******************************************************************************** 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/79/79.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 11069 1.0000 500 1365 1.0000 500 1806 1.0000 500 20954 1.0000 500 20986 1.0000 500 2132 1.0000 500 2311 1.0000 500 25304 1.0000 500 262529 1.0000 500 262697 1.0000 500 263770 1.0000 500 268668 1.0000 500 33955 1.0000 500 34992 1.0000 500 4159 1.0000 500 4742 1.0000 500 5047 1.0000 500 7027 1.0000 500 7594 1.0000 500 7904 1.0000 500 7967 1.0000 500 9822 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/79/79.seqs.fa -oc motifs/79 -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= 22 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= 11000 N= 22 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.273 C 0.226 G 0.250 T 0.251 Background letter frequencies (from dataset with add-one prior applied): A 0.273 C 0.226 G 0.250 T 0.251 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 21 sites = 22 llr = 238 E-value = 4.8e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 1::::1511::::5::2:81: pos.-specific C :2::2:12::1:114:1::1: probability G 4391182384349:3537:37 matrix T 55:96:251555:44443253 bits 2.1 1.9 1.7 1.5 * * Relative 1.3 ** * Entropy 1.1 ** * * * * * (15.6 bits) 0.9 ** * ** ** ** * 0.6 ****** ** ** * ** * 0.4 ****** ***** ** **** 0.2 ********************* 0.0 --------------------- Multilevel TTGTTGATGTTTGACGTGATG consensus GG C GG GGG TTTGT GT sequence T G A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 268668 260 1.49e-10 AAGTGTTGCT GTGTTGGTGTTGGTTGTGATG TTGTTCGGCT 1806 245 2.44e-07 TGCGGCGGTT TCGTTGGGGTGTGACGGGTGG TCGGTGGAGG 20986 237 3.09e-07 GATTTGCAAA TGGTCGTTGGTTGATGCGTTG TGAACGACAC 25304 3 3.88e-07 CG TTGTTGTTAGGTGACGTGACG GCGTAGCACA 2311 168 3.88e-07 GTTTGTGAAC TCGTTGACGTCGGCGGTGAGG CCCATAGTTC 34992 196 4.86e-07 TTGGCTGGTG GTGTGGATGTTGGGCTGGAGG CTCTTGCCGA 5047 150 5.42e-07 TGGTGTTGTT GTGTTGAGATGGGTGTTGATT GGGAGGATGT 7594 269 6.04e-07 TGAAGGATGT GTGTTGGGGATGGCGTTGATG AGGCGGCCGT 262529 22 6.04e-07 TGCCGACACA TTCTTGACGGTTGTCGAGATT ACATGCAAAG 263770 48 6.73e-07 GCCGTAGACG GTGTTTAGGGTTGAGGAGATT CGTAGTTGTC 4742 51 7.49e-07 AAAAATGACA GTGTTGTTGTTCGTTTGTATT TTAAGAAGAA 7967 155 9.23e-07 GGCGGCGAGG ATGTCGTTGGCGGAGGAGATG GAGGTTATGG 33955 252 3.56e-06 TCTACGCAGA TTGTTGAATGTTGATTGAATG ATTGTATGCA 9822 206 3.90e-06 TGTGATTGTG TGGTCAAGGTTGGTTTGGAAG AGAGCGAGCG 1365 151 5.07e-06 CATCATGATA GCGTGGATGTGTGTGCATATG ATTAGGTCGG 20954 18 7.74e-06 GTAGTTGTAA TGGTGGCTGGCTGTTGTTTGG CAGTTTGTTC 