******************************************************************************** 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/84/84.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10433 1.0000 500 11091 1.0000 500 16384 1.0000 500 21003 1.0000 500 21040 1.0000 500 2130 1.0000 500 21856 1.0000 500 23387 1.0000 500 23967 1.0000 500 24025 1.0000 500 24599 1.0000 500 25163 1.0000 500 25235 1.0000 500 260749 1.0000 500 262767 1.0000 500 268582 1.0000 500 4756 1.0000 500 5896 1.0000 500 5926 1.0000 500 6375 1.0000 500 7293 1.0000 500 7798 1.0000 500 8084 1.0000 500 908 1.0000 500 9950 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/84/84.seqs.fa -oc motifs/84 -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= 25 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= 12500 N= 25 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.251 C 0.246 G 0.242 T 0.260 Background letter frequencies (from dataset with add-one prior applied): A 0.251 C 0.246 G 0.242 T 0.260 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 20 sites = 17 llr = 232 E-value = 3.5e-012 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 21871581295::681455: pos.-specific C 78:291:8811982:96216 probability G 1:11:211::2:21:::3:2 matrix T :11::11:::11:12::142 bits 2.0 1.8 1.6 1.4 * * ** * Relative 1.2 * * **** ** ** Entropy 1.0 ** * **** ** *** (19.7 bits) 0.8 ***** **** ** *** * 0.6 ***** **** ** *** ** 0.4 ***** **** ****** ** 0.2 ******************** 0.0 -------------------- Multilevel CCAACAACCAACCAACCAAC consensus C G A G T AGTT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------- 23387 442 5.60e-12 CCGCAATTTG CCAACAACCAGCCAACCAAC GTCGTTCATC 21003 205 1.04e-08 GCAACACATT CCAACGACCAGCCCACAGAG CCTTACGGCC 262767 283 1.30e-08 TGCCTAGCTA CCACCAAGCAACGAACAAAC TAGCCGTTGT 7293 330 1.83e-08 CTGCGGTACA CCTACAACCAACCATCCCAG CCCGCCACTC 24025 431 2.54e-08 TGGCCGTGAC CTACCAACCAACCGACAGAC GTAAAACACA 21856 243 4.30e-08 ATGTTCGCCG CCAACAACCAACGGAACCAC TCGTCCAGAC 4756 476 4.77e-08 CAAACTCGCA AAAACAACCAACCAAAAATC TAAGC 9950 419 7.11e-08 TACACCCACC CCACACACCAACCAACCCAT TCTTCATCTT 16384 279 2.17e-07 TTAGTCCTAT ACAACTACAAACGATCCGTC TACCTCGAAA 24599 449 2.58e-07 TGTGCATGTA CTAACGACAACTCAACCATC AACATAAACT 260749 180 6.37e-07 GGTGACTTGT ACAACATCCATCCCACAATT CGCACGCTCA 23967 171 7.44e-07 CTCCGCCACT CCAACTGCCATCCAACAACT CTCCGAGGAC 8084 372 9.34e-07 TAACCATCTT CAAACGAACACCCCTCCAAC AAAAAAAACG 11091 446 1.66e-06 AATCTGCGAA CCTGCAGGCAGCCAACCGTC ATTTCCGTTT 21040 473 1.78e-06 GACCCCATCG GCAACCACCCGCCTACCTAC ACTACACC 268582 235 2.19e-06 GATGGATTTG CCGACAACAAATCTTCCATG GGTGGCAATG 10433 192 2.67e-06 TAGAAACACG GCACAGACACACCAACCGTT GCTTGGCAGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 23387 5.6e-12 441_[+1]_39 21003 1e-08 204_[+1]_276 262767 