******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.10.0 (Release date: Wed May 21 10:35:36 2014 +1000) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net. This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://meme.nbcr.net. ******************************************************************************** ******************************************************************************** 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 ******************************************************************************** DATAFILE= motifs/194/194.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 31440 1.0000 500 31469 1.0000 500 42504 1.0000 500 42673 1.0000 500 17401 1.0000 500 42872 1.0000 500 17728 1.0000 500 43251 1.0000 500 25127 1.0000 500 13167 1.0000 500 46906 1.0000 500 46969 1.0000 500 13833 1.0000 500 21789 1.0000 500 47749 1.0000 500 48094 1.0000 500 48517 1.0000 500 22677 1.0000 500 22797 1.0000 500 51169 1.0000 500 54086 1.0000 500 18239 1.0000 500 8518 1.0000 500 2738 1.0000 500 43701 1.0000 500 18398 1.0000 500 49279 1.0000 500 49325 1.0000 500 49374 1.0000 500 4014 1.0000 500 50006 1.0000 500 40952 1.0000 500 50120 1.0000 500 16843 1.0000 500 43824 1.0000 500 43841 1.0000 500 18745 1.0000 500 50493 1.0000 500 33864 1.0000 500 44547 1.0000 500 44554 1.0000 500 26256 1.0000 500 41875 1.0000 500 11286 1.0000 500 7173 1.0000 500 3664 1.0000 500 19604 1.0000 500 45650 1.0000 500 12292 1.0000 500 45899 1.0000 500 12378 1.0000 500 27735 1.0000 500 42497 1.0000 500 48906 1.0000 500 34124 1.0000 500 44882 1.0000 500 46621 1.0000 500 49301 1.0000 500 41092 1.0000 500 44691 1.0000 500 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme motifs/194/194.seqs.fa -oc motifs/194 -dna -minw 12 -maxw 21 -nmotifs 3 -maxsize 500000 model: mod= zoops nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 12 maxw= 21 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 60 wnsites= 0.8 theta: prob= 1 spmap= uni spfuzz= 0.5 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 30000 N= 60 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.254 C 0.253 G 0.233 T 0.261 Background letter frequencies (from dataset with add-one prior applied): A 0.254 C 0.253 G 0.233 T 0.261 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 12 sites = 14 llr = 169 E-value = 5.7e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 43:::a:6:1:a pos.