******************************************************************************** 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/381/381.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10385 1.0000 500 1344 1.0000 500 14030 1.0000 500 2009 1.0000 500 21664 1.0000 500 21798 1.0000 500 22522 1.0000 500 22781 1.0000 500 23113 1.0000 500 23509 1.0000 500 23624 1.0000 500 23829 1.0000 500 23976 1.0000 500 24617 1.0000 500 24897 1.0000 500 24928 1.0000 500 25290 1.0000 500 25779 1.0000 500 25796 1.0000 500 25806 1.0000 500 264631 1.0000 500 38132 1.0000 500 39098 1.0000 500 4608 1.0000 500 8287 1.0000 500 8288 1.0000 500 8968 1.0000 500 9255 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/381/381.seqs.fa -oc motifs/381 -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 0.266 C 0.242 G 0.231 T 0.261 Background letter frequencies (from dataset with add-one prior applied): A 0.265 C 0.242 G 0.231 T 0.261 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 15 sites = 13 llr = 168 E-value = 1.0e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :293162:a3:7:5: pos.-specific C 8::7:281:5::2:3 probability G 28::9219:2a3826 matrix T ::1::::::::::31 bits 2.1 * 1.9 * * 1.7 * ** * 1.5 * * ** * Relative 1.3 *** * ** * * Entropy 1.1 ***** *** *** (18.6 bits) 0.8 ***** *** *** * 0.6 ************* * 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel CGACGACGACGAGAG consensus GA A C A GCTC sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 23829 15 6.81e-10 TTGGATTTTT CGACGACGACGAGAG AGAGAGAGAC 38132 129 4.00e-09 CTGGAGCCGA CGACGACGACGAGAC GTACACGAAC 22522 1 2.66e-08 . CGACGACGAAGGGTG AAGCAGAGGA 23113 226 4.29e-08 GATCGGACGA CGACGACGACGACAC TCTTGACACG 24617 379 6.37e-08 AGAAGACAAA CGAAGGCGACGAGAG ATAGTTTGTA 24928 353 3.83e-07 GCTCTGGTCT GGACGACGAGGAGGC TGATGCTCGG 8287 191 4.19e-07 GCAGGAGCCT CGAAGAAGAAGAGGG AGGGAGGGTG 21798 412 1.25e-06 CCTGCCAAGC CGACGCCCACGGGAC CCGACCACGC 22781 431 1.91e-06 AAAACACAAC CAACGACGACGACGT ACTACCGTAG 23624 466 2.17e-06 AAAGGAGCGC CGTCAACGACGAGTG CAGTTTAGTT 25796 112 3.35e-06 GATTTCAGCA CAACGCGGAGGAGTG TTGTCCACGA 10385 461 3.75e-06 TGACGAGGAA GGAAGGAGAAGGGAG AGGAGACCCA 23509 370 6.29e-06 AGTGAGATTC GAAAGCCGAAGGCTG AACAAGGCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 23829 6.8e-10 14_[+1]_471 38132 4e-09 128_[+1]_357 22522 2.7e-08 [+1]_485 23113 4.3e-08 225_[+1]_260 24617 6.4e-08 378_[+1]_107 24928 3.8e-07 352_[+1]_133 8287 4.2e-07 190_[+1]_295 21798 1.2e-06 411_[+1]_74 22781 1.9e-06 430_[+1]_55 23624 