1.3e-08 282_[+1]_198 7293 1.8e-08 329_[+1]_151 24025 2.5e-08 430_[+1]_50 21856 4.3e-08 242_[+1]_238 4756 4.8e-08 475_[+1]_5 9950 7.1e-08 418_[+1]_62 16384 2.2e-07 278_[+1]_202 24599 2.6e-07 448_[+1]_32 260749 6.4e-07 179_[+1]_301 23967 7.4e-07 170_[+1]_310 8084 9.3e-07 371_[+1]_109 11091 1.7e-06 445_[+1]_35 21040 1.8e-06 472_[+1]_8 268582 2.2e-06 234_[+1]_246 10433 2.7e-06 191_[+1]_289 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=20 seqs=17 23387 ( 442) CCAACAACCAGCCAACCAAC 1 21003 ( 205) CCAACGACCAGCCCACAGAG 1 262767 ( 283) CCACCAAGCAACGAACAAAC 1 7293 ( 330) CCTACAACCAACCATCCCAG 1 24025 ( 431) CTACCAACCAACCGACAGAC 1 21856 ( 243) CCAACAACCAACGGAACCAC 1 4756 ( 476) AAAACAACCAACCAAAAATC 1 9950 ( 419) CCACACACCAACCAACCCAT 1 16384 ( 279) ACAACTACAAACGATCCGTC 1 24599 ( 449) CTAACGACAACTCAACCATC 1 260749 ( 180) ACAACATCCATCCCACAATT 1 23967 ( 171) CCAACTGCCATCCAACAACT 1 8084 ( 372) CAAACGAACACCCCTCCAAC 1 11091 ( 446) CCTGCAGGCAGCCAACCGTC 1 21040 ( 473) GCAACCACCCGCCTACCTAC 1 268582 ( 235) CCGACAACAAATCTTCCATG 1 10433 ( 192) GCACAGACACACCAACCGTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 20 n= 12025 bayes= 10.2598 E= 3.5e-012 -51 152 -104 -1073 -109 163 -1073 -115 171 -1073 -204 -115 149 -7 -204 -1073 -109 184 -1073 -1073 107 -106 -4 -115 171 -1073 -104 -214 -209 174 -104 -1073 -10 163 -1073 -1073 181 -106 -1073 -1073 107 -106 -4 -115 -1073 184 -1073 -115 -1073 174 -46 -1073 123 -48 -104 -115 160 -1073 -1073 -15 -109 184 -1073 -1073 49 139 -1073 -1073 90 -48 28 -214 107 -206 -1073 66 -1073 126 -46 -15 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 20 nsites= 17 E= 3.5e-012 0.176471 0.705882 0.117647 0.000000 0.117647 0.764706 0.000000 0.117647 0.823529 0.000000 0.058824 0.117647 0.705882 0.235294 0.058824 0.000000 0.117647 0.882353 0.000000 0.000000 0.529412 0.117647 0.235294 0.117647 0.823529 0.000000 0.117647 0.058824 0.058824 0.823529 0.117647 0.000000 0.235294 0.764706 0.000000 0.000000 0.882353 0.117647 0.000000 0.000000 0.529412 0.117647 0.235294 0.117647 0.000000 0.882353 0.000000 0.117647 0.000000 0.823529 0.176471 0.000000 0.588235 0.176471 0.117647 0.117647 0.764706 0.000000 0.000000 0.235294 0.117647 0.882353 0.000000 0.000000 0.352941 0.647059 0.000000 0.000000 0.470588 0.176471 0.294118 0.058824 0.529412 0.058824 0.000000 0.411765 0.000000 0.588235 0.176471 0.235294 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- CCA[AC]C[AG]AC[CA]A[AG]CCA[AT]C[CA][AG][AT][CT] -------------------------------------------------------------------------------- Time 5.50 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 15 sites = 25 llr = 243 E-value = 2.5e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 1252:11:2::22:4 pos.