******************************************************************************** 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/327/327.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 1102 1.0000 500 11212 1.0000 500 11542 1.0000 500 1814 1.0000 500 20825 1.0000 500 22122 1.0000 500 22607 1.0000 500 22943 1.0000 500 22998 1.0000 500 23966 1.0000 500 25351 1.0000 500 25487 1.0000 500 260975 1.0000 500 262126 1.0000 500 269503 1.0000 500 269900 1.0000 500 32480 1.0000 500 32774 1.0000 500 3398 1.0000 500 37824 1.0000 500 39062 1.0000 500 4340 1.0000 500 4654 1.0000 500 5667 1.0000 500 6339 1.0000 500 6372 1.0000 500 7482 1.0000 500 8676 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/327/327.seqs.fa -oc motifs/327 -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= 28 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= 14000 N= 28 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.274 C 0.241 G 0.231 T 0.254 Background letter frequencies (from dataset with add-one prior applied): A 0.274 C 0.241 G 0.231 T 0.254 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 16 sites = 28 llr = 273 E-value = 3.7e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 31:46166:98:6715 pos.-specific C 25:5292181283284 probability G ::5:::1:1:::1::: matrix T 54522:13:::2:111 bits 2.1 1.9 1.7 1.5 * * Relative 1.3 * ** * * Entropy 1.1 * * **** * (14.1 bits) 0.8 * * **** ** 0.6 ** * ********* 0.4 **************** 0.2 **************** 0.0 ---------------- Multilevel TCTCACAACAACAACA consensus ATGAT T C C C sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 4654 483 1.81e-08 TCCACCCACA ACGCACAACAACCACA CA 11212 459 1.81e-08 CATCATTGGC TTGAACAACAACAACC ATACAACGAC 269900 69 3.80e-08 TCCTTTGCTT TCGATCAACAACAACA CTAAAACAAA 37824 281 6.72e-08 CGCCACACAC CCGCACATCAACAACA ACGTTCGCAT 32774 396 7.20e-07 TACTGTATTT TTGAACGACAACCACC AGTCGAAGGC 7482 331 1.58e-06 CAACTCCCCA AAGAACATCAACAACC AACCAAACAC 32480 57 1.58e-06 TAATTCCATC TTTCACATCAACAATC TTATTGATTG 3398 477 2.54e-06 GAACAACGAC TCTACCATCAATAACA TCTCTGCC 4340 37 3.16e-06 CTGATGTGTC TCTCTCAACAATGACA CCGTATTTGA 269503 245 3.16e-06 AAGCAGTTGT TCTCCCAACACCATCA TCATCATCGT 39062 386 3.94e-06 GAGAATGAAC ATTACCAACAACAACT TCAGCATTGG 20825 348 6.65e-06 GAAACGGAGT CTGCAACACAACCACA ACAACGCACA 1102 467 7.35e-06 GAGAACTTCT TCGACCACCACCCACC CTTGTCTCCC 6339 166 1.19e-05 GCCTCCACCC ACGTACATCCACCACC TTCCGCTGCT 25351 383 1.56e-05 TAAACACAAT ATTATCAACACCAATA TCATCATCAA 22122 280 1.56e-05 TCAACCCGTA TCGAACAACAATACTC CCCTCCACAC 8676 400 2.20e-05 CCTTCCTTTC ACTTTCCACAACCACT CATTGCTCGT 22998 455 2.20e-05 TCATTGGTCG CTGCACCAGAACATCA TCAATCGACT 25487 484 2.39e-05 ACCTAAGCTC AATCGCCACAACAACC A 23966 329 3.05e-05 CACATTGTGT TCTCACAAGAACATAC AGAGCCCCGG 262126 285 3.30e-05 GCGTTGCTGG TCTTACTCCAACGACC CAAAGATGTG 22943 20 6.00e-05 GCTACCGCTG CTTTTCAACAACACAC CCACTGCCCT 1814 473 6.44e-05 TCTGCTTATC TCTCAAGTCCACCACA ATCACGATCA 260975 12 8.44e-05 GTTTACTTGC ACTCAAATCACTGACA TTTGGAAGAC 6372 174 1.02e-04 ACCGACGAAT CTTCACAAAACTCACA