7904 394 2.13e-05 GGTCAGTTGC TTGTTGCCTTGTGTCTCGTGT TCACAGAAGT 4159 38 2.46e-05 GCGGCAGCGA GGGTCGGTGTAGGACAGTAGG AAGGAAGGTG 7027 111 3.75e-05 ACTACTTTTG GGGACAAAGGTTGACGTGATT ACGACGATCA 262697 473 4.30e-05 GGAAACAAGG TGTGTGTTGTGTGACGATACG TTTGGAT 11069 92 1.04e-04 ATAGCTTCCC TTGTTGAGTTTGCCTTTTCAG ATAGAGTGTC 2132 181 1.24e-04 AAGCGGATGC ACGGTCGCGGTTCATGTGATG CGAACGGCGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 268668 1.5e-10 259_[+1]_220 1806 2.4e-07 244_[+1]_235 20986 3.1e-07 236_[+1]_243 25304 3.9e-07 2_[+1]_477 2311 3.9e-07 167_[+1]_312 34992 4.9e-07 195_[+1]_284 5047 5.4e-07 149_[+1]_330 7594 6e-07 268_[+1]_211 262529 6e-07 21_[+1]_458 263770 6.7e-07 47_[+1]_432 4742 7.5e-07 50_[+1]_429 7967 9.2e-07 154_[+1]_325 33955 3.6e-06 251_[+1]_228 9822 3.9e-06 205_[+1]_274 1365 5.1e-06 150_[+1]_329 20954 7.7e-06 17_[+1]_462 7904 2.1e-05 393_[+1]_86 4159 2.5e-05 37_[+1]_442 7027 3.8e-05 110_[+1]_369 262697 4.3e-05 472_[+1]_7 11069 0.0001 91_[+1]_388 2132 0.00012 180_[+1]_299 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=21 seqs=22 268668 ( 260) GTGTTGGTGTTGGTTGTGATG 1 1806 ( 245) TCGTTGGGGTGTGACGGGTGG 1 20986 ( 237) TGGTCGTTGGTTGATGCGTTG 1 25304 ( 3) TTGTTGTTAGGTGACGTGACG 1 2311 ( 168) TCGTTGACGTCGGCGGTGAGG 1 34992 ( 196) GTGTGGATGTTGGGCTGGAGG 1 5047 ( 150) GTGTTGAGATGGGTGTTGATT 1 7594 ( 269) GTGTTGGGGATGGCGTTGATG 1 262529 ( 22) TTCTTGACGGTTGTCGAGATT 1 263770 ( 48) GTGTTTAGGGTTGAGGAGATT 1 4742 ( 51) GTGTTGTTGTTCGTTTGTATT 1 7967 ( 155) ATGTCGTTGGCGGAGGAGATG 1 33955 ( 252) TTGTTGAATGTTGATTGAATG 1 9822 ( 206) TGGTCAAGGTTGGTTTGGAAG 1 1365 ( 151) GCGTGGATGTGTGTGCATATG 1 20954 ( 18) TGGTGGCTGGCTGTTGTTTGG 1 7904 ( 394) TTGTTGCCTTGTGTCTCGTGT 1 4159 ( 38) GGGTCGGTGTAGGACAGTAGG 1 7027 ( 111) GGGACAAAGGTTGACGTGATT 1 262697 ( 473) TGTGTGTTGTGTGACGATACG 1 11069 ( 92) TTGTTGAGTTTGCCTTTTCAG 1 2132 ( 181) ACGGTCGCGGTTCATGTGATG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 10560 bayes= 8.90388 E= 4.8e-004 -158 -1110 71 99 -1110 -31 12 112 -1110 -231 186 -246 -258 -1110 -146 178 -1110 1 -88 134 -158 -231 171 -246 74 -131 -14 -14 -158 -31 12 86 -158 -1110 162 -88 -258 -1110 71 112 -258 -73 12 112 -1110 -231 71 112 -1110 -131 186 -1110 74 -73 -246 53 -1110 69 12 53 -258 -231 112 53 -26 -131 12 70 -258 -1110 144 12 150 -231 -1110 -47 -158 -131 12 112 -1110 -1110 154 12 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 22 E= 4.8e-004 0.090909 0.000000 0.409091 0.500000 0.000000 0.181818 0.272727 0.545455 0.000000 0.045455 0.909091 0.045455 0.045455 0.000000 0.090909 0.863636 0.000000 0.227273 