIII:8639240-8639320 73 2.77e-05 ATCGCACGGA TGGCCGAG chrV:53452-53532 31 2.77e-05 gtgtttcgca tggccgag tggttagtac chrIII:11091118-11091198 56 2.77e-05 ACGAATGTGT TGGCCGAG TGCAAGTGAC chrIII:5308447-5308527 9 2.77e-05 GGAGGCCA TGGCCGAG TTTTGACCTA chrV:6888932-6889012 1 4.34e-05 . TGGgagag agagagagat chrII:5292337-5292417 31 4.34e-05 TCCCTTAGCA TGGGAGAG GGCTGGGGTT chrX:9238848-9238928 52 4.34e-05 TCCCTTAGCA TGGGAGAG GGCTGGGGTT chrX:7323729-7323809 60 4.34e-05 TCCCTTAGCA TGGGAGAG GGCTGGGGTT chrIV:16398412-16398492 8 4.34e-05 CTTAGCA TGGGAGAG GGCTGGGGTT chrIV:16399170-16399250 50 4.34e-05 TCCCTTAGCA TGGGAGAG GGCTGGGGTT chrV:6335340-6335420 73 5.84e-05 TATAGCTCAG TGGCAGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIII:354796-354876 1.4e-05 26_[+5]_46 chrII:13886600-13886680 1.4e-05 72_[+5] chrV:727447-727527 1.4e-05 16_[+5]_56 chrI:5706960-5707040 2.8e-05 29_[+5]_43 chrX:13442636-13442716 2.8e-05 13_[+5]_59 chrIII:8639240-8639320 2.8e-05 72_[+5] chrV:53452-53532 2.8e-05 30_[+5]_42 chrIII:11091118-11091198 2.8e-05 55_[+5]_17 chrIII:5308447-5308527 2.8e-05 8_[+5]_64 chrV:6888932-6889012 4.3e-05 [+5]_72 chrII:5292337-5292417 4.3e-05 30_[+5]_42 chrX:9238848-9238928 4.3e-05 51_[+5]_21 chrX:7323729-7323809 4.3e-05 59_[+5]_13 chrIV:16398412-16398492 4.3e-05 7_[+5]_65 chrIV:16399170-16399250 4.3e-05 49_[+5]_23 chrV:6335340-6335420 5.8e-05 72_[+5] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGSMGAG width=8 seqs=16 chrIII:354796-354876 ( 27) TGGGCGAG 1 chrII:13886600-13886680 ( 73) TGGGCGAG 1 chrV:727447-727527 ( 17) TGGGCGAG 1 chrI:5706960-5707040 ( 30) TGGCCGAG 1 chrX:13442636-13442716 ( 14) TGGCCGAG 1 chrIII:8639240-8639320 ( 73) TGGCCGAG 1 chrV:53452-53532 ( 31) TGGCCGAG 1 chrIII:11091118-11091198 ( 56) TGGCCGAG 1 chrIII:5308447-5308527 ( 9) TGGCCGAG 1 chrV:6888932-6889012 ( 1) TGGGAGAG 1 chrII:5292337-5292417 ( 31) TGGGAGAG 1 chrX:9238848-9238928 ( 52) TGGGAGAG 1 chrX:7323729-7323809 ( 60) TGGGAGAG 1 chrIV:16398412-16398492 ( 8) TGGGAGAG 1 chrIV:16399170-16399250 ( 50) TGGGAGAG 1 chrV:6335340-6335420 ( 73) TGGCAGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.1543 E= 1.2e+001 -1064 -1064 -1064 194 -1064 -1064 202 -1064 -1064 -1064 202 -1064 -1064 90 119 -1064 75 126 -1064 -1064 -1064 -1064 202 -1064 195 -1064 -1064 -1064 -1064 -1064 202 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 16 E= 1.2e+001 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.437500 0.562500 0.000000 0.437500 0.562500 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGSMGAG MEME-5 regular expression -------------------------------------------------------------------------------- TGG[GC][CA]GAG -------------------------------------------------------------------------------- Time 21.87 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:13653380-13653460 4.08e-01 80 chrII:8625265-8625345 2.97e-01 80 chrII:8602920-8603000 9.91e-01 80 chrII:8631856-8631936 9.96e-01 80 chrIII:8446736-8446816 9.79e-01 80 chrIV:8511616-8511696 9.98e-01 80 chrV:8495319-8495399 3.69e-02 32_[+3(1.50e-05)]_40 chrIV:3645715-3645795 4.16e-01 80 chrIV:13725260-13725340 8.84e-01 80 chrII:8602719-8602799 9.45e-01 80 chrIV:7960805-7960885 6.24e-01 80 chrV:7776914-7776994 6.76e-01 80 chrX:13782219-13782299 3.08e-04 36_[+1(1.50e-05)]_2_[+2(1.49e-05)]_\ 26 chrI:5985541-5985621 4.25e-01 80 chrII:13521460-13521540 9.54e-01 80 chrIV:5947215-5947295 7.34e-01 80 chrIV:12834068-12834148 4.48e-01 80 chrV:2664638-2664718 7.33e-01 80 chrV:6559697-6559777 5.53e-03 66_[+1(1.50e-05)]_6 chrV:727447-727527 4.10e-03 16_[+5(1.42e-05)]_56 chrI:12905801-12905881 7.05e-01 80 chrI:7058053-7058133 2.99e-01 [+1(5.56e-05)]_72 chrX:5713626-5713706 2.71e-05 32_[+1(1.50e-05)]_2_[+2(1.49e-05)]_\ 30 chrII:8625465-8625545 6.83e-01 80 chrIV:16503775-16503855 9.99e-01 80 chrIII:13019454-13019534 1.19e-01 80 chrIII:6970251-6970331 3.30e-02 37_[+3(6.32e-05)]_35 chrI:4790523-4790603 9.89e-01 80 chrIII:4213367-4213447 2.16e-02 63_[+4(2.79e-05)]_9 chrX:13714897-13714977 2.66e-04 7_[+2(1.49e-05)]_25_[+3(1.50e-05)]_\ 32 chrIV:991397-991477 9.60e-01 80 chrI:6847202-6847282 4.15e-01 80 chrV:8499622-8499702 9.26e-02 80 chrIV:4077029-4077109 9.95e-01 80 chrV:3613000-3613080 9.56e-02 80 chrI:9328480-9328560 9.98e-01 80 chrIV:14225093-14225173 1.69e-02 57_[+3(3.08e-05)]_15 chrX:487907-487987 9.46e-01 80 chrI:6838257-6838337 1.91e-02 12_[+4(1.36e-05)]_60 chrV:6335340-6335420 3.60e-04 64_[+1(1.50e-05)]_[+5(5.84e-05)] chrI:229366-229446 9.87e-01 80 chrX:14437986-14438066 9.93e-01 80 chrI:6135805-6135885 1.82e-05 31_[+1(1.50e-05)]_2_[+2(1.49e-05)]_\ 31 chrI:111208-111288 6.51e-01 80 chrII:9046435-9046515 1.21e-01 80 chrI:2316403-2316483 5.35e-01 80 chrX:16643410-16643490 1.24e-01 80 chrV:8496196-8496276 4.29e-01 80 chrIV:7313409-7313489 6.20e-01 80 chrIV:5038918-5038998 2.03e-07 8_[+1(1.50e-05)]_2_[+2(1.49e-05)]_\ 25_[+3(1.50e-05)]_21 chrII:14019741-14019821 2.90e-01 80 chrII:3964508-3964588 5.55e-01 80 chrIV:4254970-4255050 4.87e-02 80 chrIV:4347758-4347838 9.41e-01 80 chrX:9024402-9024482 3.21e-02 56_[+4(4.22e-05)]_16 chrI:1835108-1835188 9.68e-01 80 chrIV:1904014-1904094 2.94e-01 80 chrV:14028433-14028513 5.45e-02 80 chrIII:10506143-10506223 3.56e-01 80 chrX:7378715-7378795 9.97e-01 80 chrV:12038876-12038956 6.73e-02 80 chrIV:8499791-8499871 8.35e-01 80 chrIV:7313620-7313700 