-specific C :11:1:a11::: probability G 61119:::9:a: matrix T :489:::4:9:: bits 2.1 * 1.9 ** ** 1.7 **** ** 1.5 **** **** Relative 1.3 **** **** Entropy 1.1 * ***** **** (17.4 bits) 0.8 * ***** **** 0.6 * ********** 0.4 * ********** 0.2 ************ 0.0 ------------ Multilevel GTTTGACAGTGA consensus AA T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 12378 284 2.32e-07 TCATGTGTCC ATTTGACAGTGA ACAATTCCAA 21789 188 2.89e-07 AAACGTATTT GATTGACTGTGA CGTAAGCGCT 42673 132 2.89e-07 CTGGATGGAT GATTGACTGTGA GATTGGCTCA 43251 76 4.54e-07 TGGAACTGTA AATTGACAGTGA GGGTTACACG 18239 158 7.39e-07 CAACGAGCTT GCTTGACTGTGA AAATACTTCT 48517 298 7.39e-07 CCTTTCGAGC GTGTGACAGTGA ATTGGATGGA 48906 148 7.94e-07 CGAACCGGTG AGTTGACAGTGA ACGAACGAAC 12292 131 9.16e-07 TCTCCAACGG GTTTGACACTGA CTGTACGTCG 33864 22 2.49e-06 CTTTTCATTG GTCTGACTGTGA AAAAGATTCC 50493 88 2.49e-06 TGCTATCTAC GATTGACAGAGA AAGAGAGAAA 40952 337 3.22e-06 TTTCTCTGGC ATTGGACAGTGA GTCACAAAAG 22797 83 4.33e-06 AGCTGGTAGG AGTTGACACTGA CAAACCAATC 49279 50 4.85e-06 ACACTATCCG GTGTGACCGTGA GTTTGTATTT 44547 3 6.76e-06 GT GCTTCACTGTGA GAATATCGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 12378 2.3e-07 283_[+1]_205 21789 2.9e-07 187_[+1]_301 42673 2.9e-07 131_[+1]_357 43251 4.5e-07 75_[+1]_413 18239 7.4e-07 157_[+1]_331 48517 7.4e-07 297_[+1]_191 48906 7.9e-07 147_[+1]_341 12292 9.2e-07 130_[+1]_358 33864 2.5e-06 21_[+1]_467 50493 2.5e-06 87_[+1]_401 40952 3.2e-06 336_[+1]_152 22797 4.3e-06 82_[+1]_406 49279 4.9e-06 49_[+1]_439 44547 6.8e-06 2_[+1]_486 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=12 seqs=14 12378 ( 284) ATTTGACAGTGA 1 21789 ( 188) GATTGACTGTGA 1 42673 ( 132) GATTGACTGTGA 1 43251 ( 76) AATTGACAGTGA 1 18239 ( 158) GCTTGACTGTGA 1 48517 ( 298) GTGTGACAGTGA 1 48906 ( 148) AGTTGACAGTGA 1 12292 ( 131) GTTTGACACTGA 1 33864 ( 22) GTCTGACTGTGA 1 50493 ( 88) GATTGACAGAGA 1 40952 ( 337) ATTGGACAGTGA 1 22797 ( 83) AGTTGACACTGA 1 49279 ( 50) GTGTGACCGTGA 1 44547 ( 3) GCTTCACTGTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 29340 bayes= 11.6385 E= 5.7e-002 49 -1045 146 -1045 17 -82 -70 72 -1045 -182 -70 159 -1045 -1045 -170 183 -1045 -182 199 -1045 198 -1045 -1045 -1045 -1045 198 -1045 -1045 117 -182 -1045 45 -1045 -82 188 -1045 -183 -1045 -1045 183 -1045 -1045 210 -1045 198 -1045 -1045 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 14 E= 5.7e-002 0.357143 0.000000 0.642857 0.000000 0.285714 0.142857 0.142857 0.428571 0.000000 0.071429 0.142857 0.785714 0.000000 0.000000 0.071429 0.928571 0.000000 0.071429 0.928571 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.571429 0.071429 0.000000 0.357143 0.000000 0.142857 0.857143 0.000000 0.071429 0.000000 0.000000 0.928571 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [GA][TA]TTGAC[AT]GTGA -------------------------------------------------------------------------------- Time 26.12 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 12 sites = 37 llr = 329 E-value = 2.4e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A ::4::4:751:6 pos.