0.136364 0.636364 0.090909 0.045455 0.818182 0.045455 0.454545 0.090909 0.227273 0.227273 0.090909 0.181818 0.272727 0.454545 0.090909 0.000000 0.772727 0.136364 0.045455 0.000000 0.409091 0.545455 0.045455 0.136364 0.272727 0.545455 0.000000 0.045455 0.409091 0.545455 0.000000 0.090909 0.909091 0.000000 0.454545 0.136364 0.045455 0.363636 0.000000 0.363636 0.272727 0.363636 0.045455 0.045455 0.545455 0.363636 0.227273 0.090909 0.272727 0.409091 0.045455 0.000000 0.681818 0.272727 0.772727 0.045455 0.000000 0.181818 0.090909 0.090909 0.272727 0.545455 0.000000 0.000000 0.727273 0.272727 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [TG][TG]GT[TC]G[AGT][TG]G[TG][TG][TG]G[AT][CTG][GT][TGA][GT]A[TG][GT] -------------------------------------------------------------------------------- Time 4.53 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 21 llr = 236 E-value = 4.8e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 23541:24442296245:881 pos.-specific C 67146a46255812612a:18 probability G 1:2:1:1:2:1::2:41::11 matrix T ::222:3:112:::2:1:2:: bits 2.1 1.9 * * 1.7 * * 1.5 * * Relative 1.3 * ** * Entropy 1.1 * * * ** * * (16.2 bits) 0.9 * * * ** **** 0.6 ** * * * **** **** 0.4 ** *** * * ***** **** 0.2 ******** ************ 0.0 --------------------- Multilevel CCAACCCCACCCAACAACAAC consensus AATC TACAAA CAG sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 20986 57 5.24e-10 ACTCCCACCC CCCACCCCGCCCAACAACAAC ACACAGAACA 4742 265 8.03e-10 CCAATTCGCG CCATCCTCAACCAACGTCAAC ACAGCGCCGA 1365 477 2.88e-08 GAAACTCGTC CATCTCACCACCAACGACAAC AGC 7967 32 1.20e-07 GATTCTCTTC CAGCTCCCACCCAATGTCAAC AATATCAGAA 33955 459 1.78e-07 CACAAAACAG CCAACCGAATCAACCAACAAC GGCCGATCAC 1806 428 2.93e-07 CTTTCGTCTT CCTTGCTAGCTCAACGCCAAC GCACACAGCT 34992 476 6.64e-07 ACCTCTCAAA CCACCCCATACCACCACCTCC ACAG 262697 358 6.64e-07 TCCTTTTGCA ACACCCCCACACCACGGCACC ACCACCAACA 7904 472 1.14e-06 GCAGAGCCAG CCACACTAAAACAGACACAAC AGCAGAAA 11069 393 1.90e-06 GTCCTGACGG ACAACCACAACACAAACCAAC GACGGAGGCG 2311 474 2.31e-06 TAACCAACGG ACCTCCCATCCCAACAACTAA GCAACA 7027 432 5.25e-06 ACCCGCCAAT GCTTCCCCCCTCACCCTCTAC AGGAGCCCTC 9822 477 7.36e-06 AATAGTACTG CATATCAATCCCAAAGACGAC ACA 263770 480 7.36e-06 GCTTTGCTAG ACTACCTACAACAATAGCAAG 268668 468 1.01e-05 AAACACAAAG CAAAGCGCACAAAGCACCAGC AGATGTTCCA 4159 405 1.28e-05 CCCTCTGAGA AAGCCCCAGCGCACCAATAAC AGAGCAGAAA 20954 311 1.38e-05 CAGGCAGCAA CAACCAAACCACAAAAACAAA TAATTTGACG 5047 203 2.44e-05 ATGCCTAACG CCACACGCGATACGTGACAAC GAGCTTGGCT 2132 77 2.98e-05 GTCGGCAGCG GCAATCCCATTCACAGACTGC GGTGGAGAGA 