3.97e-01 80 chrII:10545270-10545350 3.41e-01 80 chrIII:6374280-6374360 1.30e-01 80 chrII:4590946-4591026 9.80e-01 80 chrV:1870810-1870890 5.00e-01 80 chrIV:1460414-1460494 9.56e-01 80 chrV:15480021-15480101 1.83e-02 9_[+4(1.36e-05)]_63 chrV:9318190-9318270 1.53e-06 18_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 25_[+3(3.08e-05)]_12 chrV:1373846-1373926 5.91e-01 80 chrX:11933748-11933828 7.14e-01 80 chrIV:2602924-2603004 3.10e-02 80 chrV:5284764-5284844 7.65e-01 80 chrX:2362998-2363078 7.53e-01 80 chrX:6867920-6868000 6.31e-01 80 chrX:4789109-4789189 2.93e-07 29_[+1(1.50e-05)]_2_[+2(1.49e-05)]_\ 25_[+3(1.50e-05)] chrII:2378637-2378717 8.84e-01 80 chrV:14686226-14686306 8.47e-01 80 chrII:8626973-8627053 9.36e-01 80 chrIII:4930415-4930495 4.31e-01 80 chrIII:4999053-4999133 1.00e+00 80 chrV:8651446-8651526 1.00e+00 80 chrX:5213587-5213667 4.47e-01 80 chrV:1806248-1806328 3.36e-01 80 chrIV:1769276-1769356 7.51e-01 80 chrX:6286293-6286373 7.96e-05 34_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 29 chrX:5451191-5451271 4.81e-03 58_[+4(4.22e-05)]_14 chrIV:8662635-8662715 8.28e-01 80 chrX:5818483-5818563 2.33e-01 80 chrI:7238183-7238263 7.75e-01 80 chrII:5661347-5661427 1.00e+00 80 chrX:13653728-13653808 3.16e-05 6_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 57 chrIV:16399170-16399250 4.54e-08 20_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 12_[+5(4.34e-05)]_5_[+3(3.08e-05)]_10 chrII:13886600-13886680 1.05e-02 72_[+5(1.42e-05)] chrI:747029-747109 9.74e-01 80 chrV:14267474-14267554 8.92e-01 80 chrII:2737168-2737248 1.75e-01 80 chrIII:1419798-1419878 8.73e-01 80 chrII:11167233-11167313 4.94e-01 80 chrV:14324882-14324962 8.42e-01 80 chrII:2986217-2986297 3.99e-01 80 chrII:832800-832880 3.99e-01 80 chrV:9549648-9549728 3.60e-02 24_[+4(1.36e-05)]_48 chrX:12872338-12872418 3.95e-01 80 chrX:13886241-13886321 6.98e-01 80 chrIII:11792750-11792830 5.10e-05 38_[+1(1.50e-05)]_1_[+2(2.84e-05)]_\ 25 chrIV:3612054-3612134 1.05e-01 80 chrX:13038875-13038955 8.49e-01 80 chrX:8624024-8624104 8.46e-01 80 chrIV:7083652-7083732 1.00e+00 80 chrI:10553089-10553169 7.80e-01 80 chrV:19430583-19430663 5.00e-01 80 chrV:10020895-10020975 5.24e-02 80 chrX:9091631-9091711 2.86e-01 80 chrIV:2805686-2805766 8.44e-01 80 chrX:14946544-14946624 9.78e-01 80 chrX:461792-461872 2.95e-01 80 chrI:2304284-2304364 1.12e-02 80 chrV:15001698-15001778 8.34e-01 80 chrX:12172014-12172094 6.44e-02 80 chrIV:2657417-2657497 5.03e-02 25_[+3(1.50e-05)]_47 chrIII:10624721-10624801 1.93e-01 80 chrIII:2876056-2876136 6.89e-01 80 chrV:6276990-6277070 4.53e-01 80 chrII:7003185-7003265 1.53e-01 80 chrIII:7727870-7727950 