-specific C 9:16:47:37:2 probability G :a::9133:1a1 matrix T 1:4412::22:1 bits 2.1 * 1.9 * * 1.7 ** * * 1.5 ** * * Relative 1.3 ** * * Entropy 1.1 ** ** ** * (12.8 bits) 0.8 ** ** ** * 0.6 ***** ** ** 0.4 ***** ****** 0.2 ************ 0.0 ------------ Multilevel CGACGACAACGA consensus TT CGGC C sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 44882 361 5.57e-07 CCGACTCAAG CGATGACAACGA ATTTGTTGTC 48906 396 8.76e-07 TGTCTCTCTG CGTCGACGACGA TGGAATGGAA 47749 275 8.76e-07 GGGTGTTGTA CGTCGACATCGA AACGGAAATG 3664 139 1.76e-06 TCTTCATCGT CGTCGCCAACGC AACACTGGAA 19604 335 2.24e-06 CACTCCACGA CGTTGCCACCGA TTGGCAACCC 4014 2 2.61e-06 T CGTCGCCGCCGA ACAAACCTTT 51169 298 3.16e-06 GTGCGTTATC CGTTGACATCGA GCCATCCAGC 43701 469 6.99e-06 TACACCACTA CGACGACAACGG CGCACAAACC 49301 152 1.01e-05 TTTGCCGAAT CGATGACGTCGA TTCTCGACTC 11286 412 1.01e-05 AAATACGAAG CGATGGCAACGA AGGACAAATC 48094 293 1.13e-05 CCAATACGCT CGTCGGGAACGA ACGATCGATC 2738 440 1.68e-05 ACTTCGATCC CGACGCCGTCGC TCGGGCTCGT 21789 206 1.68e-05 GTGACGTAAG CGCTGACGACGA CATCTGTACG 17401 180 1.68e-05 TCTGTGAAGA CGACGACAAGGC TCACCCAATC 18239 470 1.88e-05 ATTTGCATCG CGCCGAGGACGA TCCTATTCGG 43841 255 2.31e-05 GCACCCCAGC CGTCTACACCGA CCATCGATTG 50493 288 2.55e-05 TTCGATTCGT CGTCGTCGCCGC CACTACTACT 49374 159 2.82e-05 CTGACTGGAA CGACTCCACCGA TCGCCGGCCG 27735 58 3.45e-05 TCGACTAGTC CGACGAGATGGA ACATCAATCA 44691 324 3.80e-05 CATTGGCCAT CGATGACACTGC GTGATTCCGC 42497 369 3.80e-05 CAGTATACAG CGTCGCGACCGT TTCTCCTTTC 41875 385 3.80e-05 CGCTGCGCAG CGACGCGACCGT CACTGATGAC 54086 413 3.80e-05 CCAACACGAG CGCCGCCGCCGC ACCAACGTAC 31469 284 3.80e-05 TATTGAAACT CGCCGACGATGA ATAGGTTCCG 25127 176 4.22e-05 CAAGCTATTG CGTCGCCGTGGA TAGTATGTAT 18398 337 4.60e-05 GTTTTACGTC CGATGCGAACGG TCGAAGATCT 43251 312 6.95e-05 GACCTGCGCC CGACGGGAAGGA GAGAGAGCGC 45650 444 8.19e-05 TCCCTATTGT CGTCGTCGAAGA CTACCGTAAG 48517 341 8.90e-05 TGAAAAAGAT CGATGCGACTGC ATTCCTTTCT 13833 98 8.90e-05 CAGCGTTGGT TGTCGACAATGA TGTACTTGTT 50120 7 9.60e-05 CAATGG CGCTGTCATCGC GTTCCCACCC 22797 392 1.03e-04 CGCGCTCGAA CGACGACAAAGT GGCCGCGGCT 33864 421 1.54e-04 GTCTGTCGTG CGTTGTGAGCGA TTTCTTTTAG 13167 371 1.54e-04 CCTTGGCAAA CGTCGTCATTGG CTTTGTCGGC 42504 485 1.64e-04 TTTCTCTCTC CGTTTCCACTGA CACC 22677 226 1.75e-04 ACGCTCCGAC CAATGCGAACGA GAACGCAGAC 26256 140 1.97e-04 CGCAGTGGTG TGACGTGAACGC ATCCTCCCAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 44882 5.6e-07 360_[+2]_128 48906 8.8e-07 395_[+2]_93 47749 8.8e-07 274_[+2]_214 3664 1.8e-06 138_[+2]_350 19604 2.2e-06 334_[+2]_154 4014 2.6e-06 1_[+2]_487 51169 3.2e-06 297_[+2]_191 43701 7e-06 468_[+2]_20 49301 1e-05 151_[+2]_337 11286 1e-05 411_[+2]_77 48094 1.1e-05 292_[+2]_196 2738 1.7e-05 439_[+2]_49 21789 1.7e-05 205_[+2]_283 17401 1.7e-05 179_[+2]_309 18239 1.9e-05 469_[+2]_19 43841 2.3e-05 254_[+2]_234 50493 2.6e-05 287_[+2]_201 49374 2.8e-05 158_[+2]_330 27735 