25304 465 3.18e-05 TCCGTCCCTC TCGTCCTCCCGCAGCGGCAAG ACAAACACAC 262529 125 4.09e-05 CGATTCTGTC CAGAGCTCAACAAATCACAGA CGGTTGCGTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 20986 5.2e-10 56_[+2]_423 4742 8e-10 264_[+2]_215 1365 2.9e-08 476_[+2]_3 7967 1.2e-07 31_[+2]_448 33955 1.8e-07 458_[+2]_21 1806 2.9e-07 427_[+2]_52 34992 6.6e-07 475_[+2]_4 262697 6.6e-07 357_[+2]_122 7904 1.1e-06 471_[+2]_8 11069 1.9e-06 392_[+2]_87 2311 2.3e-06 473_[+2]_6 7027 5.2e-06 431_[+2]_48 9822 7.4e-06 476_[+2]_3 263770 7.4e-06 479_[+2] 268668 1e-05 467_[+2]_12 4159 1.3e-05 404_[+2]_75 20954 1.4e-05 310_[+2]_169 5047 2.4e-05 202_[+2]_277 2132 3e-05 76_[+2]_403 25304 3.2e-05 464_[+2]_15 262529 4.1e-05 124_[+2]_355 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=21 20986 ( 57) CCCACCCCGCCCAACAACAAC 1 4742 ( 265) CCATCCTCAACCAACGTCAAC 1 1365 ( 477) CATCTCACCACCAACGACAAC 1 7967 ( 32) CAGCTCCCACCCAATGTCAAC 1 33955 ( 459) CCAACCGAATCAACCAACAAC 1 1806 ( 428) CCTTGCTAGCTCAACGCCAAC 1 34992 ( 476) CCACCCCATACCACCACCTCC 1 262697 ( 358) ACACCCCCACACCACGGCACC 1 7904 ( 472) CCACACTAAAACAGACACAAC 1 11069 ( 393) ACAACCACAACACAAACCAAC 1 2311 ( 474) ACCTCCCATCCCAACAACTAA 1 7027 ( 432) GCTTCCCCCCTCACCCTCTAC 1 9822 ( 477) CATATCAATCCCAAAGACGAC 1 263770 ( 480) ACTACCTACAACAATAGCAAG 1 268668 ( 468) CAAAGCGCACAAAGCACCAGC 1 4159 ( 405) AAGCCCCAGCGCACCAATAAC 1 20954 ( 311) CAACCAAACCACAAAAACAAA 1 5047 ( 203) CCACACGCGATACGTGACAAC 1 2132 ( 77) GCAATCCCATTCACAGACTGC 1 25304 ( 465) TCGTCCTCCCGCAGCGGCAAG 1 262529 ( 125) CAGAGCTCAACAAATCACAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 10560 bayes= 9.27653 E= 4.8e-005 -19 145 -139 -240 29 156 -1104 -1104 80 -124 -39 -8 48 75 -1104 -8 -152 134 -81 -40 -251 208 -1104 -1104 -52 75 -81 19 65 134 -1104 -1104 65 8 -39 -81 48 121 -1104 -140 -19 108 -139 -40 -19 175 -1104 -1104 165 -66 -1104 -1104 107 8 -39 -1104 -19 134 -1104 -40 65 -66 77 -1104 94 -25 -81 -81 -1104 208 -1104 -240 148 -1104 -239 -40 148 -124 -81 -1104 -93 175 -139 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 21 E= 4.8e-005 0.238095 0.619048 0.095238 0.047619 0.333333 0.666667 0.000000 0.000000 0.476190 0.095238 0.190476 0.238095 0.380952 0.380952 0.000000 0.238095 0.095238 0.571429 0.142857 0.190476 0.047619 0.952381 0.000000 0.000000 0.190476 0.380952 0.142857 0.285714 0.428571 0.571429 0.000000 0.000000 0.428571 0.238095 0.190476 0.142857 0.380952 0.523810 0.000000 0.095238 0.238095 0.476190 0.095238 0.190476 0.238095 0.761905 0.000000 0.000000 0.857143 0.142857 0.000000 0.000000 0.571429 0.238095 