8.68e-01 80 chrII:3439390-3439470 7.70e-03 14_[+3(7.67e-05)]_58 chrIII:13225143-13225223 4.64e-02 29_[+3(7.67e-05)]_43 chrIII:5308447-5308527 2.72e-02 8_[+5(2.77e-05)]_64 chrIV:9563770-9563850 4.35e-01 80 chrIV:4243975-4244055 4.77e-01 80 chrIV:16398412-16398492 6.36e-04 7_[+5(4.34e-05)]_5_[+3(3.08e-05)]_\ 52 chrV:8349065-8349145 6.06e-01 80 chrX:8163688-8163768 5.67e-03 80 chrX:11252622-11252702 1.01e-01 51_[+1(5.56e-05)]_21 chrIII:11627821-11627901 9.01e-01 80 chrII:11376765-11376845 3.78e-01 80 chrV:6606318-6606398 2.74e-01 80 chrII:8547120-8547200 6.34e-01 80 chrX:14804834-14804914 3.35e-06 49_[+1(1.50e-05)]_1_[+2(2.84e-05)]_\ 14 chrI:7658259-7658339 8.41e-01 80 chrV:20729149-20729229 9.52e-01 80 chrII:6842761-6842841 3.44e-01 80 chrIII:11091118-11091198 1.78e-02 55_[+5(2.77e-05)]_17 chrIV:867005-867085 2.79e-01 80 chrX:11379502-11379582 5.17e-01 80 chrV:10855531-10855611 5.72e-01 80 chrV:20694164-20694244 5.49e-01 80 chrX:9622809-9622889 1.53e-03 60_[+4(1.36e-05)]_12 chrX:6089002-6089082 9.96e-01 80 chrIV:6097195-6097275 9.92e-01 80 chrIV:17245449-17245529 3.80e-01 80 chrI:12954675-12954755 9.96e-01 80 chrV:14833207-14833287 7.86e-01 80 chrIV:11026166-11026246 9.15e-01 80 chrI:7492073-7492153 3.46e-02 71_[+4(5.51e-05)]_1 chrX:1880820-1880900 4.78e-01 80 chrX:8154629-8154709 9.59e-01 80 chrII:7001639-7001719 1.43e-04 3_[+2(1.49e-05)]_25_[+3(1.50e-05)]_\ 36 chrI:2069556-2069636 7.87e-01 80 chrIII:354796-354876 6.98e-03 26_[+5(1.42e-05)]_46 chrII:10502778-10502858 4.19e-01 80 chrI:10330608-10330688 2.96e-01 80 chrX:7323729-7323809 4.54e-08 30_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 12_[+5(4.34e-05)]_5_[+3(3.08e-05)] chrV:19622462-19622542 3.47e-01 80 chrX:8608856-8608936 6.09e-01 80 chrV:11113317-11113397 7.01e-01 80 chrX:9238848-9238928 4.54e-08 22_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 12_[+5(4.34e-05)]_5_[+3(3.08e-05)]_8 chrIV:6117942-6118022 4.25e-01 80 chrII:5292337-5292417 4.54e-08 1_[+1(1.50e-05)]_1_[+2(1.49e-05)]_\ 12_[+5(4.34e-05)]_5_[+3(3.08e-05)]_29 chrX:10772284-10772364 8.01e-01 80 chrX:8550250-8550330 9.70e-01 80 chrV:53452-53532 4.99e-02 30_[+5(2.77e-05)]_42 chrX:1837917-1837997 2.68e-01 80 chrII:9968429-9968509 8.95e-01 80 chrIV:12086613-12086693 5.25e-03 30_[+1(6.99e-05)]_42 chrII:3567723-3567803 9.64e-02 51_[+3(7.67e-05)]_21 chrV:19126042-19126122 7.36e-06 8_[+1(1.50e-05)]_2_[+2(4.25e-05)]_\ 54 chrIV:16389311-16389391 2.16e-02 32_[+4(1.36e-05)]_40 chrX:8638839-8638919 9.98e-01 80 chrIV:4705361-4705441 8.39e-02 80 chrX:9078268-9078348 1.74e-01 16_[+3(6.32e-05)]_56 chrX:768180-768260 5.52e-01 80 chrIV:9477729-9477809 9.44e-01 80 chrX:14169770-14169850 