******************************************************************************** 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/209/209.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 11299 1.0000 500 12031 1.0000 500 12037 1.0000 500 12662 1.0000 500 1450 1.0000 500 1512 1.0000 500 1968 1.0000 500 1969 1.0000 500 21815 1.0000 500 22497 1.0000 500 23001 1.0000 500 24792 1.0000 500 2488 1.0000 500 270331 1.0000 500 28496 1.0000 500 2946 1.0000 500 32145 1.0000 500 32206 1.0000 500 36203 1.0000 500 38331 1.0000 500 4331 1.0000 500 5045 1.0000 500 5954 1.0000 500 6122 1.0000 500 644 1.0000 500 6672 1.0000 500 7227 1.0000 500 8720 1.0000 500 bd1662 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/209/209.seqs.fa -oc motifs/209 -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= 29 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= 14500 N= 29 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.264 C 0.225 G 0.249 T 0.263 Background letter frequencies (from dataset with add-one prior applied): A 0.264 C 0.225 G 0.249 T 0.263 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 21 sites = 24 llr = 299 E-value = 1.2e-016 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 3:5142326824343533743 pos.-specific C 68276:784283367346356 probability G :1:::1::::::::::::::: matrix T 1132:7:::::34:1231:1: bits 2.2 1.9 1.7 1.5 * Relative 1.3 * ** * Entropy 1.1 * * ***** * (18.0 bits) 0.9 ** ******** ** ** * 0.6 ** ******** ** **** 0.4 ************ *** **** 0.2 ********************* 0.0 --------------------- Multilevel CCACCTCCAACATCCACCACC consensus A TTA A CC CAAACAACAA sequence TC T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 23001 469 4.20e-11 TCACTCAGAG CCACATCCAACACCCATCAAC AGTATCAGTA 38331 465 8.28e-09 TATACATTGT CCTCCTACAACCTACAACACA ACGCTCCAGC 11299 465 8.28e-09 TATACATTGT CCTCCTACAACCTACAACACA ACGCTCCAGC 8720 474 3.78e-08 TGCATCAGAA CCACCTCACAAATCCCCCACA AGCAAC 270331 475 3.78e-08 TGCATCAGAA CCACCTCACAAATCCCCCACA AGCAA 2946 469 5.50e-08 TCTCGAACTC ACACAACCAACTAACTCCACC CCACCGTCAC 24792 454 2.40e-07 TAACTCTTCT CCCCCTCCCACTTCTTCCAAA CGCGACGCCG 1969 162 3.62e-07 ACTGCTCATG CCTCCGCCACCACCACCACCC ACGCCGCCGC 4331 471 4.87e-07 TACAACAATC TCTCCTCCCACACACACTCAC AACTACACC 2488 30 4.87e-07 CATCGCCATC CCTCATACCAATACACCAACC CAACAAAAAC bd1662 345 5.90e-07 CCCAGCCCTC ACCCATCCACCCAACATCATC CGACGCCGAC 1450 123 7.11e-07 GAAAGGAGCC ACAAATCCACCTCCCCAAAAC CAAAGGTTGA 12037 397 7.11e-07 GCTCTGCTCC TCACCACCCACCAACGCCAAC CTCAACGCAA 6122 432 7.80e-07 ACGATAGATA CCAAAGCCAACAACCATACCA