-specific C 282:7::9118::7: probability G ::3::7::61162:4 matrix T 7::83281:811632 bits 2.0 1.8 1.6 * 1.4 * * Relative 1.2 * * ** * Entropy 1.0 * ** ** ** * (14.0 bits) 0.8 ** ** ** ** * 0.6 ** *********** 0.4 ************** 0.2 *************** 0.0 --------------- Multilevel TCATCGTCGTCGTCG consensus G TT A AATA sequence G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 262767 424 9.21e-10 CTCCTCCTCC TCATCGTCGTCGTCG GTACACCCAT 25235 352 2.77e-09 CGTTTCTACC TCGTCGTCGTCGTCG TCCATCTCTC 24025 127 9.16e-08 GCGAACATCA TCATCGTCATCATCA GCGGTGACAG 4756 171 1.67e-07 AGGTGCACCA TCATCGTTGTCGTCG CTGTCTGCAA 11091 152 3.94e-07 GTTCGAAAGC TCATCTTCGTCGGCT GATCTGATAC 9950 134 1.38e-06 ACATTCTCAT CCGTCGTCGTCATTG CTCCGAATAA 6375 358 1.38e-06 GCATGGCCGT CCATTGTCGTCGATG TTTTCAAGGG 8084 279 1.74e-06 GCATCTTCTC ACATCGTCGTCGTCC AACGCCAGCG 5926 249 3.37e-06 GTTGTTGTTG TCGTCGCCATCGTCA GCCGGCGGCG 23967 203 1.10e-05 CCGAGGACTC TCCTCGACGCCGACG TCGTGACAGC 23387 319 1.10e-05 CATAGGTTTA CAATTGTCATCGTTG TGACAGGGAG 2130 287 1.21e-05 TTGTGCAAGG TCGTCGTCGTGCTCA TGTGATTGCG 908 421 1.73e-05 TTGGTGCACA TCAATCTCGTCGGCG GCAATCGGCA 10433 386 1.73e-05 CAACTTGTGC TCATCATCATCTTTA TACATCATCT 25163 17 2.23e-05 TTTGCACTAG TAGTTGTTGTCGACA TGATTGTTGT 21003 2 2.43e-05 T TCGATGTCGCCATCT TCGGGGAGGA 24599 291 3.37e-05 ATCTTGGCTT ACATCATCATCGGTA CACTGTGAAT 16384 43 3.37e-05 ATTGGTGAAC TCTTCTTCGTCTACA ACCTTCTCTC 21856 392 3.94e-05 AATCTTATTT CAATCGTCGGCGGCT CTCTGGTGAT 7798 56 4.97e-05 CGTTGTACAC TCATCGACGGTGACG GTGACGGAGG 7293 226 8.27e-05 AAGTCGCATC TCCACTTCCCCGTCA ATGAAGGAAC 21040 428 8.27e-05 TGCTTTTTTA TCATTTTCTTTGTCT TTGAATTTGG 5896 437 9.51e-05 TGCAGATACA ACCTCTTCATCAGTA GATTATCCTC 260749 147 1.61e-04 TTCCAAGATT TAGTTGACCTCATTG AAAACAACGG 268582 296 2.06e-04 GCCACAACGT TCCATGTCGTGAATT GACTGCTCAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 262767 9.2e-10 423_[+2]_62 25235 2.8e-09 351_[+2]_134 24025 9.2e-08 126_[+2]_359 4756 1.7e-07 170_[+2]_315 11091 3.9e-07 151_[+2]_334 9950 1.4e-06 133_[+2]_352 6375 1.4e-06 357_[+2]_128 8084 1.7e-06 278_[+2]_207 5926 3.4e-06 248_[+2]_237 23967 1.1e-05 202_[+2]_283 23387 1.1e-05 318_[+2]_167 2130 1.2e-05 286_[+2]_199 908 1.7e-05 420_[+2]_65 10433 1.7e-05 385_[+2]_100 25163 2.2e-05 16_[+2]_469 21003 2.4e-05 1_[+2]_484 24599 3.4e-05 290_[+2]_195 16384 3.4e-05 42_[+2]_443 21856 3.9e-05 391_[+2]_94 7798 5e-05 55_[+2]_430 7293 8.3e-05 225_[+2]_260 21040 8.3e-05 427_[+2]_58 5896 9.5e-05 436_[+2]_49 260749 0.00016 146_[+2]_339 268582 0.00021 295_[+2]_190 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=15 seqs=25 262767 ( 424) TCATCGTCGTCGTCG 1 25235 ( 352) TCGTCGTCGTCGTCG 1 24025 ( 127) TCATCGTCATCATCA 1 4756 ( 171) TCATCGTTGTCGTCG 1 11091 ( 152) TCATCTTCGTCGGCT 1 9950 ( 134) CCGTCGTCGTCATTG 1 6375 ( 358) CCATTGTCGTCGATG 1 8084 ( 279) ACATCGTCGTCGTCC 1 5926 ( 249) TCGTCGCCATCGTCA 1 23967 ( 