AGCAACCGCA 22607 438 1.02e-04 TAAATGAAGT ACTCTCTAGACCACCC CTTTTCTGTG 5667 161 1.16e-04 CCAACTGCCA TTGTAAGAGAACACCA AACCATCGTG 11542 290 1.48e-04 GACCAGATAG CAGACCCCCAACCCCA CCCAGCAGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 4654 1.8e-08 482_[+1]_2 11212 1.8e-08 458_[+1]_26 269900 3.8e-08 68_[+1]_416 37824 6.7e-08 280_[+1]_204 32774 7.2e-07 395_[+1]_89 7482 1.6e-06 330_[+1]_154 32480 1.6e-06 56_[+1]_428 3398 2.5e-06 476_[+1]_8 4340 3.2e-06 36_[+1]_448 269503 3.2e-06 244_[+1]_240 39062 3.9e-06 385_[+1]_99 20825 6.6e-06 347_[+1]_137 1102 7.3e-06 466_[+1]_18 6339 1.2e-05 165_[+1]_319 25351 1.6e-05 382_[+1]_102 22122 1.6e-05 279_[+1]_205 8676 2.2e-05 399_[+1]_85 22998 2.2e-05 454_[+1]_30 25487 2.4e-05 483_[+1]_1 23966 3.1e-05 328_[+1]_156 262126 3.3e-05 284_[+1]_200 22943 6e-05 19_[+1]_465 1814 6.4e-05 472_[+1]_12 260975 8.4e-05 11_[+1]_473 6372 0.0001 173_[+1]_311 22607 0.0001 437_[+1]_47 5667 0.00012 160_[+1]_324 11542 0.00015 289_[+1]_195 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=16 seqs=28 4654 ( 483) ACGCACAACAACCACA 1 11212 ( 459) TTGAACAACAACAACC 1 269900 ( 69) TCGATCAACAACAACA 1 37824 ( 281) CCGCACATCAACAACA 1 32774 ( 396) TTGAACGACAACCACC 1 7482 ( 331) AAGAACATCAACAACC 1 32480 ( 57) TTTCACATCAACAATC 1 3398 ( 477) TCTACCATCAATAACA 1 4340 ( 37) TCTCTCAACAATGACA 1 269503 ( 245) TCTCCCAACACCATCA 1 39062 ( 386) ATTACCAACAACAACT 1 20825 ( 348) CTGCAACACAACCACA 1 1102 ( 467) TCGACCACCACCCACC 1 6339 ( 166) ACGTACATCCACCACC 1 25351 ( 383) ATTATCAACACCAATA 1 22122 ( 280) TCGAACAACAATACTC 1 8676 ( 400) ACTTTCCACAACCACT 1 22998 ( 455) CTGCACCAGAACATCA 1 25487 ( 484) AATCGCCACAACAACC 1 23966 ( 329) TCTCACAAGAACATAC 1 262126 ( 285) TCTTACTCCAACGACC 1 22943 ( 20) CTTTTCAACAACACAC 1 1814 ( 473) TCTCAAGTCCACCACA 1 260975 ( 12) ACTCAAATCACTGACA 1 6372 ( 174) CTTCACAAAACTCACA 1 22607 ( 438) ACTCTCTAGACCACCC 1 5667 ( 161) TTGTAAGAGAACACCA 1 11542 ( 290) CAGACCCCCAACCCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 13580 bayes= 9.52561 E= 3.7e-009 23 -17 -1145 87 -135 115 -1145 49 -1145 -1145 101 108 38 94 -1145 -51 106 -43 -269 -24 -94 183 -1145 -1145 123 -43 -111 -183 123 -117 -1145 -2 -293 177 -69 -1145 176 -176 -1145 -1145 152 -17 -1145 -1145 -1145 177 -1145 -51 106 41 -111 -1145 138 -43 -1145 -124 -194 177 -1145 -124 87 83 -1145 -183 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 28 E= 3.7e-009 0.321429 0.214286 0.000000 0.464286 0.107143 0.535714 0.000000 0.357143 0.000000 0.000000 0.464286 0.535714 0.357143 0.464286 0.000000 0.178571 0.571429 0.178571 0.035714 0.214286 0.142857 0.857143 0.000000 0.000000 0.642857 0.178571 0.107143 0.071429 0.642857 0.107143 0.000000 0.250000 0.035714 0.821429 0.142857 0.000000 0.928571 0.071429 0.000000 0.000000 0.785714 0.214286 0.000000 0.000000 0.000000 0.821429 0.000000 0.178571 0.571429 0.321429 0.107143 0.000000 0.714286 0.178571 0.000000 0.107143 0.071429 0.821429 0.000000 0.107143 0.500000 0.428571 0.000000 0.071429 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [TAC][CT][TG][CA][AT]CA[AT]CA[AC]C[AC]AC[AC] -------------------------------------------------------------------------------- Time 7.53 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 16 llr = 207 E-value = 1.3e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 25333:371633274:6:72: pos.