3.5e-05 57_[+2]_431 44691 3.8e-05 323_[+2]_165 42497 3.8e-05 368_[+2]_120 41875 3.8e-05 384_[+2]_104 54086 3.8e-05 412_[+2]_76 31469 3.8e-05 283_[+2]_205 25127 4.2e-05 175_[+2]_313 18398 4.6e-05 336_[+2]_152 43251 6.9e-05 311_[+2]_177 45650 8.2e-05 443_[+2]_45 48517 8.9e-05 340_[+2]_148 13833 8.9e-05 97_[+2]_391 50120 9.6e-05 6_[+2]_482 22797 0.0001 391_[+2]_97 33864 0.00015 420_[+2]_68 13167 0.00015 370_[+2]_118 42504 0.00016 484_[+2]_4 22677 0.00017 225_[+2]_263 26256 0.0002 139_[+2]_349 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=12 seqs=37 44882 ( 361) CGATGACAACGA 1 48906 ( 396) CGTCGACGACGA 1 47749 ( 275) CGTCGACATCGA 1 3664 ( 139) CGTCGCCAACGC 1 19604 ( 335) CGTTGCCACCGA 1 4014 ( 2) CGTCGCCGCCGA 1 51169 ( 298) CGTTGACATCGA 1 43701 ( 469) CGACGACAACGG 1 49301 ( 152) CGATGACGTCGA 1 11286 ( 412) CGATGGCAACGA 1 48094 ( 293) CGTCGGGAACGA 1 2738 ( 440) CGACGCCGTCGC 1 21789 ( 206) CGCTGACGACGA 1 17401 ( 180) CGACGACAAGGC 1 18239 ( 470) CGCCGAGGACGA 1 43841 ( 255) CGTCTACACCGA 1 50493 ( 288) CGTCGTCGCCGC 1 49374 ( 159) CGACTCCACCGA 1 27735 ( 58) CGACGAGATGGA 1 44691 ( 324) CGATGACACTGC 1 42497 ( 369) CGTCGCGACCGT 1 41875 ( 385) CGACGCGACCGT 1 54086 ( 413) CGCCGCCGCCGC 1 31469 ( 284) CGCCGACGATGA 1 25127 ( 176) CGTCGCCGTGGA 1 18398 ( 337) CGATGCGAACGG 1 43251 ( 312) CGACGGGAAGGA 1 45650 ( 444) CGTCGTCGAAGA 1 48517 ( 341) CGATGCGACTGC 1 13833 ( 98) TGTCGACAATGA 1 50120 ( 7) CGCTGTCATCGC 1 22797 ( 392) CGACGACAAAGT 1 33864 ( 421) CGTTGTGAGCGA 1 13167 ( 371) CGTCGTCATTGG 1 42504 ( 485) CGTTTCCACTGA 1 22677 ( 226) CAATGCGAACGA 1 26256 ( 140) TGACGTGAACGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 29340 bayes= 9.79456 E= 2.4e+000 -1185 190 -1185 -227 -323 -1185 206 -1185 77 -90 -1185 73 -1185 136 -1185 43 -1185 -1185 198 -168 68 47 -152 -68 -1185 147 35 -1185 147 -1185 35 -1185 86 23 -310 -27 -223 142 -111 -68 -1185 -1185 210 -1185 123 -6 -152 -168 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 37 E= 2.4e+000 0.000000 0.945946 0.000000 0.054054 0.027027 0.000000 0.972973 0.000000 0.432432 0.135135 0.000000 0.432432 0.000000 0.648649 0.000000 0.351351 0.000000 0.000000 0.918919 0.081081 0.405405 0.351351 0.081081 0.162162 0.000000 0.702703 0.297297 0.000000 0.702703 0.000000 0.297297 0.000000 0.459459 0.297297 0.027027 0.216216 0.054054 0.675676 0.108108 0.162162 0.000000 0.000000 1.000000 0.000000 0.594595 0.243243 0.081081 0.081081 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- CG[AT][CT]G[AC][CG][AG][ACT]CG[AC] -------------------------------------------------------------------------------- Time 52.75 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 16 sites = 12 llr = 166 E-value = 2.8e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A a:639:63a:359482 pos.