203) TCCTCGACGCCGACG 1 23387 ( 319) CAATTGTCATCGTTG 1 2130 ( 287) TCGTCGTCGTGCTCA 1 908 ( 421) TCAATCTCGTCGGCG 1 10433 ( 386) TCATCATCATCTTTA 1 25163 ( 17) TAGTTGTTGTCGACA 1 21003 ( 2) TCGATGTCGCCATCT 1 24599 ( 291) ACATCATCATCGGTA 1 16384 ( 43) TCTTCTTCGTCTACA 1 21856 ( 392) CAATCGTCGGCGGCT 1 7798 ( 56) TCATCGACGGTGACG 1 7293 ( 226) TCCACTTCCCCGTCA 1 21040 ( 428) TCATTTTCTTTGTCT 1 5896 ( 437) ACCTCTTCATCAGTA 1 260749 ( 147) TAGTTGACCTCATTG 1 268582 ( 296) TCCATGTCGTGAATT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 12150 bayes= 9.41275 E= 2.5e-007 -107 -62 -1129 147 -65 177 -1129 -1129 105 -62 21 -270 -65 -1129 -1129 169 -1129 147 -1129 30 -165 -262 149 -38 -107 -262 -1129 169 -1129 190 -1129 -170 -7 -162 140 -270 -1129 -104 -160 162 -1129 177 -160 -170 -7 -262 140 -170 -7 -1129 -28 110 -1129 147 -1129 30 52 -262 72 -38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 25 E= 2.5e-007 0.120000 0.160000 0.000000 0.720000 0.160000 0.840000 0.000000 0.000000 0.520000 0.160000 0.280000 0.040000 0.160000 0.000000 0.000000 0.840000 0.000000 0.680000 0.000000 0.320000 0.080000 0.040000 0.680000 0.200000 0.120000 0.040000 0.000000 0.840000 0.000000 0.920000 0.000000 0.080000 0.240000 0.080000 0.640000 0.040000 0.000000 0.120000 0.080000 0.800000 0.000000 0.840000 0.080000 0.080000 0.240000 0.040000 0.640000 0.080000 0.240000 0.000000 0.200000 0.560000 0.000000 0.680000 0.000000 0.320000 0.360000 0.040000 0.400000 0.200000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- TC[AG]T[CT][GT]TC[GA]TC[GA][TAG][CT][GAT] -------------------------------------------------------------------------------- Time 10.88 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 16 sites = 12 llr = 150 E-value = 1.2e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A 13::92:333:5:::: pos.-specific C 12:::3::1::::2:: probability G 838913a3658278:a matrix T :221:3:3:2233:a: bits 2.0 * * 1.8 * ** 1.6 ** * ** 1.4 *** * * *** Relative 1.2 * *** * * *** Entropy 1.0 * *** * * **** (18.1 bits) 0.8 * *** * * * **** 0.6 * *** * ******** 0.4 * *** ********** 0.2 * *** ********** 0.0 ---------------- Multilevel GAGGAGGAGGGAGGTG consensus G C GAA TT sequence T T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 7798 225 1.01e-09 ACTCTATCGT GGGGAGGTGGGAGGTG TCTGTTTGAT 262767 59 7.62e-08 AGTGGTGAGT GAGGAGGTGTGTGGTG ATGCAGGTTG 6375 209 8.83e-08 GAGTGATTGT GCGGACGAGGGATGTG GGCAACGACG 25163 76 5.98e-07 TGTTGGCAAG GGGTATGTGGGTGGTG ACGAAGACGC 5926 482 7.25e-07 GCGGGGAGTA GAGGAAGGCAGTGGTG GTG 4756 150 7.93e-07 AGATACGCCA CCGGAGGGAGGAGGTG CACCATCATC 8084 96 8.58e-07 GAAGCCAGCC GAGGATGGAGTGGGTG GCATGTTTGC 16384 163 9.30e-07 GTATCCGAAA GGGGGCGGAAGAGGTG ATGCTTGTTG 11091 249 1.51e-06 TGCGAAGTAA ATGGAAGAGAGAGGTG ATATAATGTT 21003 19 2.14e-06 CGCCATCTTC