-specific C :13:1:::1111:1::11:21 probability G 8346457383768:5a:8339 matrix T :11135:1:::::31:41:4: bits 2.1 * 1.9 * 1.7 * 1.5 * * Relative 1.3 * * * * * Entropy 1.1 * ** * * * ** * (18.7 bits) 0.8 * ********* * ** * 0.6 * * ************** * 0.4 * * ************** * 0.2 **** ************** * 0.0 --------------------- Multilevel GAGGGGGAGAGGGAGGAGATG consensus GAAATAG GAA TA T GG sequence C T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 11212 152 1.86e-10 TGTCACAAGT GAAGGTGGGAGGGAGGAGACG ACGTGGTGAT 22943 256 1.00e-09 CCAGGAGGAA GGCGAGGAGGGGGAGGAGACG GTTCATCTTC 1814 128 3.50e-08 ATGAGCCGAG GAAGAGAAGAGAGAGGACATG CTGCTGAATA 37824 391 4.43e-08 CTTGAAGGAG GAGAGTAAGAAGGAAGAGGAG CGGTGGGATC 39062 464 8.66e-08 CACGACGAGA GTGGCGGAGAAGGTGGTGGTG TGATCGATTC 25351 2 1.19e-07 T GGGAGGAAGAGGGCAGTGAGG TCTTCCATTG 11542 244 3.82e-07 GATGGCTGCA GCCGTGGTGGGGGTGGTGGTG TTGTTTGCGA 1102 370 5.44e-07 TGGCTTTGTG GCAGGGGGGAGAGAGGTTGAG TTTTACTAGT 262126 104 6.45e-07 GGCGGATGGA AAATCTGGGAGGGTAGAGAGG GCTGAACATG 4654 358 7.02e-07 GGTTGGAAAA GAGGATGAGACGAATGAGACG TCGTTTGCGT 32774 248 1.05e-06 CCTGATGGTT GAGATGAACGGGAAAGTGGTG ATTGAGAGTG 260975 121 1.44e-06 ACAGCATTAA AGGGTTGAGCGAGAAGATATG TTCTTGAGGT 3398 186 1.67e-06 ATCGCAGTAC GACGAGAAGGAAGTAGAGAGC GAACCAATGT 8676 195 1.93e-06 TCTCTTTCGA GAAGGTGAGAGCAAGGCGAAC GACGACTGGA 22998 324 5.25e-06 TGGTTGCGGT GGTTGTGGAAGGGAGGTCATG ACTTGATGAT 269900 358 1.10e-05 GTGCTTATGA ATCATTGACGACGAAGAGAGG CGGCAGCAAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 11212 1.9e-10 151_[+2]_328 22943 1e-09 255_[+2]_224 1814 3.5e-08 127_[+2]_352 37824 4.4e-08 390_[+2]_89 39062 8.7e-08 463_[+2]_16 25351 1.2e-07 1_[+2]_478 11542 3.8e-07 243_[+2]_236 1102 5.4e-07 369_[+2]_110 262126 6.5e-07 103_[+2]_376 4654 7e-07 357_[+2]_122 32774 1.1e-06 247_[+2]_232 260975 1.4e-06 120_[+2]_359 3398 1.7e-06 185_[+2]_294 8676 1.9e-06 194_[+2]_285 22998 5.3e-06 323_[+2]_156 269900 1.1e-05 357_[+2]_122 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=16 11212 ( 152) GAAGGTGGGAGGGAGGAGACG 1 22943 ( 256) GGCGAGGAGGGGGAGGAGACG 1 1814 ( 128) GAAGAGAAGAGAGAGGACATG 1 37824 ( 391) GAGAGTAAGAAGGAAGAGGAG 1 39062 ( 464) GTGGCGGAGAAGGTGGTGGTG 1 25351 ( 2) GGGAGGAAGAGGGCAGTGAGG 1 11542 ( 244) GCCGTGGTGGGGGTGGTGGTG 1 1102 ( 370) GCAGGGGGGAGAGAGGTTGAG 1 262126 ( 104) AAATCTGGGAGGGTAGAGAGG 1 4654 ( 358) GAGGATGAGACGAATGAGACG 1 32774 ( 248) GAGATGAACGGGAAAGTGGTG 1 260975 ( 121) AGGGTTGAGCGAGAAGATATG 1 3398 ( 186) GACGAGAAGGAAGTAGAGAGC 1 8676 ( 195) GAAGGTGAGAGCAAGGCGAAC 1 22998 ( 324) GGTTGTGGAAGGGAGGTCATG 1 269900 ( 358) ATCATTGACGACGAAGAGAGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13440 bayes= 10.4502 E= 1.3e-002 -55 -1064 181 -1064 87 -95 11 -102 19 5 70 -202 -13 -1064 143 -102 -13 -95 70 -2 -1064 -1064 