0.190476 0.000000 0.238095 0.571429 0.000000 0.190476 0.428571 0.142857 0.428571 0.000000 0.523810 0.190476 0.142857 0.142857 0.000000 0.952381 0.000000 0.047619 0.761905 0.000000 0.047619 0.190476 0.761905 0.095238 0.142857 0.000000 0.142857 0.761905 0.095238 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [CA][CA][AT][ACT]CC[CT][CA][AC][CA][CA][CA]A[AC][CA][AG]ACAAC -------------------------------------------------------------------------------- Time 8.63 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 7 llr = 123 E-value = 2.7e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :3::::43:::1::3:::::1 pos.-specific C :717a7439973:a17766a9 probability G :::3:::411334:3::31:: matrix T a:9::31::::36:33313:: bits 2.1 * * * 1.9 * * * * 1.7 * * * * 1.5 * * * ** * ** Relative 1.3 ****** *** * ** ** Entropy 1.1 ****** *** ** ** ** (25.4 bits) 0.9 ****** *** ** ** ** 0.6 ******* *** ** ****** 0.4 *********** ** ****** 0.2 *********** ** ****** 0.0 --------------------- Multilevel TCTCCCAGCCCCTCACCCCCC consensus A G TCA GGG GTTGT sequence C T T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 1365 404 3.08e-12 AAGTGCCTTT TCTCCCAGCCCTGCTCCCCCC CCCAGCCAGA 5047 270 4.23e-11 CACATGAGCT TCTCCCACCCCCTCACTCCCC GAAACGTCTT 7594 406 3.88e-09 GCAACGATGA TATCCTCACCGTTCTCCCTCC ATTATTATTC 9822 316 1.33e-08 TCCTTCGCCC TCCGCCTGCCCGGCGCCCGCC CAGGTTGACA 34992 433 1.73e-08 TGAGTAAATG TATCCCCGCCCGTCATTGCCA ATTGCTCGAT 4159 317 1.97e-08 CTCTTTCTTC TCTCCTCCCGGAGCGCCGCCC GCCCACATCC 263770 399 4.46e-08 TGTGGACAAA TCTGCCAAGCCCTCCTCTTCC TCCGCTCTGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 1365 3.1e-12 403_[+3]_76 5047 4.2e-11 269_[+3]_210 7594 3.9e-09 405_[+3]_74 9822 1.3e-08 315_[+3]_164 34992 1.7e-08 432_[+3]_47 4159 2e-08 316_[+3]_163 263770 4.5e-08 398_[+3]_81 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=7 1365 ( 404) TCTCCCAGCCCTGCTCCCCCC 1 5047 ( 270) TCTCCCACCCCCTCACTCCCC 1 7594 ( 406) TATCCTCACCGTTCTCCCTCC 1 9822 ( 316) TCCGCCTGCCCGGCGCCCGCC 1 34992 ( 433) TATCCCCGCCCGTCATTGCCA 1 4159 ( 317) TCTCCTCCCGGAGCGCCGCCC 1 263770 ( 399) TCTGCCAAGCCCTCCTCTTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 10560 bayes= 11.7809 E= 2.7e-001 -945 -945 -945 199 7 166 -945 -945 -945 -66 -945 177 -945 166 19 -945 -945 215 -945 -945 -945 166 -945 19 65 92 -945 -81 7 34 77 -945 -945 192 -81 -945 -945 192 -81 -945 -945 166 19 -945 -93 34 19 19 -945 -945 77 118 -945 215 -945 -945 7 -66 19 19 -945 166 -945 19 -945 166 -945 19 -945 134 19 -81 -945 134 -81 19 -945 215 -945 -945 -93 192 