******************************************************************************** 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/472/472.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 8877 1.0000 500 42647 1.0000 500 47709 1.0000 500 38600 1.0000 500 48425 1.0000 500 40447 1.0000 500 3656 1.0000 500 50252 1.0000 500 44441 1.0000 500 44524 1.0000 500 34085 1.0000 500 11793 1.0000 500 54547 1.0000 500 45241 1.0000 500 46345 1.0000 500 44440 1.0000 500 46519 1.0000 500 36586 1.0000 500 40874 1.0000 500 35042 1.0000 500 35102 1.0000 500 41156 1.0000 500 37765 1.0000 500 50585 1.0000 500 43925 1.0000 500 48870 1.0000 500 48824 1.0000 500 50021 1.0000 500 50582 1.0000 500 45245 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/472/472.seqs.fa -oc motifs/472 -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= 30 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= 15000 N= 30 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.290 C 0.218 G 0.212 T 0.280 Background letter frequencies (from dataset with add-one prior applied): A 0.290 C 0.218 G 0.212 T 0.280 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 12 sites = 20 llr = 195 E-value = 2.5e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A ::::6:8::1aa pos.-specific C 21:7:72::7:: probability G 54:43::732:: matrix T 46a:13:38::1 bits 2.2 2.0 1.8 * * 1.6 * ** Relative 1.3 ** * ** Entropy 1.1 ** **** ** (14.1 bits) 0.9 ** ******* 0.7 ************ 0.4 ************ 0.2 ************ 0.0 ------------ Multilevel GTTCACAGTCAA consensus TG GGTCTGG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 43925 179 7.23e-08 GTAGAAGCGA GTTCACAGTCAA AGCGCTGCTC 50585 324 7.23e-08 TTCATTTTCT GTTCACAGTCAA ATGTCGATGA 50582 331 1.27e-07 TCACATTCGC GGTCACAGTCAA CACACTAAAT 40447 44 3.86e-07 TCGTACTTCT TTTCACAGTCAA TCCGGTCTGT 35102 193 3.76e-06 GAAAAAAGTT GTTGACAGTGAA TGCTCCAGAT 11793 430 4.96e-06 CTTTTTCCAA TCTCACAGTCAA GTGATTTTGG 8877 29 5.38e-06 TGAGTCCAAA GTTGGCATTCAA CCCAAAAAAG 44441 349 8.05e-06 GGAAATAGCG GGTCATCGTCAA CTGAGAGGCC 54547 156 1.62e-05 TGTTCCTCTT GTTGGCAGGGAA AAAGAGGAGC 45245 250 1.96e-05 ACAGGCCAGG TGTCGCAGGGAA AAAGCGGAAG 46345 300 1.96e-05 CGGAACTGAC GGTGATAGTGAA CTCGTCTCCG 47709 347 1.96e-05 GGGTCATTTC CTTCATAGGCAA TCAATCAAGA 38600 347 2.24e-05 GTACGTGGAT CTTGGCATTCAA TTGAAGGCCC 40874 414 3.83e-05 ATGCAGAAAC GTTCTCAGTAAA AAATATCAAA 48425 465 3.83e-05 GATGCCATCT TTTCGCCTGCAA CCAAAACACA 48870 290 4.41e-05 TCGTCCAAGC CTTCACAGTCAT TGTCGTTCTA 34085 344 5.04e-05 GACCCTCTGC GGTCATCTGCAA ATCCCACAAG 