111 98 19 -1064 157 -1064 133 -1064 11 -202 -213 -95 181 -1064 119 -195 44 -1064 -13 -195 157 -1064 -13 -95 143 -1064 -55 -1064 181 -1064 133 -195 -1064 -2 68 -1064 111 -202 -1064 -1064 211 -1064 104 -195 -1064 56 -1064 -95 170 -102 133 -1064 44 -1064 -55 -36 11 56 -1064 -95 192 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 16 E= 1.3e-002 0.187500 0.000000 0.812500 0.000000 0.500000 0.125000 0.250000 0.125000 0.312500 0.250000 0.375000 0.062500 0.250000 0.000000 0.625000 0.125000 0.250000 0.125000 0.375000 0.250000 0.000000 0.000000 0.500000 0.500000 0.312500 0.000000 0.687500 0.000000 0.687500 0.000000 0.250000 0.062500 0.062500 0.125000 0.812500 0.000000 0.625000 0.062500 0.312500 0.000000 0.250000 0.062500 0.687500 0.000000 0.250000 0.125000 0.625000 0.000000 0.187500 0.000000 0.812500 0.000000 0.687500 0.062500 0.000000 0.250000 0.437500 0.000000 0.500000 0.062500 0.000000 0.000000 1.000000 0.000000 0.562500 0.062500 0.000000 0.375000 0.000000 0.125000 0.750000 0.125000 0.687500 0.000000 0.312500 0.000000 0.187500 0.187500 0.250000 0.375000 0.000000 0.125000 0.875000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- G[AG][GAC][GA][GAT][GT][GA][AG]G[AG][GA][GA]G[AT][GA]G[AT]G[AG][TG]G -------------------------------------------------------------------------------- Time 15.22 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 7 llr = 125 E-value = 3.8e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :::1::7::4::11::::971 pos.-specific C 7:4:6317::7::6::9:::3 probability G 334137:1a:3a93a7:a:36 matrix T :7171:11:6:::::31:1:: bits 2.1 * * * * 1.9 * * * * 1.7 * * * * 1.5 * ** * ** Relative 1.3 * * * *** ***** Entropy 1.1 ** * * *** ****** (25.9 bits) 0.8 ** * ******** ****** 0.6 ********************* 0.4 ********************* 0.2 ********************* 0.0 --------------------- Multilevel CTCTCGACGTCGGCGGCGAAG consensus GGG GC AG G T GC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 22122 376 1.80e-11 ACCTATCAAA CGCTCCACGTCGGCGGCGAAG TTGACCGAGT 7482 437 4.68e-10 AAGTCTCCGT CTCTCGACGTCGACGTCGAGG CTTCTCAATC 23966 83 1.10e-09 ACGTGCGGCT GTCACGACGTCGGCGTCGAGG AGAGTCCTCG 22943 405 4.67e-09 TGCGAGAAAT GTGTGGATGACGGGGGCGAAA AGAGGGGAAG 22998 414 5.06e-09 ACAAATTCCT CTGTTCCCGAGGGGGGCGAAG TGCAAACAAT 32774 161 1.91e-08 TATTTGGTTT CTTGCGTGGTGGGCGGCGAAC TGTTGGCCGG 3398 106 2.42e-08 TGATTGTATG CGGTGGACGACGGAGGTGTAC TACCGTAGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 22122 1.8e-11 375_[+3]_104 7482 4.7e-10 436_[+3]_43 23966 1.1e-09 82_[+3]_397 22943 4.7e-09 404_[+3]_75 22998 5.1e-09 413_[+3]_66 32774 1.9e-08 160_[+3]_319 3398 2.4e-08 105_[+3]_374 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=7 22122 ( 376) CGCTCCACGTCGGCGGCGAAG 1 7482 ( 437) CTCTCGACGTCGACGTCGAGG 1 23966 ( 83) GTCACGACGTCGGCGTCGAGG 1 22943 ( 405) GTGTGGATGACGGGGGCGAAA 1 22998 ( 414) CTGTTCCCGAGGGGGGCGAAG 1 32774 ( 161) CTTGCGTGGTGGGCGGCGAAC 1 3398 ( 106) CGGTGGACGACGGAGGTGTAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13440 bayes= 11.5121 E= 3.8e+000 -945 