******************************************************************************** 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/81/81.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10348 1.0000 500 11354 1.0000 500 11377 1.0000 500 12044 1.0000 500 1356 1.0000 500 15791 1.0000 500 1908 1.0000 500 1930 1.0000 500 1977 1.0000 500 20587 1.0000 500 23561 1.0000 500 24403 1.0000 500 2442 1.0000 500 24797 1.0000 500 25621 1.0000 500 261217 1.0000 500 263579 1.0000 500 269889 1.0000 500 3279 1.0000 500 34975 1.0000 500 3731 1.0000 500 4640 1.0000 500 4879 1.0000 500 5868 1.0000 500 6957 1.0000 500 8301 1.0000 500 909 1.0000 500 9414 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/81/81.seqs.fa -oc motifs/81 -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 0.267 C 0.239 G 0.233 T 0.260 Background letter frequencies (from dataset with add-one prior applied): A 0.267 C 0.239 G 0.233 T 0.260 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 12 sites = 24 llr = 234 E-value = 1.0e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 1::::33:3::2 pos.-specific C 1:2:::1::1:: probability G 4a1:a4:a:294 matrix T 4:7a:36:7714 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 GGTTGGTGTTGT consensus T TA A G sequence A A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 3279 381 1.98e-07 GTAGAGATTC GGTTGTTGTTGT TTGCGTAGCT 2442 278 1.98e-07 GTTTGGGTTG GGTTGTTGTTGG ATTGGTGATC 3731 79 3.03e-07 GTGGGATGAT TGTTGGTGTTGT AGTGAATGTC 12044 261 3.03e-07 GCTCGCTTTG TGTTGGTGTTGG TATGGTGTTG 1908 210 4.10e-07 AAGATGTGAT GGTTGATGTTGT TGAGAAGCGA 4879 44 1.92e-06 AGCTTGGATT GGTTGGTGTGGT TGATGGGTGC 9414 106 2.60e-06 ATTGGACGAC GGTTGATGATGT GGTGTTTGCA 909 485 5.75e-06 GCGTTTCGAG TGTTGAAGTTGA GTTA 1977 34 6.40e-06 TCAACCTATT GGCTGGAGTTGG TGTATCGATT 269889 348 1.35e-05 GAGAATCTCA TGTTGGAGATGA GGAGATATGG 24403 333 1.35e-05 GTCACCCATA GGGTGGAGTTGT CGTCACAACG 261217 467 1.45e-05 GTAGGAACGA TGCTGGTGTGGG TGCATTCGGT 8301 50 1.60e-05 GTTGTGTCTC CGCTGATGTTGT GTGGTGTATT 4640 110 1.75e-05 TTGTTTTCTT TGTTGTTGTCGA TTTGATCTTT 1930 418 2.27e-05 GTCTCATCCA CGTTGTCGTTGG CAGGTTCAGT 5868 181 2.69e-05 TGTTGCTTGC TGGTGGTGTGGT TGGTGGACTC 11377 249 2.92e-05 CGTTCGTGAG GGTTGAAGTTTT GAGCTTGAGA 15791 398 3.15e-05 TTGGAATGAA TGCTGTAGATGG CAGTAAGTTC 263579 298 3.89e-05 CCATCAACAC CGTTGTCGTTGA TCAGTATCAG 6957 7 5.20e-05 AGTGGA GGTTGATGCGGT GTAGGCGGAT 1356 370 5.93e-05 CGGATAGTCC AGTTGTTGTCGA GTCTACGCAG 11354 407 5.93e-05 TCGTTGACCA TGATGATGATGG ACTGTAGATG 23561 72 6.68e-05 ATGAATTGAC GGTTGGAGAAGG CACGATTCTT 10348 163 1.04e-04 ATTTATTTAG AGTTGTTGATTG CTCGTTCCCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 3279 2e-07 380_[+1]_108 2442 2e-07 277_[+1]_211 3731 3e-07 78_[+1]_410 12044 3e-07 260_[+1]_228 1908 4.1e-07 209_[+1]_279 4879 1.9e-06 43_[+1]_445 9414 2.6e-06 105_[+1]_383 909 5.8e-06 484_[+1]_4 1977 6.4e-06 33_[+1]_455 269889 1.4e-05 347_[+1]_141 24403 1.4e-05 332_[+1]_156 261217 1.4e-05 