2.2e-06 465_[+1]_20 25796 3.3e-06 111_[+1]_374 10385 3.8e-06 460_[+1]_25 23509 6.3e-06 369_[+1]_116 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=15 seqs=13 23829 ( 15) CGACGACGACGAGAG 1 38132 ( 129) CGACGACGACGAGAC 1 22522 ( 1) CGACGACGAAGGGTG 1 23113 ( 226) CGACGACGACGACAC 1 24617 ( 379) CGAAGGCGACGAGAG 1 24928 ( 353) GGACGACGAGGAGGC 1 8287 ( 191) CGAAGAAGAAGAGGG 1 21798 ( 412) CGACGCCCACGGGAC 1 22781 ( 431) CAACGACGACGACGT 1 23624 ( 466) CGTCAACGACGAGTG 1 25796 ( 112) CAACGCGGAGGAGTG 1 10385 ( 461) GGAAGGAGAAGGGAG 1 23509 ( 370) GAAAGCCGAAGGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 13608 bayes= 10.5613 E= 1.0e-004 -1035 167 0 -1035 -20 -1035 173 -1035 180 -1035 -1035 -176 21 151 -1035 -1035 -178 -1035 200 -1035 121 -7 -59 -1035 -79 167 -158 -1035 -1035 -165 200 -1035 191 -1035 -1035 -1035 21 115 -59 -1035 -1035 -1035 211 -1035 138 -1035 41 -1035 -1035 -7 173 -1035 80 -1035 0 24 -1035 34 141 -176 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 13 E= 1.0e-004 0.000000 0.769231 0.230769 0.000000 0.230769 0.000000 0.769231 0.000000 0.923077 0.000000 0.000000 0.076923 0.307692 0.692308 0.000000 0.000000 0.076923 0.000000 0.923077 0.000000 0.615385 0.230769 0.153846 0.000000 0.153846 0.769231 0.076923 0.000000 0.000000 0.076923 0.923077 0.000000 1.000000 0.000000 0.000000 0.000000 0.307692 0.538462 0.153846 0.000000 0.000000 0.000000 1.000000 0.000000 0.692308 0.000000 0.307692 0.000000 0.000000 0.230769 0.769231 0.000000 0.461538 0.000000 0.230769 0.307692 0.000000 0.307692 0.615385 0.076923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [CG][GA]A[CA]G[AC]CGA[CA]G[AG][GC][ATG][GC] -------------------------------------------------------------------------------- Time 7.30 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 15 sites = 28 llr = 253 E-value = 3.5e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 8:31554154:885a pos.-specific C :7:9343:41a123: probability G ::::1::111:1:2: matrix T 237:1148:4::::: bits 2.1 1.9 * * 1.7 * * 1.5 * * Relative 1.3 * * * Entropy 1.1 * * * * * (13.1 bits) 0.8 **** * *** * 0.6 **** ** *** * 0.4 ********* ***** 0.2 *************** 0.0 --------------- Multilevel ACTCAATTATCAAAA consensus TA CCA CA CC sequence C G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 25779 237 1.15e-07 ACCTCGCACT ACTCAAATAACAAGA CTCGGCCAGC 9255 225 1.36e-07 AACCTCAACG ACTCCAATATCAACA GTGTAGAGGG 264631 7 3.15e-07 GACAAT ATTCAATTCTCAACA ACAAATGAAC 23829 475 1.01e-06 TTGCAAATCC TCTCACATCACAACA ACAACAACAG 