ACGCGACAAC 644 356 8.54e-07 AACTTTTGAA CTTCCAACAACAACAATCAAC TGTACTCTTC 21815 474 1.22e-06 CTTCATTGTC CCACCACACACCTCAACAATC TCAACC 1968 468 1.33e-06 CTGGACCCAT CCATATCAAACACAACAAACA TATCCAACAA 22497 59 1.57e-06 CACAGAATGA ACCCATCCAACCAGCATACAC TCACCAGTCT 32206 428 3.76e-06 TCCTCGCCTG CTTCCTCCACCTACTTTCCCC CCACCCCCCT 36203 439 4.05e-06 TTCTTCCTCA ACATCGACAACATAATACACA ATACTATCCA 1512 442 5.40e-06 CCCTCAAAAC AGATCTACAACTTCCATTCCC ACAGCACAGT 12031 436 8.15e-06 TTAACGCCCA CGCTATCCACCAGCCCACCAC TCCTTCATTG 6672 410 9.91e-06 AGATTTAAGA TCACCTCCCGACCACAGCAAC CGACTGCCAC 5954 236 9.91e-06 TTTTATGCAT CCATATACCAGTTCCCACAAT GCATTGCCGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 23001 4.2e-11 468_[+1]_11 38331 8.3e-09 464_[+1]_15 11299 8.3e-09 464_[+1]_15 8720 3.8e-08 473_[+1]_6 270331 3.8e-08 474_[+1]_5 2946 5.5e-08 468_[+1]_11 24792 2.4e-07 453_[+1]_26 1969 3.6e-07 161_[+1]_318 4331 4.9e-07 470_[+1]_9 2488 4.9e-07 29_[+1]_450 bd1662 5.9e-07 344_[+1]_135 1450 7.1e-07 122_[+1]_357 12037 7.1e-07 396_[+1]_83 6122 7.8e-07 431_[+1]_48 644 8.5e-07 355_[+1]_124 21815 1.2e-06 473_[+1]_6 1968 1.3e-06 467_[+1]_12 22497 1.6e-06 58_[+1]_421 32206 3.8e-06 427_[+1]_52 36203 4e-06 438_[+1]_41 1512 5.4e-06 441_[+1]_38 12031 8.1e-06 435_[+1]_44 6672 9.9e-06 409_[+1]_70 5954 9.9e-06 235_[+1]_244 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=21 seqs=24 23001 ( 469) CCACATCCAACACCCATCAAC 1 38331 ( 465) CCTCCTACAACCTACAACACA 1 11299 ( 465) CCTCCTACAACCTACAACACA 1 8720 ( 474) CCACCTCACAAATCCCCCACA 1 270331 ( 475) CCACCTCACAAATCCCCCACA 1 2946 ( 469) ACACAACCAACTAACTCCACC 1 24792 ( 454) CCCCCTCCCACTTCTTCCAAA 1 1969 ( 162) CCTCCGCCACCACCACCACCC 1 4331 ( 471) TCTCCTCCCACACACACTCAC 1 2488 ( 30) CCTCATACCAATACACCAACC 1 bd1662 ( 345) ACCCATCCACCCAACATCATC 1 1450 ( 123) ACAAATCCACCTCCCCAAAAC 1 12037 ( 397) TCACCACCCACCAACGCCAAC 1 6122 ( 432) CCAAAGCCAACAACCATACCA 1 644 ( 356) CTTCCAACAACAACAATCAAC 1 21815 ( 474) CCACCACACACCTCAACAATC 1 1968 ( 468) CCATATCAAACACAACAAACA 1 22497 ( 59) ACCCATCCAACCAGCATACAC 1 32206 ( 428) CTTCCTCCACCTACTTTCCCC 1 36203 ( 439) ACATCGACAACATAATACACA 1 1512 ( 442) AGATCTACAACTTCCATTCCC 1 12031 ( 436) CGCTATCCACCAGCCCACCAC 1 6672 ( 410) TCACCTCCCGACCACAGCAAC 1 5954 ( 236) CCATATACCAGTTCCCACAAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13920 bayes= 9.62554 E= 1.2e-016 -8 147 -1123 -107 -1123 189 -158 -166 104 -43 -1123 15 -166 166 -1123 -34 66 138 -1123 -1123 -66 -1123 -99 143 15 166 -1123 -1123 -66 189 -1123 -1123 124 74 -1123 -1123 151 -11 -257 -1123 -66 182 -257 -1123 66 38 -1123 15 34 15 -257 51 51 138 -257 -1123 -8 157 -1123 -166 80 57 -257 -66 15 74 -257 15 15 147 -1123 -166 143 38 -1123 -1123 66 115 -1123 -166 34 147 -1123 -265 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 24 E= 1.2e-016 0.250000 0.625000 0.000000 0.125000 0.000000 0.833333 0.083333 0.083333 0.541667 0.166667 0.000000 0.291667 0.083333 0.708333 0.000000 0.208333 0.416667 0.583333 0.000000 0.000000 0.166667 0.000000 0.125000 0.708333 0.291667 0.708333 0.000000 0.000000 0.166667 0.833333 0.000000 0.000000 0.625000 0.375000 0.000000 0.000000 0.750000 0.208333 0.041667 0.000000 0.166667 0.791667 0.041667 0.000000 0.416667 0.291667 0.000000 0.291667 0.333333 0.250000 0.041667 0.375000 0.375000 0.583333 0.041667 0.000000 0.250000 0.666667 0.000000 0.083333 0.458333 0.333333 0.041667 0.166667 0.291667 0.375000 0.041667 0.291667 0.291667 0.625000 0.000000 0.083333 0.708333 0.291667 0.000000 0.000000 0.416667 0.500000 0.000000 0.083333 0.333333 0.625000 0.000000 0.041667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [CA]C[AT][CT][CA]T[CA]C[AC][AC]C[ACT][TAC][CA][CA][AC][CAT][CA][AC][CA][CA] -------------------------------------------------------------------------------- Time 7.26 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 12 llr = 183 E-value = 1.1e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :11222:::2:1::2::112: pos.-specific C ::53:1::4:211:7::12:4 probability G a31553:a::6198159188: matrix T :63135a:6838:21518::6 bits 2.2 1.9 * ** 1.7 * ** 1.5 * ** * * Relative 1.3 * ** * ** * * Entropy 1.1 * **** ** * *** (22.1 bits) 0.9 * **** ** ** *** 0.6 ** *************** 0.4 *** * *************** 0.2 ********************* 0.0 --------------------- Multilevel GTCGGTTGTTGTGGCGGTGGT consensus GTCTG C T T C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 8720 304 3.66e-11 GTGTCATGTT GTCGTTTGTTTTGGCGGTGGT TTTGAGTTTG 270331 305 3.66e-11 GTGTCATGTT GTCGTTTGTTTTGGCGGTGGT TTTGAGTTTG 2488 289 1.11e-09 TTGGTGTTGT GTTAGTTGCTGTGGCGGTCGT CGGTCGGTTT 2946 133 2.31e-09 TTTGATTTGT GGTGGGTGTTGTGGGTGTGGT TGGTGGGGTG 5045 333 5.74e-09 GAATGTTTAC GTCGTTTGCAGTGGCGGGGGC CCTGGCTGGA 12037 67 9.83e-08 GTGGAGGGGC GAAGGCTGTTGTGGCGGTGAT GCTGCTTAGT 23001 251 1.66e-07 GTGGCTTGTT GTCCAGTGTAGCGGATGTGGC AGAGATCAAG 32206 263 2.06e-07 GTGCCGACAT GGCTGTTGTTGTGTTTGTGAT GGAAACGAGT 21815 194 2.53e-07 ACAGCTAGGT GTTCTTTGCTCTCGAGGTCGT CCTTACCAAC 36203 135 3.10e-07 GTGCACCGTT GGTAGGTGCTTGGGCTGAGGC TACACGTGTA 1512 190 4.84e-07 CCGCTGATAC GGCCGATGCTGAGGCTGCAGC TGTGACGAGG 28496 352 7.32e-07 TCAGGTGGAA