-specific C :a:6:9:5:a351618 probability G ::411141::3:::1: matrix T :::1:::2::::::1: bits 2.1 1.9 ** ** 1.7 ** * ** 1.5 ** ** ** * Relative 1.3 ** ** ** * * Entropy 1.1 *** *** ** *** * (20.0 bits) 0.8 *** *** ** ***** 0.6 *** *** ** ***** 0.4 ******* ******** 0.2 **************** 0.0 ---------------- Multilevel ACACACACACAAACAC consensus GA GA CC A sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 18745 239 1.70e-09 TAAGGTACCC ACACACACACACACAC ACACACACAC 22677 437 1.70e-09 CACGACAAAA ACACACACACACACAC ACATACCAAT 48094 445 1.69e-08 ACACAGATAC ACAAACACACCCACAC GCCTACCAAC 44691 410 4.98e-08 TCCTTTCGTT ACACACACACACACAA GTAGCAAAAT 48906 160 7.29e-08 TTGACAGTGA ACGAACGAACGAACAC ATGCGAAAAG 7173 272 1.23e-07 TCGGTCCGGT ACGCACACACGCACCC TGTTCACCCT 17401 135 2.67e-07 CCAGTGAGAT ACACACATACCAAAAA GTGCGTAATT 16843 409 6.91e-07 ATGGTTCGCC ACAAGCAAACAAAAAC CCGGCGAGCG 48517 231 7.36e-07 TTTCGGAAGG ACAGACGCACCAACGC TTTTCCAAAA 42872 50 7.36e-07 GGTAGTGGAC ACGCACGTACGACAAC CGTGAAAAGT 41875 58 8.97e-07 GCTGAGCTCG ACGTACGGACGAAAAC ACTTGTCGAA 13167 141 2.44e-06 CGAGGTTCCT ACGCAGGAACCCAATC AAGCTCCCAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 18745 1.7e-09 238_[+3]_246 22677 1.7e-09 436_[+3]_48 48094 1.7e-08 444_[+3]_40 44691 5e-08 409_[+3]_75 48906 7.3e-08 159_[+3]_325 7173 1.2e-07 271_[+3]_213 17401 2.7e-07 134_[+3]_350 16843 6.9e-07 408_[+3]_76 48517 7.4e-07 230_[+3]_254 42872 7.4e-07 49_[+3]_435 41875 9e-07 57_[+3]_427 13167 2.4e-06 140_[+3]_344 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=16 seqs=12 18745 ( 239) ACACACACACACACAC 1 22677 ( 437) ACACACACACACACAC 1 48094 ( 445) ACAAACACACCCACAC 1 44691 ( 410) ACACACACACACACAA 1 48906 ( 160) ACGAACGAACGAACAC 1 7173 ( 272) ACGCACACACGCACCC 1 17401 ( 135) ACACACATACCAAAAA 1 16843 ( 409) ACAAGCAAACAAAAAC 1 48517 ( 231) ACAGACGCACCAACGC 1 42872 ( 50) ACGCACGTACGACAAC 1 41875 ( 58) ACGTACGGACGAAAAC 1 13167 ( 141) ACGCAGGAACCCAATC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 29100 bayes= 12.343 E= 2.8e+000 198 -1023 -1023 -1023 -1023 198 -1023 -1023 120 -1023 84 -1023 -2 121 -148 -164 185 -1023 -148 -1023 -1023 186 -148 -1023 120 -1023 84 -1023 -2 98 -148 -64 198 -1023 -1023 -1023 -1023 198 -1023 -1023 39 40 52 -1023 98 98 -1023 -1023 185 -160 -1023 -1023 72 121 -1023 -1023 156 -160 -148 -164 -60 172 -1023 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 12 E= 2.8e+000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.583333 0.000000 0.416667 0.000000 0.250000 0.583333 0.083333 0.083333 0.916667 0.000000 0.083333 0.000000 0.000000 0.916667 0.083333 0.000000 0.583333 0.000000 0.416667 0.000000 0.250000 0.500000 0.083333 0.166667 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.333333 0.333333 0.333333 0.000000 0.500000 0.500000 0.000000 0.000000 