50021 488 6.70e-05 AGGCATTTGT TGTCTTCGTCAA T 50252 251 6.70e-05 GTTTCGTAAA TGTGACATTAAA AGTGGAGTGT 3656 346 8.97e-05 GATGTGTGCC TCTGGTATTCAA CGAAGCCGTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 43925 7.2e-08 178_[+1]_310 50585 7.2e-08 323_[+1]_165 50582 1.3e-07 330_[+1]_158 40447 3.9e-07 43_[+1]_445 35102 3.8e-06 192_[+1]_296 11793 5e-06 429_[+1]_59 8877 5.4e-06 28_[+1]_460 44441 8e-06 348_[+1]_140 54547 1.6e-05 155_[+1]_333 45245 2e-05 249_[+1]_239 46345 2e-05 299_[+1]_189 47709 2e-05 346_[+1]_142 38600 2.2e-05 346_[+1]_142 40874 3.8e-05 413_[+1]_75 48425 3.8e-05 464_[+1]_24 48870 4.4e-05 289_[+1]_199 34085 5e-05 343_[+1]_145 50021 6.7e-05 487_[+1]_1 50252 6.7e-05 250_[+1]_238 3656 9e-05 345_[+1]_143 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=12 seqs=20 43925 ( 179) GTTCACAGTCAA 1 50585 ( 324) GTTCACAGTCAA 1 50582 ( 331) GGTCACAGTCAA 1 40447 ( 44) TTTCACAGTCAA 1 35102 ( 193) GTTGACAGTGAA 1 11793 ( 430) TCTCACAGTCAA 1 8877 ( 29) GTTGGCATTCAA 1 44441 ( 349) GGTCATCGTCAA 1 54547 ( 156) GTTGGCAGGGAA 1 45245 ( 250) TGTCGCAGGGAA 1 46345 ( 300) GGTGATAGTGAA 1 47709 ( 347) CTTCATAGGCAA 1 38600 ( 347) CTTGGCATTCAA 1 40874 ( 414) GTTCTCAGTAAA 1 48425 ( 465) TTTCGCCTGCAA 1 48870 ( 290) CTTCACAGTCAT 1 34085 ( 344) GGTCATCTGCAA 1 50021 ( 488) TGTCTTCGTCAA 1 50252 ( 251) TGTGACATTAAA 1 3656 ( 346) TCTGGTATTCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 14670 bayes= 10.461 E= 2.5e+000 -1097 -54 124 32 -1097 -113 73 97 -1097 -1097 -1097 184 -1097 157 73 -1097 105 -1097 50 -148 -1097 168 -1097 10 146 -13 -1097 -1097 -1097 -1097 173 10 -1097 -1097 24 142 -153 168 -8 -1097 179 -1097 -1097 -1097 171 -1097 -1097 -248 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 20 E= 2.5e+000 0.000000 0.150000 0.500000 0.350000 0.000000 0.100000 0.350000 0.550000 0.000000 0.000000 0.000000 1.000000 0.000000 0.650000 0.350000 0.000000 0.600000 0.000000 0.300000 0.100000 0.000000 0.700000 0.000000 0.300000 0.800000 0.200000 0.000000 0.000000 0.000000 0.000000 0.700000 0.300000 0.000000 0.000000 0.250000 0.750000 0.100000 0.700000 0.200000 0.000000 1.000000 0.000000 0.000000 0.000000 0.950000 0.000000 0.000000 0.050000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [GT][TG]T[CG][AG][CT][AC][GT][TG][CG]AA -------------------------------------------------------------------------------- Time 7.23 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 15 sites = 13 llr = 156 E-value = 3.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 9a::a:112:33751 pos.