GTGGAATGTTCTGTCTTTGGC GGCAATGCAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 8720 3.7e-11 303_[+2]_176 270331 3.7e-11 304_[+2]_175 2488 1.1e-09 288_[+2]_191 2946 2.3e-09 132_[+2]_347 5045 5.7e-09 332_[+2]_147 12037 9.8e-08 66_[+2]_413 23001 1.7e-07 250_[+2]_229 32206 2.1e-07 262_[+2]_217 21815 2.5e-07 193_[+2]_286 36203 3.1e-07 134_[+2]_345 1512 4.8e-07 189_[+2]_290 28496 7.3e-07 351_[+2]_128 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=12 8720 ( 304) GTCGTTTGTTTTGGCGGTGGT 1 270331 ( 305) GTCGTTTGTTTTGGCGGTGGT 1 2488 ( 289) GTTAGTTGCTGTGGCGGTCGT 1 2946 ( 133) GGTGGGTGTTGTGGGTGTGGT 1 5045 ( 333) GTCGTTTGCAGTGGCGGGGGC 1 12037 ( 67) GAAGGCTGTTGTGGCGGTGAT 1 23001 ( 251) GTCCAGTGTAGCGGATGTGGC 1 32206 ( 263) GGCTGTTGTTGTGTTTGTGAT 1 21815 ( 194) GTTCTTTGCTCTCGAGGTCGT 1 36203 ( 135) GGTAGGTGCTTGGGCTGAGGC 1 1512 ( 190) GGCCGATGCTGAGGCTGCAGC 1 28496 ( 352) GTGGAATGTTCTGTCTTTGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13920 bayes= 10.6265 E= 1.1e-004 -1023 -1023 201 -1023 -166 -1023 42 115 -166 115 -157 34 -66 15 101 -165 -66 -1023 101 34 -66 -143 1 93 -1023 -1023 -1023 193 -1023 -1023 201 -1023 -1023 89 -1023 115 -66 -1023 -1023 166 -1023 -43 123 -7 -166 -143 -157 151 -1023 -143 188 -1023 -1023 -1023 174 -66 -66 157 -157 -165 -1023 -1023 101 93 -1023 -1023 188 -165 -166 -143 -157 151 -166 -43 159 -1023 -66 -1023 174 -1023 -1023 89 -1023 115 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 12 E= 1.1e-004 0.000000 0.000000 1.000000 0.000000 0.083333 0.000000 0.333333 0.583333 0.083333 0.500000 0.083333 0.333333 0.166667 0.250000 0.500000 0.083333 0.166667 0.000000 0.500000 0.333333 0.166667 0.083333 0.250000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.416667 0.000000 0.583333 0.166667 0.000000 0.000000 0.833333 0.000000 0.166667 0.583333 0.250000 0.083333 0.083333 0.083333 0.750000 0.000000 0.083333 0.916667 0.000000 0.000000 0.000000 0.833333 0.166667 0.166667 0.666667 0.083333 0.083333 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.916667 0.083333 0.083333 0.083333 0.083333 0.750000 0.083333 0.166667 0.750000 0.000000 0.166667 0.000000 0.833333 0.000000 0.000000 0.416667 0.000000 0.583333 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- G[TG][CT][GC][GT][TG]TG[TC]T[GT]TGGC[GT]GTGG[TC] -------------------------------------------------------------------------------- Time 13.71 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 11 llr = 177 E-value = 2.7e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :73292345:471::5:2:7: pos.