0.916667 0.083333 0.000000 0.000000 0.416667 0.583333 0.000000 0.000000 0.750000 0.083333 0.083333 0.083333 0.166667 0.833333 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- AC[AG][CA]AC[AG][CA]AC[ACG][AC]A[CA]AC -------------------------------------------------------------------------------- Time 78.24 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 31440 2.47e-01 500 31469 9.97e-02 283_[+2(3.80e-05)]_205 42504 5.07e-01 500 42673 1.89e-03 131_[+1(2.89e-07)]_357 17401 8.05e-05 134_[+3(2.67e-07)]_29_\ [+2(1.68e-05)]_309 42872 5.34e-03 49_[+3(7.36e-07)]_435 17728 5.21e-01 500 43251 1.98e-04 75_[+1(4.54e-07)]_224_\ [+2(6.95e-05)]_177 25127 2.55e-02 175_[+2(4.22e-05)]_313 13167 3.59e-03 140_[+3(2.44e-06)]_344 46906 6.85e-01 500 46969 7.91e-01 500 13833 1.98e-01 97_[+2(8.90e-05)]_391 21789 8.77e-06 187_[+1(2.89e-07)]_6_[+2(1.68e-05)]_\ 283 47749 6.95e-03 274_[+2(8.76e-07)]_214 48094 6.97e-06 292_[+2(1.13e-05)]_140_\ [+3(1.69e-08)]_40 48517 1.10e-06 230_[+3(7.36e-07)]_51_\ [+1(7.39e-07)]_31_[+2(8.90e-05)]_148 22677 7.61e-06 436_[+3(1.70e-09)]_48 22797 2.36e-03 82_[+1(4.33e-06)]_406 51169 2.53e-02 216_[+2(7.55e-05)]_69_\ [+2(3.16e-06)]_191 54086 3.55e-02 412_[+2(3.80e-05)]_33_\ [+2(6.95e-05)]_31 18239 1.17e-04 157_[+1(7.39e-07)]_300_\ [+2(1.88e-05)]_19 8518 5.91e-01 500 2738 5.74e-02 439_[+2(1.68e-05)]_49 43701 3.73e-03 468_[+2(6.99e-06)]_20 18398 1.12e-01 336_[+2(4.60e-05)]_152 49279 2.55e-02 49_[+1(4.85e-06)]_439 49325 7.70e-01 500 49374 9.50e-02 158_[+2(2.82e-05)]_330 4014 7.15e-03 1_[+2(2.61e-06)]_399_[+2(2.55e-05)]_\ 76 50006 8.87e-01 500 40952 1.51e-02 336_[+1(3.22e-06)]_152 50120 1.55e-01 6_[+2(9.60e-05)]_482 16843 5.24e-03 408_[+3(6.91e-07)]_76 43824 2.82e-01 500 43841 5.71e-02 254_[+2(2.31e-05)]_234 18745 4.69e-05 238_[+3(1.70e-09)]_[+3(1.70e-09)]_\ 230 50493 9.97e-05 87_[+1(2.49e-06)]_188_\ [+2(2.55e-05)]_201 33864 4.72e-03 21_[+1(2.49e-06)]_467 44547 2.02e-02 2_[+1(6.76e-06)]_486 44554 2.88e-01 500 26256 1.46e-01 500 41875 3.17e-04 57_[+3(8.97e-07)]_311_\ [+2(3.80e-05)]_104 11286 2.55e-02 411_[+2(1.01e-05)]_77 7173 2.54e-04 271_[+3(1.23e-07)]_85_\ [+3(2.42e-05)]_112 3664 5.99e-03 138_[+2(1.76e-06)]_350 19604 1.32e-03 334_[+2(2.24e-06)]_154 45650 2.36e-01 443_[+2(8.19e-05)]_45 12292 2.33e-03 130_[+1(9.16e-07)]_358 45899 1.89e-01 500 12378 4.96e-03 283_[+1(2.32e-07)]_205 27735 1.40e-01 57_[+2(3.45e-05)]_431 42497 1.12e-01 368_[+2(3.80e-05)]_120 48906 2.12e-09 147_[+1(7.94e-07)]_[+3(7.29e-08)]_\ 220_[+2(8.76e-07)]_93 34124 3.19e-01 500 44882 5.18e-04 360_[+2(5.57e-07)]_128 46621 5.65e-01 500 49301 7.37e-02 151_[+2(1.01e-05)]_4_[+2(4.22e-05)]_\ 321 41092 6.18e-01 500 44691 2.91e-05 323_[+2(3.80e-05)]_74_\ [+3(4.98e-08)]_75 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************