466_[+1]_22 8301 1.6e-05 49_[+1]_439 4640 1.8e-05 109_[+1]_379 1930 2.3e-05 417_[+1]_71 5868 2.7e-05 180_[+1]_308 11377 2.9e-05 248_[+1]_240 15791 3.2e-05 397_[+1]_91 263579 3.9e-05 297_[+1]_191 6957 5.2e-05 6_[+1]_482 1356 5.9e-05 369_[+1]_119 11354 5.9e-05 406_[+1]_82 23561 6.7e-05 71_[+1]_417 10348 0.0001 162_[+1]_326 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=12 seqs=24 3279 ( 381) GGTTGTTGTTGT 1 2442 ( 278) GGTTGTTGTTGG 1 3731 ( 79) TGTTGGTGTTGT 1 12044 ( 261) TGTTGGTGTTGG 1 1908 ( 210) GGTTGATGTTGT 1 4879 ( 44) GGTTGGTGTGGT 1 9414 ( 106) GGTTGATGATGT 1 909 ( 485) TGTTGAAGTTGA 1 1977 ( 34) GGCTGGAGTTGG 1 269889 ( 348) TGTTGGAGATGA 1 24403 ( 333) GGGTGGAGTTGT 1 261217 ( 467) TGCTGGTGTGGG 1 8301 ( 50) CGCTGATGTTGT 1 4640 ( 110) TGTTGTTGTCGA 1 1930 ( 418) CGTTGTCGTTGG 1 5868 ( 181) TGGTGGTGTGGT 1 11377 ( 249) GGTTGAAGTTTT 1 15791 ( 398) TGCTGTAGATGG 1 263579 ( 298) CGTTGTCGTTGA 1 6957 ( 7) GGTTGATGCGGT 1 1356 ( 370) AGTTGTTGTCGA 1 11354 ( 407) TGATGATGATGG 1 23561 ( 72) GGTTGGAGAAGG 1 10348 ( 163) AGTTGTTGATTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 13692 bayes= 9.60169 E= 1.0e-009 -168 -94 84 53 -1123 -1123 210 -1123 -268 -52 -148 144 -1123 -1123 -1123 194 -1123 -1123 210 -1123 13 -1123 68 36 13 -152 -1123 126 -1123 -1123 210 -1123 -10 -252 -1123 144 -268 -152 -48 144 -1123 -1123 197 -164 -36 -1123 68 68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 24 E= 1.0e-009 0.083333 0.125000 0.416667 0.375000 0.000000 0.000000 1.000000 0.000000 0.041667 0.166667 0.083333 0.708333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.291667 0.000000 0.375000 0.333333 0.291667 0.083333 0.000000 0.625000 0.000000 0.000000 1.000000 0.000000 0.250000 0.041667 0.000000 0.708333 0.041667 0.083333 0.166667 0.708333 0.000000 0.000000 0.916667 0.083333 0.208333 0.000000 0.375000 0.416667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [GT]GTTG[GTA][TA]G[TA]TG[TGA] -------------------------------------------------------------------------------- Time 6.62 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 16 sites = 23 llr = 254 E-value = 2.7e-011 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 4675324:74:78:4a pos.-specific C 6412723a:3a:1a3: probability G :::2:62:31:31:3: matrix T ::11:::::1:::::: bits 2.1 * 1.9 * * * 1.7 * * * * 1.5 * * * * Relative 1.3 * * * * Entropy 1.0 ** ** **** * (15.9 bits) 0.8 *** * ** **** * 0.6 *** * ** **** * 0.4 *** ** ** ****** 0.2 **************** 0.0 ---------------- Multilevel CAAACGACAACAACAA consensus AC AAC GC G G sequence G C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 12044 393 8.19e-08 ACACAAAGCA CAAAAGCCAACGACGA CTACTCTGAC 2442 175 1.20e-07 GCAACCGTCG CAAGCGACAACGACAA CAGATGCTTC 1930 480 1.64e-07 ACGTCCAATA ACAACAACAACAACAA CAACC 24797 445 5.94e-07 GATCTTTCCA AAACCCCCAACAACAA ACAGACAAAC 8301 454 8.63e-07 GCTTGCACCG CCAACGCCAACGGCCA TATCGTCCAT 23561 416 9.73e-07 GAGCAACGAC CAAACGACGCCACCGA CACCAAAAAA 