22781 481 1.01e-06 CGAAACAATA ACACCACTCTCAACA ACAAC 25290 109 3.61e-06 TTTGGGGGCG TCTCAAATATCCAAA GAGGAATAGT 8287 8 5.86e-06 AACAATG ATTCCCTTCGCAAAA TTCGCAGAAC 39098 454 5.86e-06 ACACCGTACC ACTCCATTCCCCAAA CAGCCTCTCC 25796 337 6.56e-06 GTAGGAATAA ATTCAAATAGCAAGA GGGTTGAAAG 21664 476 1.11e-05 ACCATCCTCA ACTCAGCTAACACAA GACATCAACC 8968 478 1.65e-05 ACAACGCCAC ACTCTACAATCAACA ACATCACC 38132 90 1.65e-05 ATTTCTGTGG ACACGACTCCCAACA CAAGCCGTCT 4608 242 2.00e-05 CCCCCCGCAA ACACCCAACTCACAA CCAACCTTTT 25806 410 2.00e-05 TCCGTTGGGT ACTCCACTGACACGA CCCAAGGCTC 24928 235 2.20e-05 TCCTTCTCCT ATTCCTTTCACACCA ACGCCGGCCT 23624 208 2.20e-05 GAGTCCAGAT ACTAAAAGATCAAAA GAACTCTTCA 22522 341 2.91e-05 ACTTCATATA ACGCACATAACGAAA CATACCTCGG 24617 479 3.19e-05 CTTCGCGTCT ACTCATCAACCAACA TACAACA 2009 358 3.19e-05 TGTTTCTCCC TTACAATAATCAAAA TTAATAAAAG 23976 95 3.80e-05 ATAATATGCG AATCGCATAACAACA GAATATGGCG 1344 322 4.50e-05 CGCAGACACA ACTCTCTTGTCCAAA TCGATTTCGG 8288 440 8.52e-05 TTTCATTTTA ATTAGCTTAACACAA CTGTATCGGC 14030 228 9.92e-05 CTGAAAGTCC TCAAACTTATCGAAA ATATAAGATG 24897 319 1.33e-04 CCTACAGTGG ACACCCTTCACCGGA CACTGCATGC 10385 2 1.33e-04 G GCTGACCTCACAAAA GAGAAGGGAG 23509 61 1.43e-04 GGAACAAGAT TTACAATGCTCACAA GCTCTTGGTG 21798 130 2.13e-04 AAAGAGAGAT ACTCATATATAGAGA GAGTAGAGTG 23113 484 2.58e-04 CCCCCATTTC CCACACTCCACAAGA CT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 25779 1.2e-07 236_[+2]_249 9255 1.4e-07 224_[+2]_261 264631 3.2e-07 6_[+2]_479 23829 1e-06 474_[+2]_11 22781 1e-06 480_[+2]_5 25290 3.6e-06 108_[+2]_377 8287 5.9e-06 7_[+2]_478 39098 5.9e-06 453_[+2]_32 25796 6.6e-06 336_[+2]_149 21664 1.1e-05 475_[+2]_10 8968 1.6e-05 477_[+2]_8 38132 1.6e-05 89_[+2]_396 4608 2e-05 241_[+2]_244 25806 2e-05 409_[+2]_76 24928 2.2e-05 234_[+2]_251 23624 2.2e-05 207_[+2]_278 22522 2.9e-05 340_[+2]_145 24617 3.2e-05 478_[+2]_7 2009 3.2e-05 357_[+2]_128 23976 3.8e-05 94_[+2]_391 1344 4.5e-05 321_[+2]_164 8288 8.5e-05 439_[+2]_46 14030 9.9e-05 227_[+2]_258 24897 0.00013 318_[+2]_167 10385 0.00013 1_[+2]_484 23509 0.00014 60_[+2]_425 21798 0.00021 129_[+2]_356 23113 0.00026 483_[+2]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=15 seqs=28 25779 ( 237) ACTCAAATAACAAGA 1 9255 ( 225) ACTCCAATATCAACA 1 264631 ( 7) ATTCAATTCTCAACA 1 23829 ( 475) TCTCACATCACAACA 1 22781 ( 481) ACACCACTCTCAACA 1 25290 ( 109) TCTCAAATATCCAAA 1 8287 ( 8) ATTCCCTTCGCAAAA 1 39098 ( 454) ACTCCATTCCCCAAA 1 25796 ( 337) ATTCAAATAGCAAGA 1 21664 ( 476) ACTCAGCTAACACAA 1 8968 ( 478) ACTCTACAATCAACA 