2.49e-01 80 chrI:3823-3903 6.20e-02 43_[+1(5.56e-05)]_29 chrIV:1420187-1420267 4.71e-01 80 chrI:2514238-2514318 9.34e-01 80 chrIII:12399930-12400010 7.87e-02 9_[+3(6.32e-05)]_63 chrIV:5209692-5209772 4.02e-01 80 chrI:3638909-3638989 8.45e-01 80 chrII:15120291-15120371 7.51e-01 80 chrX:12563807-12563887 8.30e-01 80 chrX:6292306-6292386 2.13e-02 17_[+4(1.36e-05)]_55 chrII:5782087-5782167 2.19e-01 80 chrV:12659592-12659672 6.76e-01 80 chrIV:11594301-11594381 9.29e-01 80 chrX:3605902-3605982 8.82e-02 65_[+4(6.94e-05)]_7 chrII:5358315-5358395 9.95e-01 80 chrX:12655576-12655656 1.86e-01 80 chrIV:7507566-7507646 8.70e-01 80 chrII:8107266-8107346 2.16e-01 80 chrX:9637801-9637881 8.72e-01 80 chrIII:835962-836042 4.23e-01 80 chrX:12458151-12458231 1.53e-03 70_[+4(1.36e-05)]_2 chrII:14018431-14018511 5.65e-01 80 chrI:11323366-11323446 9.84e-01 80 chrIII:8639240-8639320 1.41e-01 72_[+5(2.77e-05)] chrV:14688585-14688665 9.18e-01 80 chrX:17631061-17631141 9.09e-01 80 chrIII:10634192-10634272 6.08e-01 80 chrV:12780460-12780540 7.48e-01 80 chrII:2889357-2889437 2.98e-02 24_[+4(1.36e-05)]_48 chrII:14617024-14617104 1.03e-02 72_[+2(6.95e-05)] chrV:20580695-20580775 6.53e-01 80 chrII:6968322-6968402 8.26e-01 80 chrX:1379643-1379723 2.25e-01 80 chrV:9970287-9970367 5.53e-02 [+2(6.95e-05)]_72 chrIV:6556741-6556821 7.84e-01 80 chrX:7068580-7068660 1.62e-01 80 chrIII:1604624-1604704 7.70e-01 80 chrIII:4689689-4689769 9.48e-01 80 chrII:8075535-8075615 9.53e-01 80 chrII:11484806-11484886 5.88e-01 80 chrX:11757828-11757908 6.16e-02 13_[+3(1.50e-05)]_59 chrIV:3636704-3636784 1.33e-01 80 chrI:10565392-10565472 9.89e-01 80 chrIV:8527812-8527892 4.29e-03 80 chrIII:5602158-5602238 1.18e-01 80 chrX:12661208-12661288 1.57e-01 80 chrX:13442636-13442716 5.46e-03 13_[+5(2.77e-05)]_59 chrIV:11474174-11474254 1.13e-01 80 chrX:2227116-2227196 7.77e-01 80 chrII:15025832-15025912 8.12e-01 80 chrX:6903099-6903179 9.85e-02 25_[+3(4.66e-05)]_47 chrV:16370219-16370299 2.37e-02 8_[+4(2.79e-05)]_64 chrI:6212852-6212932 9.93e-01 80 chrIII:8937703-8937783 3.60e-02 80 chrX:15492864-15492944 6.56e-01 80 chrI:8259521-8259601 7.19e-01 80 chrIII:10461292-10461372 4.89e-01 80 chrI:5706960-5707040 3.06e-03 29_[+5(2.77e-05)]_43 chrIV:3294635-3294715 1.01e-01 80 chrII:4299390-4299470 2.31e-01 80 chrV:15085553-15085633 8.83e-03 80 chrV:16356002-16356082 9.99e-02 80 chrII:7200286-7200366 7.36e-02 42_[+4(9.81e-05)]_30 chrV:6888932-6889012 1.68e-02 [+5(4.34e-05)]_72 chrV:12491258-12491338 4.26e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n01.farnam.hpc.yale.internal ********************************************************************************