20587 295 9.73e-07 GTCAATGATT CAACAGGCACCGACGA CTCCTCCGTC 34975 418 1.09e-06 GAACGTATCG CCACCGCCATCGACGA CTACATTCAA 5868 284 1.36e-06 GTTGAGAGGC AAAACGACAACGCCAA TCTAGACGTT 11377 396 1.87e-06 CATCATTGAT ACAACCCCAACAGCGA TGCCGCTTTG 11354 62 1.87e-06 GTTGAGAGTT CAAATGGCACCAACCA AAATCTCTCG 9414 437 2.07e-06 GACGTAGATA CAATAAGCAACAACAA GACCTCAATC 1977 340 3.06e-06 CAAGGTCATA CCATCGCCGTCAACCA GAGCACCTAC 25621 474 3.68e-06 TCTTCGCTTC CAAACAACACGAACAA AGCTGCTACT 6957 321 4.03e-06 TAAGTTGACC CCTAAAGCAACAACAA ATAATTTAAA 263579 197 4.79e-06 CACACGCCCA ACCAACCCACCAACGA TGAAGTTTGA 1908 469 6.17e-06 CTTTGTTAGC AAAACGACGCCAACCG TTGCACCTCC 1356 167 9.12e-06 TCAAAAAGAA CCTGCGTCACCAACAA ATGCAACAGA 4879 400 1.14e-05 AGTGCCAAGA CACACGCCAACGATGA GCCCGGATGG 24403 449 1.71e-05 AACATGGACA AACTCCACGCCAACCA CCTGTCGCCG 3731 335 1.82e-05 AACGGCACAG ACAGCGACGGCAGCCA CCAAAGAACT 10348 306 2.19e-05 CCTTCAAAGC AAAGATACAGCAACAA GGAAAGAATA 909 20 3.46e-05 TCTGTCGATA CATCAAGCGTCAACGA AGCTGCGGCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 12044 8.2e-08 392_[+2]_92 2442 1.2e-07 174_[+2]_310 1930 1.6e-07 479_[+2]_5 24797 5.9e-07 444_[+2]_40 8301 8.6e-07 453_[+2]_31 23561 9.7e-07 415_[+2]_69 20587 9.7e-07 294_[+2]_190 34975 1.1e-06 417_[+2]_67 5868 1.4e-06 283_[+2]_201 11377 1.9e-06 395_[+2]_89 11354 1.9e-06 61_[+2]_423 9414 2.1e-06 436_[+2]_48 1977 3.1e-06 339_[+2]_145 25621 3.7e-06 473_[+2]_11 6957 4e-06 320_[+2]_164 263579 4.8e-06 196_[+2]_288 1908 6.2e-06 468_[+2]_16 1356 9.1e-06 166_[+2]_318 4879 1.1e-05 399_[+2]_85 24403 1.7e-05 448_[+2]_36 3731 1.8e-05 334_[+2]_150 10348 2.2e-05 305_[+2]_179 909 3.5e-05 19_[+2]_465 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=16 seqs=23 12044 ( 393) CAAAAGCCAACGACGA 1 2442 ( 175) CAAGCGACAACGACAA 1 1930 ( 480) ACAACAACAACAACAA 1 24797 ( 445) AAACCCCCAACAACAA 1 8301 ( 454) CCAACGCCAACGGCCA 1 23561 ( 416) CAAACGACGCCACCGA 1 20587 ( 295) CAACAGGCACCGACGA 1 34975 ( 418) CCACCGCCATCGACGA 1 5868 ( 284) AAAACGACAACGCCAA 1 11377 ( 396) ACAACCCCAACAGCGA 1 11354 ( 62) CAAATGGCACCAACCA 1 9414 ( 437) CAATAAGCAACAACAA 1 1977 ( 340) CCATCGCCGTCAACCA 1 25621 ( 474) CAAACAACACGAACAA 1 6957 ( 321) CCTAAAGCAACAACAA 1 263579 ( 197) ACCAACCCACCAACGA 1 1908 ( 469) AAAACGACGCCAACCG 1 1356 ( 167) CCTGCGTCACCAACAA 1 4879 ( 400) CACACGCCAACGATGA 1 24403 ( 449) AACTCCACGCCAACCA 1 3731 ( 335) ACAGCGACGGCAGCCA 1 10348 ( 306) AAAGATACAGCAACAA 1 909 ( 20) CATCAAGCGTCAACGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 13580 bayes= 9.60633 E= 2.7e-011 55 135 -1117 -1117 119 71 -1117 -1117 147 -87 -1117 -100 96 -46 -42 -100 19 145 -1117 -258 -30 -46 128 -258 55 54 -10 -258 -1117 206 -1117 -1117 147 -1117 16 -1117 70 54 -142 -100 -1117 200 -242 -1117 138 -1117 38 -1117 155 -146 -84 -1117 -1117 200 -1117 -258 55 12 58 -1117 184 -1117 -242 -1117 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 23 E= 2.7e-011 0.391304 0.608696 0.000000 0.000000 0.608696 0.391304 0.000000 