1 38132 ( 90) ACACGACTCCCAACA 1 4608 ( 242) ACACCCAACTCACAA 1 25806 ( 410) ACTCCACTGACACGA 1 24928 ( 235) ATTCCTTTCACACCA 1 23624 ( 208) ACTAAAAGATCAAAA 1 22522 ( 341) ACGCACATAACGAAA 1 24617 ( 479) ACTCATCAACCAACA 1 2009 ( 358) TTACAATAATCAAAA 1 23976 ( 95) AATCGCATAACAACA 1 1344 ( 322) ACTCTCTTGTCCAAA 1 8288 ( 440) ATTAGCTTAACACAA 1 14030 ( 228) TCAAACTTATCGAAA 1 24897 ( 319) ACACCCTTCACCGGA 1 10385 ( 2) GCTGACCTCACAAAA 1 23509 ( 61) TTACAATGCTCACAA 1 21798 ( 130) ACTCATATATAGAGA 1 23113 ( 484) CCACACTCCACAAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 13608 bayes= 8.92184 E= 3.5e-003 150 -276 -269 -55 -289 156 -1145 -6 11 -1145 -269 138 -131 182 -269 -1145 101 24 -111 -187 81 70 -269 -128 43 5 -1145 59 -89 -276 -169 152 91 82 -169 -1145 57 -118 -169 71 -289 199 -1145 -1145 150 -76 -111 -1145 150 -18 -269 -1145 81 41 -11 -1145 191 -1145 -1145 -1145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 28 E= 3.5e-003 0.750000 0.035714 0.035714 0.178571 0.035714 0.714286 0.000000 0.250000 0.285714 0.000000 0.035714 0.678571 0.107143 0.857143 0.035714 0.000000 0.535714 0.285714 0.107143 0.071429 0.464286 0.392857 0.035714 0.107143 0.357143 0.250000 0.000000 0.392857 0.142857 0.035714 0.071429 0.750000 0.500000 0.428571 0.071429 0.000000 0.392857 0.107143 0.071429 0.428571 0.035714 0.964286 0.000000 0.000000 0.750000 0.142857 0.107143 0.000000 0.750000 0.214286 0.035714 0.000000 0.464286 0.321429 0.214286 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- A[CT][TA]C[AC][AC][TAC]T[AC][TA]CA[AC][ACG]A -------------------------------------------------------------------------------- Time 14.73 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 20 sites = 16 llr = 200 E-value = 6.1e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::33::1::21:1::3::1: pos.-specific C 59334146:7395191432a probability G :11231:1::111:11:15: matrix T 5:434864a16:39:6673: bits 2.1 * 1.9 * * 1.7 * * 1.5 * * * ** * Relative 1.3 * * * ** * Entropy 1.1 ** * * ** * * (18.0 bits) 0.8 ** * *** * ** ** * 0.6 ** ***** * ** ** * 0.4 ** ******** ******* 0.2 ** **************** 0.0 -------------------- Multilevel CCTACTTCTCTCCTCTTTGC consensus T ACT CT C T ACCT sequence CTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------- 8968 224 4.82e-09 TCATTCAAGG CCTATTTCTCGCTTCTTTGC AACCAAGGAG 23509 140 2.58e-08 GGATGATGGT TCCACCTCTCTCCTCTCTTC CGTGACGGAG 23113 457 7.30e-08 GTCTCTCCCC CCCCTTCCTCTCTTCTCCCC CCATTTCCCA 2009 463 1.04e-07 GCCAGTCCCA CCCTTTTCTTCCCTCATTGC AGCAGCTGAG 