-specific C :::::a622223::: probability G 1::a:::1::34335 matrix T ::a:::37682::24 bits 2.2 * * 2.0 * * 1.8 ***** 1.6 ***** Relative 1.3 ****** * Entropy 1.1 ****** * * (17.3 bits) 0.9 ******* * * 0.7 ******** * * * 0.4 ********** **** 0.2 ********** **** 0.0 --------------- Multilevel AATGACCTTTAGAAG consensus T A GAGGT sequence CC T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 44441 46 1.48e-08 AAAAGTCATC AATGACCTTTGAAAG GTCATTGGTG 44440 107 2.98e-08 GAGTACCACC AATGACCTTTCAAAG GTCATTGATG 36586 296 5.62e-08 GAATGACTAA AATGACCTTTCGAGT TGGTGGTAAA 50582 432 1.19e-07 ACTTACAGTA AATGACTTTTAGAGG ACCTCTCACA 48425 368 7.17e-07 GAAGCCGTCG AATGACCTCTGCGAT AACAACTTCC 45241 330 1.45e-06 AGGCCTCAGA AATGACCATTGCAAT GACCCTCTCG 38600 408 2.27e-06 CTTTTGACAA AATGACCCATGAAGT GAAAAAAAGA 48824 165 3.41e-06 GCAAACAGTA AATGACTCTCCGAAG CCCGTCATAA 50585 341 3.94e-06 GTCAAATGTC GATGACCTTTTGGAT GACCATTGCA 48870 314 4.51e-06 TCGTTCTAAA AATGACTTATTCGTG CCGTGCTCTA 47709 308 5.16e-06 AAGAGAATAC AATGACTTCCAGATG ACTACCTATA 42647 161 6.21e-06 CATAGCTCGA AATGACATATAAATG ATTTCATTCC 40447 276 9.14e-06 TTGACATTTG AATGACCGTTACGGA ACCACCGGTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 44441 1.5e-08 45_[+2]_440 44440 3e-08 106_[+2]_379 36586 5.6e-08 295_[+2]_190 50582 1.2e-07 431_[+2]_54 48425 7.2e-07 367_[+2]_118 45241 1.5e-06 329_[+2]_156 38600 2.3e-06 407_[+2]_78 48824 3.4e-06 164_[+2]_321 50585 3.9e-06 340_[+2]_145 48870 4.5e-06 313_[+2]_172 47709 5.2e-06 307_[+2]_178 42647 6.2e-06 160_[+2]_325 40447 9.1e-06 275_[+2]_210 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=15 seqs=13 44441 ( 46) AATGACCTTTGAAAG 1 44440 ( 107) AATGACCTTTCAAAG 1 36586 ( 296) AATGACCTTTCGAGT 1 50582 ( 432) AATGACTTTTAGAGG 1 48425 ( 368) AATGACCTCTGCGAT 1 45241 ( 330) AATGACCATTGCAAT 1 38600 ( 408) AATGACCCATGAAGT 1 48824 ( 165) AATGACTCTCCGAAG 1 50585 ( 341) GATGACCTTTTGGAT 1 48870 ( 314) AATGACTTATTCGTG 1 47709 ( 308) AATGACTTCCAGATG 1 42647 ( 161) AATGACATATAAATG 1 40447 ( 276) AATGACCGTTACGGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 14580 bayes= 10.6609 E= 3.1e+001 167 -1035 -146 -1035 179 -1035 -1035 -1035 -1035 -1035 -1035 184 -1035 -1035 224 -1035 179 -1035 -1035 -1035 -1035 219 -1035 -1035 -191 149 -1035 14 -191 -50 -146 130 -33 -50 -1035 113 -1035 -50 -1035 159 9 8 54 -86 9 49 86 -1035 126 -1035 54 -1035 67 -1035 54 -28 -191 -1035 135 46 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 13 E= 3.1e+001 0.923077 0.000000 0.076923 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.076923 