-specific C 2::31::1:::::23::11:: probability G 7:55:772:a6:9861a59:a matrix T 132::1:45::3::14:2:3: bits 2.2 1.9 * * * 1.7 * * * 1.5 * * * * * * Relative 1.3 * * ** * * * Entropy 1.1 * * * ***** * *** (23.2 bits) 0.9 ** *** ******* * *** 0.6 ** **** ********* *** 0.4 ******* ********* *** 0.2 ********************* 0.0 --------------------- Multilevel GAGGAGGAAGGAGGGAGGGAG consensus TAC ATT AT CT T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 38331 228 3.37e-12 GGAATACTAT GAGCAGGTAGGAGGGAGGGAG GGTGGGAGGA 11299 228 3.37e-12 GGAATACTAT GAGCAGGTAGGAGGGAGGGAG GGTGGGAGGA 24792 304 3.61e-09 AGGCAGGACG GTGGAGGCAGGAGGCAGTGAG GGGCAGGGAG 8720 346 5.04e-09 GATGTGCGGT GATGAGGTTGATGGGTGGGTG TCTAAAAAGG 270331 347 5.04e-09 GATGTGCGGT GATGAGGTTGATGGGTGGGTG TCTAAAAAGG 6672 102 5.79e-08 ATGGAGTGAA CAAGAGGAAGGTGGTTGAGAG TGTTGAGATG 12031 31 6.70e-08 TGCGGGAGTT GAGCAAAATGGAAGGAGTGAG TGTGGCAGTA 6122 148 1.02e-07 GATTAGGCAG TAAAAGAGTGAAGGCAGGGAG AAAGGGTAGC 22497 199 1.32e-07 CGATGAAGAC GTAGAAGAAGAAGCCTGAGAG GCCGGCGAGG 1450 422 2.25e-07 TGCGTTGTTG CTGGATGGAGGAGGGGGCGAG GAAGCATGAT 2946 232 3.41e-07 TGGCTGACCC GAGACGAATGGAGCGAGGCTG TACGAGACTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 38331 3.4e-12 227_[+3]_252 11299 3.4e-12 227_[+3]_252 24792 3.6e-09 303_[+3]_176 8720 5e-09 345_[+3]_134 270331 5e-09 346_[+3]_133 6672 5.8e-08 101_[+3]_378 12031 6.7e-08 30_[+3]_449 6122 1e-07 147_[+3]_332 22497 1.3e-07 198_[+3]_281 1450 2.2e-07 421_[+3]_58 2946 3.4e-07 231_[+3]_248 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=11 38331 ( 228) GAGCAGGTAGGAGGGAGGGAG 1 11299 ( 228) GAGCAGGTAGGAGGGAGGGAG 1 24792 ( 304) GTGGAGGCAGGAGGCAGTGAG 1 8720 ( 346) GATGAGGTTGATGGGTGGGTG 1 270331 ( 347) GATGAGGTTGATGGGTGGGTG 1 6672 ( 102) CAAGAGGAAGGTGGTTGAGAG 1 12031 ( 31) GAGCAAAATGGAAGGAGTGAG 1 6122 ( 148) TAAAAGAGTGAAGGCAGGGAG 1 22497 ( 199) GTAGAAGAAGAAGCCTGAGAG 1 1450 ( 422) CTGGATGGAGGAGGGGGCGAG 1 2946 ( 232) GAGACGAATGGAGCGAGGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13920 bayes= 10.6596 E= 2.7e-005 -1010 -31 155 -153 146 -1010 -1010 5 5 -1010 113 -53 -54 28 113 -1010 178 -130 -1010 -1010 -54 -1010 155 -153 5 -1010 155 -1010 46 -130 -45 47 105 -1010 -1010 79 -1010 -1010 201 -1010 46 -1010 136 -1010 146 -1010 -1010 5 -153 -1010 187 -1010 -1010 -31 172 -1010 -1010 28 136 -153 105 -1010 -145 47 -1010 -1010 201 -1010 -54 -130 113 -53 -1010 -130 187 -1010 146 -1010 -1010 5 -1010 -1010 201 -1010 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 11 E= 2.7e-005 0.000000 0.181818 0.727273 0.090909 0.727273 