25806 459 1.47e-07 TGCTGTTTGA CCTCGTCTTCACCTCTTCGC ACTTTCCATC 25290 442 1.64e-07 GCTGCTGCGC TCTCCGTCTCTCATCACTGC CGAACTGCCA 25796 398 1.83e-07 CCAGCAAGCA CCAATCTCTCTCCTCCCTGC CTACCTCTCG 39098 417 7.28e-07 ACGTCCCCGG CGTGCTTTTCTCGTCATTTC CCCTAACACA 23829 77 7.96e-07 AGAATACAGT TCAGTTTCTACGCTCTTTTC ACTGGCGTCC 9255 79 8.68e-07 GGCCCGGTGC CCTTCTTCTCCGCTGACTGC TGACACAGGA 8287 362 8.68e-07 CTCCCCTCCG TCCAGTCCTCGCCTCTCGCC TCTATACATC 22522 97 2.65e-06 AACGTGAACA CCGAGGCTTCTCGTCGTTGC CTCTCCGGTA 24617 92 2.85e-06 GAGAAAGTAT TCGTGTCTTATCATCTTCCC GCTAATTTGC 38132 7 4.02e-06 ATTTGG TCACCTATTTTCTCCTTTGC AATGCTATAA 4608 85 5.56e-06 TGTAGTCTCG TGTGTTCGTCTCCTCTCCAC TTGCTTTGTT 14030 143 8.94e-06 TTGAAAGCCA TCATCTTTTACCTCGTTTTC CATTTCCGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 8968 4.8e-09 223_[+3]_257 23509 2.6e-08 139_[+3]_341 23113 7.3e-08 456_[+3]_24 2009 1e-07 462_[+3]_18 25806 1.5e-07 458_[+3]_22 25290 1.6e-07 441_[+3]_39 25796 1.8e-07 397_[+3]_83 39098 7.3e-07 416_[+3]_64 23829 8e-07 76_[+3]_404 9255 8.7e-07 78_[+3]_402 8287 8.7e-07 361_[+3]_119 22522 2.6e-06 96_[+3]_384 24617 2.8e-06 91_[+3]_389 38132 4e-06 6_[+3]_474 4608 5.6e-06 84_[+3]_396 14030 8.9e-06 142_[+3]_338 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=20 seqs=16 8968 ( 224) CCTATTTCTCGCTTCTTTGC 1 23509 ( 140) TCCACCTCTCTCCTCTCTTC 1 23113 ( 457) CCCCTTCCTCTCTTCTCCCC 1 2009 ( 463) CCCTTTTCTTCCCTCATTGC 1 25806 ( 459) CCTCGTCTTCACCTCTTCGC 1 25290 ( 442) TCTCCGTCTCTCATCACTGC 1 25796 ( 398) CCAATCTCTCTCCTCCCTGC 1 39098 ( 417) CGTGCTTTTCTCGTCATTTC 1 23829 ( 77) TCAGTTTCTACGCTCTTTTC 1 9255 ( 79) CCTTCTTCTCCGCTGACTGC 1 8287 ( 362) TCCAGTCCTCGCCTCTCGCC 1 22522 ( 97) CCGAGGCTTCTCGTCGTTGC 1 24617 ( 92) TCGTGTCTTATCATCTTCCC 1 38132 ( 7) TCACCTATTTTCTCCTTTGC 1 4608 ( 85) TGTGTTCGTCTCCTCTCCAC 1 14030 ( 143) TCATCTTTTACCTCGTTTTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 20 n= 13468 bayes= 9.71553 E= 6.1e-002 -1064 104 -1064 94 -1064 185 -89 -1064 -9 5 -89 52 24 5 -30 -6 -1064 63 11 52 -1064 -95 -89 152 -208 63 -1064 111 -1064 121 -188 52 -1064 -1064 -1064 194 -50 150 -1064 -106 -208 5 -89 111 -1064 185 -89 -1064 -109 104 -89 -6 -1064 -95 -1064 174 -1064 185 -89 -1064 -9 -195 -188 126 -1064 85 -1064 111 -1064 5 -188 140 -208 -37 111 -6 -1064 204 -1064 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 20 nsites= 16 E= 6.1e-002 0.000000 0.500000 0.000000 0.500000 0.000000 0.875000 0.125000 0.000000 0.250000 0.250000 0.125000 0.375000 0.312500 0.250000 0.187500 0.250000 0.000000 