156 31 -945 -945 -945 31 149 -945 83 89 -83 -94 -945 -69 149 -945 124 31 -83 -945 24 163 -945 138 -76 -945 -83 -945 156 -69 -83 -945 -945 211 -945 65 -945 -945 117 -945 156 31 -945 -945 -945 211 -945 -94 -945 189 -945 -94 124 31 -945 -945 -945 211 -945 -945 -945 163 17 -945 183 -945 -83 -945 -945 211 -945 165 -945 -945 -83 138 -945 31 -945 -94 24 130 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 7 E= 3.8e+000 0.000000 0.714286 0.285714 0.000000 0.000000 0.000000 0.285714 0.714286 0.000000 0.428571 0.428571 0.142857 0.142857 0.000000 0.142857 0.714286 0.000000 0.571429 0.285714 0.142857 0.000000 0.285714 0.714286 0.000000 0.714286 0.142857 0.000000 0.142857 0.000000 0.714286 0.142857 0.142857 0.000000 0.000000 1.000000 0.000000 0.428571 0.000000 0.000000 0.571429 0.000000 0.714286 0.285714 0.000000 0.000000 0.000000 1.000000 0.000000 0.142857 0.000000 0.857143 0.000000 0.142857 0.571429 0.285714 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.714286 0.285714 0.000000 0.857143 0.000000 0.142857 0.000000 0.000000 1.000000 0.000000 0.857143 0.000000 0.000000 0.142857 0.714286 0.000000 0.285714 0.000000 0.142857 0.285714 0.571429 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- [CG][TG][CG]T[CG][GC]ACG[TA][CG]GG[CG]G[GT]CGA[AG][GC] -------------------------------------------------------------------------------- Time 22.08 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 1102 5.23e-05 369_[+2(5.44e-07)]_76_\ [+1(7.35e-06)]_18 11212 1.55e-10 151_[+2(1.86e-10)]_286_\ [+1(1.81e-08)]_26 11542 1.34e-04 243_[+2(3.82e-07)]_236 1814 1.15e-05 127_[+2(3.50e-08)]_324_\ [+1(6.44e-05)]_12 20825 4.74e-02 347_[+1(6.65e-06)]_137 22122 1.13e-08 279_[+1(1.56e-05)]_80_\ [+3(1.80e-11)]_104 22607 5.98e-02 500 22943 1.60e-11 19_[+1(6.00e-05)]_220_\ [+2(1.00e-09)]_128_[+3(4.67e-09)]_75 22998 1.95e-08 323_[+2(5.25e-06)]_69_\ [+3(5.06e-09)]_20_[+1(2.20e-05)]_30 23966 9.39e-07 82_[+3(1.10e-09)]_225_\ [+1(3.05e-05)]_156 25351 9.61e-07 1_[+2(1.19e-07)]_360_[+1(1.56e-05)]_\ 102 25487 1.02e-01 483_[+1(2.39e-05)]_1 260975 8.67e-04 11_[+1(8.44e-05)]_93_[+2(1.44e-06)]_\ 359 262126 2.78e-04 76_[+2(7.07e-06)]_6_[+2(6.45e-07)]_\ 37_[+2(6.14e-05)]_102_[+1(3.30e-05)]_200 269503 1.35e-02 244_[+1(3.16e-06)]_240 269900 8.85e-06 68_[+1(3.80e-08)]_273_\ [+2(1.10e-05)]_122 32480 3.76e-03 56_[+1(1.58e-06)]_428 32774 6.42e-10 160_[+3(1.91e-08)]_66_\ [+2(1.05e-06)]_127_[+1(7.20e-07)]_89 3398 3.93e-09 105_[+3(2.42e-08)]_59_\ [+2(1.67e-06)]_270_[+1(2.54e-06)]_8 37824 4.59e-08 280_[+1(6.72e-08)]_94_\ [+2(4.43e-08)]_89 39062 1.59e-06 385_[+1(3.94e-06)]_62_\ [+2(8.66e-08)]_16 4340 2.75e-02 36_[+1(3.16e-06)]_448 4654 5.72e-07 357_[+2(7.02e-07)]_104_\ [+1(1.81e-08)]_2 5667 2.13e-01 500 6339 8.04e-02 165_[+1(1.19e-05)]_44_\ [+1(9.02e-05)]_259 6372 2.61e-01 500 7482 4.04e-08 298_[+1(3.57e-05)]_16_\ [+1(1.58e-06)]_90_[+3(4.68e-10)]_43 8676 3.04e-04 194_[+2(1.93e-06)]_14_\ [+2(8.51e-05)]_149_[+1(2.20e-05)]_40_[+1(6.90e-05)]_29 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************