0.000000 0.000000 0.272727 0.272727 0.000000 0.545455 0.181818 0.181818 0.272727 0.545455 0.000000 0.909091 0.090909 0.000000 0.000000 0.181818 0.000000 0.727273 0.090909 0.272727 0.000000 0.727273 0.000000 0.363636 0.090909 0.181818 0.363636 0.545455 0.000000 0.000000 0.454545 0.000000 0.000000 1.000000 0.000000 0.363636 0.000000 0.636364 0.000000 0.727273 0.000000 0.000000 0.272727 0.090909 0.000000 0.909091 0.000000 0.000000 0.181818 0.818182 0.000000 0.000000 0.272727 0.636364 0.090909 0.545455 0.000000 0.090909 0.363636 0.000000 0.000000 1.000000 0.000000 0.181818 0.090909 0.545455 0.181818 0.000000 0.090909 0.909091 0.000000 0.727273 0.000000 0.000000 0.272727 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- G[AT][GA][GC]AG[GA][AT][AT]G[GA][AT]GG[GC][AT]GGG[AT]G -------------------------------------------------------------------------------- Time 20.58 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 11299 2.89e-12 227_[+3(3.37e-12)]_216_\ [+1(8.28e-09)]_15 12031 1.21e-05 30_[+3(6.70e-08)]_324_\ [+3(5.84e-05)]_39_[+1(8.15e-06)]_44 12037 1.72e-06 66_[+2(9.83e-08)]_309_\ [+1(7.11e-07)]_83 12662 6.09e-01 500 1450 3.59e-06 122_[+1(7.11e-07)]_278_\ [+3(2.25e-07)]_58 1512 3.70e-05 189_[+2(4.84e-07)]_231_\ [+1(5.40e-06)]_38 1968 2.18e-02 430_[+1(1.06e-05)]_16_\ [+1(1.33e-06)]_12 1969 5.95e-03 161_[+1(3.62e-07)]_318 21815 3.94e-06 193_[+2(2.53e-07)]_259_\ [+1(1.22e-06)]_6 22497 6.52e-07 58_[+1(1.57e-06)]_119_\ [+3(1.32e-07)]_243_[+1(2.04e-05)]_17 23001 1.98e-10 250_[+2(1.66e-07)]_197_\ [+1(4.20e-11)]_11 24792 3.20e-09 70_[+2(9.77e-05)]_212_\ [+3(3.61e-09)]_129_[+1(2.40e-07)]_26 2488 3.30e-08 29_[+1(4.87e-07)]_238_\ [+2(1.11e-09)]_191 270331 7.03e-16 304_[+2(3.66e-11)]_21_\ [+3(5.04e-09)]_107_[+1(3.78e-08)]_5 28496 2.39e-03 351_[+2(7.32e-07)]_128 2946 2.77e-12 132_[+2(2.31e-09)]_2_[+2(6.74e-05)]_\ 55_[+3(3.41e-07)]_216_[+1(5.50e-08)]_11 32145 9.74e-01 500 32206 2.13e-05 262_[+2(2.06e-07)]_144_\ [+1(3.76e-06)]_52 36203 1.89e-05 134_[+2(3.10e-07)]_283_\ [+1(4.05e-06)]_41 38331 2.89e-12 227_[+3(3.37e-12)]_216_\ [+1(8.28e-09)]_15 4331 1.09e-03 470_[+1(4.87e-07)]_9 5045 2.72e-05 332_[+2(5.74e-09)]_147 5954 6.15e-02 235_[+1(9.91e-06)]_244 6122 2.22e-06 147_[+3(1.02e-07)]_263_\ [+1(7.80e-07)]_48 644 1.24e-02 355_[+1(8.54e-07)]_124 6672 7.14e-06 101_[+3(5.79e-08)]_287_\ [+1(9.91e-06)]_70 7227 3.86e-01 500 8720 7.03e-16 303_[+2(3.66e-11)]_21_\ [+3(5.04e-09)]_107_[+1(3.78e-08)]_6 bd1662 7.52e-03 344_[+1(5.90e-07)]_135 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************