0.375000 0.250000 0.375000 0.000000 0.125000 0.125000 0.750000 0.062500 0.375000 0.000000 0.562500 0.000000 0.562500 0.062500 0.375000 0.000000 0.000000 0.000000 1.000000 0.187500 0.687500 0.000000 0.125000 0.062500 0.250000 0.125000 0.562500 0.000000 0.875000 0.125000 0.000000 0.125000 0.500000 0.125000 0.250000 0.000000 0.125000 0.000000 0.875000 0.000000 0.875000 0.125000 0.000000 0.250000 0.062500 0.062500 0.625000 0.000000 0.437500 0.000000 0.562500 0.000000 0.250000 0.062500 0.687500 0.062500 0.187500 0.500000 0.250000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- [CT]C[TAC][ACT][CTG]T[TC][CT]TC[TC]C[CT]TC[TA][TC][TC][GT]C -------------------------------------------------------------------------------- Time 21.77 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10385 4.45e-03 11_[+1(1.56e-05)]_434_\ [+1(3.75e-06)]_25 1344 5.24e-02 321_[+2(4.50e-05)]_164 14030 8.41e-03 142_[+3(8.94e-06)]_65_\ [+2(9.92e-05)]_258 2009 6.37e-05 357_[+2(3.19e-05)]_90_\ [+3(1.04e-07)]_18 21664 1.36e-02 475_[+2(1.11e-05)]_10 21798 3.44e-03 411_[+1(1.25e-06)]_74 22522 6.23e-08 [+1(2.66e-08)]_81_[+3(2.65e-06)]_11_\ [+1(7.41e-05)]_154_[+3(6.36e-05)]_24_[+2(2.91e-05)]_145 22781 3.77e-06 430_[+1(1.91e-06)]_35_\ [+2(1.01e-06)]_5 23113 2.52e-08 225_[+1(4.29e-08)]_29_\ [+3(4.80e-05)]_167_[+3(7.30e-08)]_24 23509 5.50e-07 139_[+3(2.58e-08)]_210_\ [+1(6.29e-06)]_116 23624 6.35e-04 207_[+2(2.20e-05)]_243_\ [+1(2.17e-06)]_20 23829 3.06e-11 14_[+1(6.81e-10)]_47_[+3(7.96e-07)]_\ 378_[+2(1.01e-06)]_11 23976 4.44e-02 94_[+2(3.80e-05)]_391 24617 1.60e-07 91_[+3(2.85e-06)]_267_\ [+1(6.37e-08)]_85_[+2(3.19e-05)]_7 24897 6.51e-02 500 24928 8.54e-05 234_[+2(2.20e-05)]_103_\ [+1(3.83e-07)]_133 25290 3.18e-06 108_[+2(3.61e-06)]_318_\ [+3(1.64e-07)]_39 25779 3.11e-04 236_[+2(1.15e-07)]_249 25796 1.16e-07 111_[+1(3.35e-06)]_71_\ [+2(7.29e-05)]_124_[+2(6.56e-06)]_46_[+3(1.83e-07)]_83 25806 1.47e-05 409_[+2(2.00e-05)]_34_\ [+3(1.47e-07)]_22 264631 2.57e-03 6_[+2(3.15e-07)]_433_[+2(3.48e-05)]_\ 31 38132 9.57e-09 6_[+3(4.02e-06)]_63_[+2(1.65e-05)]_\ 24_[+1(4.00e-09)]_357 39098 6.07e-05 416_[+3(7.28e-07)]_17_\ [+2(5.86e-06)]_32 4608 4.79e-04 84_[+3(5.56e-06)]_137_\ [+2(2.00e-05)]_244 8287 6.48e-08 7_[+2(5.86e-06)]_168_[+1(4.19e-07)]_\ 12_[+1(4.90e-05)]_129_[+3(8.68e-07)]_119 8288 6.15e-02 439_[+2(8.52e-05)]_46 8968 1.61e-06 223_[+3(4.82e-09)]_234_\ [+2(1.65e-05)]_8 9255 3.87e-07 78_[+3(8.68e-07)]_126_\ [+2(1.36e-07)]_261 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************