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 7 E= 2.7e-001 0.000000 0.000000 0.000000 1.000000 0.285714 0.714286 0.000000 0.000000 0.000000 0.142857 0.000000 0.857143 0.000000 0.714286 0.285714 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.714286 0.000000 0.285714 0.428571 0.428571 0.000000 0.142857 0.285714 0.285714 0.428571 0.000000 0.000000 0.857143 0.142857 0.000000 0.000000 0.857143 0.142857 0.000000 0.000000 0.714286 0.285714 0.000000 0.142857 0.285714 0.285714 0.285714 0.000000 0.000000 0.428571 0.571429 0.000000 1.000000 0.000000 0.000000 0.285714 0.142857 0.285714 0.285714 0.000000 0.714286 0.000000 0.285714 0.000000 0.714286 0.000000 0.285714 0.000000 0.571429 0.285714 0.142857 0.000000 0.571429 0.142857 0.285714 0.000000 1.000000 0.000000 0.000000 0.142857 0.857143 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- T[CA]T[CG]C[CT][AC][GAC]CC[CG][CGT][TG]C[AGT][CT][CT][CG][CT]CC -------------------------------------------------------------------------------- Time 12.51 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 11069 2.64e-03 392_[+2(1.90e-06)]_28_\ [+2(7.29e-05)]_38 1365 3.69e-14 150_[+1(5.07e-06)]_232_\ [+3(3.08e-12)]_52_[+2(2.88e-08)]_3 1806 2.33e-06 244_[+1(2.44e-07)]_162_\ [+2(2.93e-07)]_52 20954 4.31e-04 17_[+1(7.74e-06)]_272_\ [+2(1.38e-05)]_169 20986 4.76e-10 56_[+2(5.24e-10)]_159_\ [+1(3.09e-07)]_243 2132 4.85e-03 76_[+2(2.98e-05)]_403 2311 1.74e-05 167_[+1(3.88e-07)]_285_\ [+2(2.31e-06)]_6 25304 3.19e-05 2_[+1(3.88e-07)]_67_[+1(8.17e-05)]_\ 106_[+1(4.91e-05)]_226_[+2(3.18e-05)]_15 262529 3.38e-04 21_[+1(6.04e-07)]_82_[+2(4.09e-05)]_\ 355 262697 5.23e-05 357_[+2(6.64e-07)]_94_\ [+1(4.30e-05)]_7 263770 7.91e-09 47_[+1(6.73e-07)]_330_\ [+3(4.46e-08)]_60_[+2(7.36e-06)] 268668 7.88e-09 259_[+1(1.49e-10)]_187_\ [+2(1.01e-05)]_12 33955 2.89e-06 251_[+1(3.56e-06)]_186_\ [+2(1.78e-07)]_21 34992 2.62e-10 195_[+1(4.86e-07)]_216_\ [+3(1.73e-08)]_22_[+2(6.64e-07)]_4 4159 1.66e-07 37_[+1(2.46e-05)]_258_\ [+3(1.97e-08)]_67_[+2(1.28e-05)]_75 4742 2.53e-08 16_[+1(9.22e-05)]_13_[+1(7.49e-07)]_\ 193_[+2(8.03e-10)]_215 5047 3.04e-11 149_[+1(5.42e-07)]_32_\ [+2(2.44e-05)]_46_[+3(4.23e-11)]_210 7027 3.58e-04 110_[+1(3.75e-05)]_300_\ [+2(5.25e-06)]_48 7594 1.04e-07 268_[+1(6.04e-07)]_79_\ [+1(2.46e-05)]_16_[+3(3.88e-09)]_74 7904 1.19e-04 393_[+1(2.13e-05)]_57_\ [+2(1.14e-06)]_8 7967 2.81e-06 31_[+2(1.20e-07)]_102_\ [+1(9.23e-07)]_30_[+1(7.68e-05)]_274 9822 1.31e-08 205_[+1(3.90e-06)]_89_\ [+3(1.33e-08)]_140_[+2(7.36e-06)]_3 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************