0.615385 0.000000 0.307692 0.076923 0.153846 0.076923 0.692308 0.230769 0.153846 0.000000 0.615385 0.000000 0.153846 0.000000 0.846154 0.307692 0.230769 0.307692 0.153846 0.307692 0.307692 0.384615 0.000000 0.692308 0.000000 0.307692 0.000000 0.461538 0.000000 0.307692 0.230769 0.076923 0.000000 0.538462 0.384615 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- AATGAC[CT]T[TA]T[AGC][GAC][AG][AGT][GT] -------------------------------------------------------------------------------- Time 15.14 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 15 sites = 30 llr = 259 E-value = 1.1e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :55976773:39385 pos.-specific C 945:321::22:6:: probability G 1::::22:2441122 matrix T :::1:::3541:::3 bits 2.2 2.0 1.8 1.6 * Relative 1.3 * * * Entropy 1.1 * * * * (12.4 bits) 0.9 * *** * * * 0.7 ***** ** * *** 0.4 ********** **** 0.2 *************** 0.0 --------------- Multilevel CAAAAAAATTGACAA consensus CC CCGTAGA A T sequence G G C G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 47709 450 1.15e-06 TCCTGCGGGT CCCACAAAGTAACAA CTCTTCGTCG 46519 265 1.40e-06 TTGCTCGTGA CCCAAAAATGAACGA AGATTCATAA 44440 41 3.81e-06 ATCAAAATTA CAAAACGATGGACAT ATTTTATCAA 42647 77 5.01e-06 ACGTGCATGC CAAAAAATGTGACAT GGGTTATTAT 48870 458 5.77e-06 ACAGTCATCA CACAAGGAATAACAA TACACAACCG 38600 462 6.61e-06 AGTTACTGCG GAAACAAATTGACAA GACTCCCTTG 44524 345 7.49e-06 CTAGCATTAA CACACCATGTGACAA AATGCCAACC 50585 466 9.63e-06 AGTTAAAGAC CAAAACAATCAAAAA GGACTGTTTG 34085 295 1.21e-05 CGGATTGAGC CCAAACAATTTACAT CATAGAGATA 41156 49 1.36e-05 AGTAGAAACG CCAAAAAAGCGAAAG AAAAACAAAA 48425 329 1.69e-05 ACACAGATTC CACAAAGATTTACAT GAATGAATGA 44441 205 2.09e-05 TTTTTGCATT CCCAAGGAAGTACAA GATGTGACTT 40447 112 2.56e-05 ATCTTCGTGT CCAACCAAACAAAAA CCGACTCGAT 40874 432 2.83e-05 TAAAAAATAT CAAAAGGATTGACGG GACGACAGCT 3656 184 3.12e-05 CCGAATACTG CCCAAAATAGAGCAA TTCGATGGCT 48824 115 3.78e-05 TACTGCTTTT CACAGAATATGACAA TTTACTGTTA 36586 435 3.78e-05 CCAGGGATCT CCAACAATACAAAAA GACCACGAGA 54547 210 3.78e-05 CAAAAACCGA CAAAAACAAGCAAAA TCTGAAGCCA 11793 36 3.78e-05 CCGCATGTTG CACAACAATGCAAGT GTGGTACACG 45241 33 4.15e-05 TCTTGCGGAG CAAAAGAATGCAGAT ATGGAAGAGA 50252 131 4.97e-05 CCAGTTGGAA CAAAAAAAGTATCAA ATGGTCGAAA 35042 218 5.44e-05 TGTAGTCGTG GCCACAAAATGAAAG GTCAAGACCT 50021 293 7.03e-05 CTCGTAGAAC CCCAACAATGCGCGA TTTTATTTCA 46345 173 1.05e-04 AGAATCAGAC GTCAAAAATGGACAT ATCGGAGCAA 45245 458 1.13e-04 GCGATCTTTT CACAAGATTGGATAG AAATACAGTT 43925 484 1.52e-04 ATCCAAGCTC CGAACAGTTTCACAA GA 8877 