0.000000 0.739130 0.130435 0.000000 0.130435 0.521739 0.173913 0.173913 0.130435 0.304348 0.652174 0.000000 0.043478 0.217391 0.173913 0.565217 0.043478 0.391304 0.347826 0.217391 0.043478 0.000000 1.000000 0.000000 0.000000 0.739130 0.000000 0.260870 0.000000 0.434783 0.347826 0.086957 0.130435 0.000000 0.956522 0.043478 0.000000 0.695652 0.000000 0.304348 0.000000 0.782609 0.086957 0.130435 0.000000 0.000000 0.956522 0.000000 0.043478 0.391304 0.260870 0.347826 0.000000 0.956522 0.000000 0.043478 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [CA][AC]AA[CA][GA][ACG]C[AG][AC]C[AG]AC[AGC]A -------------------------------------------------------------------------------- Time 13.21 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 15 sites = 12 llr = 153 E-value = 2.8e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :33:::4::61:2:: pos.-specific C 74188:2a::8:4a: probability G 335:3a::a:18::7 matrix T ::13::4::4:34:3 bits 2.1 * ** * 1.9 * ** * 1.7 * ** * 1.5 * ** * Relative 1.3 * *** ** ** * Entropy 1.0 * *** ** ** ** (18.3 bits) 0.8 * *** ***** ** 0.6 * *** ***** ** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel CCGCCGACGACGCCG consensus GAATG T T TT T sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 24403 473 7.64e-09 CACCTGTCGC CGGCCGACGACGCCG ATACACAACT 25621 94 9.91e-09 AGAATGATGG CGGCCGACGACGTCG ACACCGTCTT 24797 392 1.56e-07 ACACAACAAA CAACCGACGACGACG TGCACCATCC 8301 288 1.77e-07 TTCAGTTTCA CAGCCGCCGACGTCT TTTTCCTACA 1930 139 3.32e-07 TTGCCGTGTT GCGTCGTCGTCGTCG TTGTCGAGTG 1356 443 6.71e-07 AACGAGCAAG CCATCGTCGTCGTCT CCAATAGAGG 2442 231 1.05e-06 GGTTTTGCCG CAGCGGTCGACTCCT TCGAGGAGGA 12044 230 1.05e-06 GTCTGTTCTA GCGTGGACGTCGTCG GGGCTGGCTC 11354 361 1.53e-06 GACTCCTTCC GAACCGACGAGGCCG TCTGACAAAG 20587 313 2.15e-06 ACCGACGACT CCTCCGTCGACTACG AGCCAGTCAA 4640 395 3.82e-06 CCATGAGGAC GGCCGGCCGTCGCCG AACCGTTGGC 3279 235 4.66e-06 GCAACGAAGC CCACCGTCGTATCCT CTAGATGTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 24403 7.6e-09 472_[+3]_13 25621 9.9e-09 93_[+3]_392 24797 1.6e-07 391_[+3]_94 8301 1.8e-07 287_[+3]_198 1930 3.3e-07 138_[+3]_347 1356 6.7e-07 442_[+3]_43 2442 1e-06 230_[+3]_255 12044 1e-06 229_[+3]_256 11354 1.5e-06 360_[+3]_125 20587 2.2e-06 312_[+3]_173 4640 3.8e-06 394_[+3]_91 3279 4.7e-06 234_[+3]_251 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=15 seqs=12 24403 ( 473) CGGCCGACGACGCCG 1 25621 ( 94) CGGCCGACGACGTCG 1 24797 ( 392) CAACCGACGACGACG 1 8301 ( 288) CAGCCGCCGACGTCT 1 1930 ( 139) GCGTCGTCGTCGTCG 1 1356 ( 443) CCATCGTCGTCGTCT 1 2442 ( 231) CAGCGGTCGACTCCT 1 12044 ( 230) GCGTGGACGTCGTCG 1 11354 ( 361) GAACCGACGAGGCCG 1 20587 ( 313) CCTCCGTCGACTACG 1 4640 ( 395) GGCCGGCCGTCGCCG 1 3279 ( 235) CCACCGTCGTATCCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 13608 bayes= 11.7317 E= 2.8e-001 -1023 148 51 -1023 32 80 10 -1023 32 -152 110 -164 -1023 165 -1023 -6 -1023 165 10 -1023 -1023 -1023 210 -1023 64 -52 -1023 