104 1.74e-04 TGTCTTCTCT GCAACACAAGAACAT AATTGATCTA 50582 345 2.13e-04 ACAGTCAACA CACTAAATTGAAAGA AGATGGGTCA 35102 113 3.29e-04 TAGGAAGGTA CCATAAAAACGAGAG CTATTAATGG 37765 392 3.49e-04 TAAATGACTA CAAACGAGGTCAAAG TAATTATGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 47709 1.2e-06 449_[+3]_36 46519 1.4e-06 264_[+3]_221 44440 3.8e-06 40_[+3]_445 42647 5e-06 76_[+3]_409 48870 5.8e-06 457_[+3]_28 38600 6.6e-06 461_[+3]_24 44524 7.5e-06 344_[+3]_141 50585 9.6e-06 465_[+3]_20 34085 1.2e-05 294_[+3]_191 41156 1.4e-05 48_[+3]_437 48425 1.7e-05 328_[+3]_157 44441 2.1e-05 204_[+3]_281 40447 2.6e-05 111_[+3]_374 40874 2.8e-05 431_[+3]_54 3656 3.1e-05 183_[+3]_302 48824 3.8e-05 114_[+3]_371 36586 3.8e-05 434_[+3]_51 54547 3.8e-05 209_[+3]_276 11793 3.8e-05 35_[+3]_450 45241 4.1e-05 32_[+3]_453 50252 5e-05 130_[+3]_355 35042 5.4e-05 217_[+3]_268 50021 7e-05 292_[+3]_193 46345 0.0001 172_[+3]_313 45245 0.00011 457_[+3]_28 43925 0.00015 483_[+3]_2 8877 0.00017 103_[+3]_382 50582 0.00021 344_[+3]_141 35102 0.00033 112_[+3]_373 37765 0.00035 391_[+3]_94 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=15 seqs=30 47709 ( 450) CCCACAAAGTAACAA 1 46519 ( 265) CCCAAAAATGAACGA 1 44440 ( 41) CAAAACGATGGACAT 1 42647 ( 77) CAAAAAATGTGACAT 1 48870 ( 458) CACAAGGAATAACAA 1 38600 ( 462) GAAACAAATTGACAA 1 44524 ( 345) CACACCATGTGACAA 1 50585 ( 466) CAAAACAATCAAAAA 1 34085 ( 295) CCAAACAATTTACAT 1 41156 ( 49) CCAAAAAAGCGAAAG 1 48425 ( 329) CACAAAGATTTACAT 1 44441 ( 205) CCCAAGGAAGTACAA 1 40447 ( 112) CCAACCAAACAAAAA 1 40874 ( 432) CAAAAGGATTGACGG 1 3656 ( 184) CCCAAAATAGAGCAA 1 48824 ( 115) CACAGAATATGACAA 1 36586 ( 435) CCAACAATACAAAAA 1 54547 ( 210) CAAAAACAAGCAAAA 1 11793 ( 36) CACAACAATGCAAGT 1 45241 ( 33) CAAAAGAATGCAGAT 1 50252 ( 131) CAAAAAAAGTATCAA 1 35042 ( 218) GCCACAAAATGAAAG 1 50021 ( 293) CCCAACAATGCGCGA 1 46345 ( 173) GTCAAAAATGGACAT 1 45245 ( 458) CACAAGATTGGATAG 1 43925 ( 484) CGAACAGTTTCACAA 1 8877 ( 104) GCAACACAAGAACAT 1 50582 ( 345) CACTAAATTGAAAGA 1 35102 ( 113) CCATAAAAACGAGAG 1 37765 ( 392) CAAACGAGGTCAAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 14580 bayes= 8.92184 E= 1.1e+001 -1155 199 -67 -1155 88 87 -266 -307 88 110 -1155 -1155 169 -1155 -1155 -207 120 46 -266 -1155 97 10 -8 -1155 134 -171 -8 -1155 127 -1155 -266 -7 20 -1155 -8 74 -1155 -39 92 63 20 -13 79 -149 163 -1155 -167 -307 5 146 -167 -307 152 -1155 -34 -1155 88 -1155 -8 -7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 30 E= 1.1e+001 0.000000 0.866667 0.133333 0.000000 0.533333 0.400000 0.033333 0.033333 0.533333 0.466667 0.000000 0.000000 0.933333 0.000000 0.000000 0.066667 0.666667 0.300000 0.033333 0.000000 0.566667 0.233333 0.200000 0.000000 0.733333 0.066667 0.200000 0.000000 0.700000 0.000000 0.033333 0.266667 0.333333 0.000000 0.200000 0.466667 0.000000 0.166667 0.400000 0.433333 0.333333 0.200000 0.366667 0.100000 0.900000 0.000000 0.066667 0.033333 0.300000 0.600000 0.066667 0.033333 0.833333 0.000000 0.166667 0.000000 0.533333 0.000000 0.200000 0.266667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- C[AC][AC]A[AC][ACG][AG][AT][TAG][TG][GAC]A[CA]A[ATG] -------------------------------------------------------------------------------- Time 22.47 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 8877 5.93e-03 28_[+1(5.38e-06)]_460 42647 3.07e-04 76_[+3(5.01e-06)]_69_[+2(6.21e-06)]_\ 325 47709 2.46e-06 307_[+2(5.16e-06)]_24_\ [+1(1.96e-05)]_91_[+3(1.15e-06)]_36 38600 6.34e-06 346_[+1(2.24e-05)]_49_\ [+2(2.27e-06)]_39_[+3(6.61e-06)]_24 48425 8.37e-06 219_[+1(9.48e-05)]_97_\ [+3(1.69e-05)]_24_[+2(7.17e-07)]_40_[+2(3.14e-05)]_27_[+1(3.83e-05)]_24 40447 1.95e-06 43_[+1(3.86e-07)]_56_[+3(2.56e-05)]_\ 149_[+2(9.14e-06)]_210 3656 2.11e-02 183_[+3(3.12e-05)]_147_\ [+1(8.97e-05)]_143 50252 1.75e-02 130_[+3(4.97e-05)]_105_\ [+1(6.70e-05)]_238 44441 7.56e-08 45_[+2(1.48e-08)]_144_\ [+3(2.09e-05)]_129_[+1(8.05e-06)]_140 44524 2.10e-02 344_[+3(7.49e-06)]_141 34085 3.70e-03 294_[+3(1.21e-05)]_34_\ [+1(5.04e-05)]_145 11793 1.99e-03 35_[+3(3.78e-05)]_379_\ [+1(4.96e-06)]_59 54547 6.13e-03 155_[+1(1.62e-05)]_42_\ [+3(3.78e-05)]_276 45241 7.88e-04 32_[+3(4.15e-05)]_282_\ [+2(1.45e-06)]_156 46345 4.35e-03 299_[+1(1.96e-05)]_189 44440 4.21e-06 40_[+3(3.81e-06)]_51_[+2(2.98e-08)]_\ 6_[+2(5.16e-06)]_358 46519 1.30e-02 161_[+3(3.12e-05)]_88_\ [+3(1.40e-06)]_221 36586 2.74e-05 295_[+2(5.62e-08)]_124_\ [+3(3.78e-05)]_51 40874 9.31e-03 413_[+1(3.83e-05)]_6_[+3(2.83e-05)]_\ 54 35042 2.98e-02 217_[+3(5.44e-05)]_268 35102 3.90e-03 192_[+1(3.76e-06)]_296 41156 1.14e-01 48_[+3(1.36e-05)]_437 37765 4.62e-01 500 50585 8.28e-08 323_[+1(7.23e-08)]_5_[+2(3.94e-06)]_\ 110_[+3(9.63e-06)]_20 43925 2.29e-04 178_[+1(7.23e-08)]_310 48870 1.86e-05 289_[+1(4.41e-05)]_12_\ [+2(4.51e-06)]_129_[+3(5.77e-06)]_28 48824 1.33e-03 114_[+3(3.78e-05)]_35_\ [+2(3.41e-06)]_321 50021 2.84e-02 292_[+3(7.03e-05)]_180_\ [+1(6.70e-05)]_1 50582 9.16e-08 330_[+1(1.27e-07)]_89_\ [+2(1.19e-07)]_54 45245 1.19e-02 249_[+1(1.96e-05)]_239 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************