68 -1023 206 -1023 -1023 -1023 -1023 210 -1023 113 -1023 -1023 68 -168 180 -148 -1023 -1023 -1023 168 -6 -68 80 -1023 68 -1023 206 -1023 -1023 -1023 -1023 151 36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 12 E= 2.8e-001 0.000000 0.666667 0.333333 0.000000 0.333333 0.416667 0.250000 0.000000 0.333333 0.083333 0.500000 0.083333 0.000000 0.750000 0.000000 0.250000 0.000000 0.750000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 0.416667 0.166667 0.000000 0.416667 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.583333 0.000000 0.000000 0.416667 0.083333 0.833333 0.083333 0.000000 0.000000 0.000000 0.750000 0.250000 0.166667 0.416667 0.000000 0.416667 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.666667 0.333333 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- [CG][CAG][GA][CT][CG]G[AT]CG[AT]C[GT][CT]C[GT] -------------------------------------------------------------------------------- Time 19.84 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10348 6.01e-03 305_[+2(2.19e-05)]_179 11354 3.39e-06 61_[+2(1.87e-06)]_283_\ [+3(1.53e-06)]_31_[+1(5.93e-05)]_82 11377 1.49e-04 248_[+1(2.92e-05)]_135_\ [+2(1.87e-06)]_89 12044 1.14e-09 229_[+3(1.05e-06)]_16_\ [+1(3.03e-07)]_22_[+1(2.51e-05)]_86_[+2(8.19e-08)]_92 1356 6.69e-06 166_[+2(9.12e-06)]_92_\ [+3(3.63e-06)]_80_[+1(5.93e-05)]_61_[+3(6.71e-07)]_43 15791 4.00e-02 397_[+1(3.15e-05)]_91 1908 4.84e-05 181_[+1(9.97e-05)]_16_\ [+1(4.10e-07)]_247_[+2(6.17e-06)]_16 1930 3.98e-08 138_[+3(3.32e-07)]_94_\ [+2(1.82e-05)]_154_[+1(2.27e-05)]_50_[+2(1.64e-07)]_5 1977 1.33e-04 33_[+1(6.40e-06)]_294_\ [+2(3.06e-06)]_12_[+1(3.15e-05)]_121 20587 2.87e-05 150_[+3(2.86e-05)]_135_\ [+3(9.58e-07)]_185 23561 8.58e-04 71_[+1(6.68e-05)]_332_\ [+2(9.73e-07)]_10_[+2(3.46e-05)]_43 24403 5.49e-08 332_[+1(1.35e-05)]_104_\ [+2(1.71e-05)]_8_[+3(7.64e-09)]_13 2442 1.09e-09 174_[+2(1.20e-07)]_40_\ [+3(1.05e-06)]_32_[+1(1.98e-07)]_211 24797 1.74e-06 391_[+3(1.56e-07)]_38_\ [+2(5.94e-07)]_40 25621 1.40e-06 93_[+3(9.91e-09)]_365_\ [+2(3.68e-06)]_11 261217 1.01e-01 466_[+1(1.45e-05)]_22 263579 2.16e-03 196_[+2(4.79e-06)]_85_\ [+1(3.89e-05)]_191 269889 4.27e-02 347_[+1(1.35e-05)]_141 3279 2.86e-05 234_[+3(4.66e-06)]_131_\ [+1(1.98e-07)]_108 34975 3.86e-04 417_[+2(1.09e-06)]_23_\ [+2(5.71e-05)]_8_[+2(3.46e-05)]_4 3731 3.01e-05 78_[+1(3.03e-07)]_244_\ [+2(1.82e-05)]_150 4640 1.15e-03 109_[+1(1.75e-05)]_273_\ [+3(3.82e-06)]_91 4879 9.82e-05 43_[+1(1.92e-06)]_28_[+1(1.75e-05)]_\ 21_[+1(2.27e-05)]_271_[+2(1.14e-05)]_85 5868 5.00e-04 180_[+1(2.69e-05)]_91_\ [+2(1.36e-06)]_201 6957 1.39e-03 6_[+1(5.20e-05)]_302_[+2(4.03e-06)]_\ 164 8301 7.46e-08 49_[+1(1.60e-05)]_226_\ [+3(1.77e-07)]_118_[+3(4.67e-05)]_18_[+2(8.63e-07)]_31 909 1.34e-03 19_[+2(3.46e-05)]_449_\ [+1(5.75e-06)]_4 9414 7.03e-05 42_[+1(8.39e-05)]_51_[+1(2.60e-06)]_\ 23_[+1(4.26e-05)]_284_[+2(2.07e-06)]_48 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************