GGGGAGGAAGTATCTG TGTCGATGGG 21040 352 3.40e-06 CACACATGAC GTTGACGTGTGTTGTG GATGTGATGA 23387 195 5.12e-06 ACGTTGAAAG GATGATGAGAGGTCTG ACGACGACGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 7798 1e-09 224_[+3]_260 262767 7.6e-08 58_[+3]_426 6375 8.8e-08 208_[+3]_276 25163 6e-07 75_[+3]_409 5926 7.2e-07 481_[+3]_3 4756 7.9e-07 149_[+3]_335 8084 8.6e-07 95_[+3]_389 16384 9.3e-07 162_[+3]_322 11091 1.5e-06 248_[+3]_236 21003 2.1e-06 18_[+3]_466 21040 3.4e-06 351_[+3]_133 23387 5.1e-06 194_[+3]_290 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=16 seqs=12 7798 ( 225) GGGGAGGTGGGAGGTG 1 262767 ( 59) GAGGAGGTGTGTGGTG 1 6375 ( 209) GCGGACGAGGGATGTG 1 25163 ( 76) GGGTATGTGGGTGGTG 1 5926 ( 482) GAGGAAGGCAGTGGTG 1 4756 ( 150) CCGGAGGGAGGAGGTG 1 8084 ( 96) GAGGATGGAGTGGGTG 1 16384 ( 163) GGGGGCGGAAGAGGTG 1 11091 ( 249) ATGGAAGAGAGAGGTG 1 21003 ( 19) GGGGAGGAAGTATCTG 1 21040 ( 352) GTTGACGTGTGTTGTG 1 23387 ( 195) GATGATGAGAGGTCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 12125 bayes= 11.0796 E= 1.2e-001 -159 -156 178 -1023 41 -56 46 -64 -1023 -1023 178 -64 -1023 -1023 192 -164 187 -1023 -154 -1023 -59 2 46 -6 -1023 -1023 205 -1023 41 -1023 46 36 41 -156 127 -1023 41 -1023 105 -64 -1023 -1023 178 -64 99 -1023 -54 36 -1023 -1023 146 36 -1023 -56 178 -1023 -1023 -1023 -1023 194 -1023 -1023 205 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 12 E= 1.2e-001 0.083333 0.083333 0.833333 0.000000 0.333333 0.166667 0.333333 0.166667 0.000000 0.000000 0.833333 0.166667 0.000000 0.000000 0.916667 0.083333 0.916667 0.000000 0.083333 0.000000 0.166667 0.250000 0.333333 0.250000 0.000000 0.000000 1.000000 0.000000 0.333333 0.000000 0.333333 0.333333 0.333333 0.083333 0.583333 0.000000 0.333333 0.000000 0.500000 0.166667 0.000000 0.000000 0.833333 0.166667 0.500000 0.000000 0.166667 0.333333 0.000000 0.000000 0.666667 0.333333 0.000000 0.166667 0.833333 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- G[AG]GGA[GCT]G[AGT][GA][GA]G[AT][GT]GTG -------------------------------------------------------------------------------- Time 15.98 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10433 8.13e-04 191_[+1(2.67e-06)]_174_\ [+2(1.73e-05)]_100 11091 3.21e-08 151_[+2(3.94e-07)]_82_\ [+3(1.51e-06)]_181_[+1(1.66e-06)]_35 16384 1.85e-07 42_[+2(3.37e-05)]_105_\ [+3(9.30e-07)]_100_[+1(2.17e-07)]_202 21003 1.83e-08 1_[+2(2.43e-05)]_2_[+3(2.14e-06)]_\ 170_[+1(1.04e-08)]_276 21040 8.76e-06 351_[+3(3.40e-06)]_60_\ [+2(8.27e-05)]_30_[+1(1.78e-06)]_8 2130 2.90e-03 286_[+2(1.21e-05)]_199 21856 3.05e-05 242_[+1(4.30e-08)]_129_\ [+2(3.94e-05)]_62_[+1(2.74e-05)]_12 23387 1.82e-11 194_[+3(5.12e-06)]_108_\ [+2(1.10e-05)]_108_[+1(5.60e-12)]_39 23967 4.10e-05 170_[+1(7.44e-07)]_12_\ [+2(1.10e-05)]_283 24025 2.54e-08 126_[+2(9.16e-08)]_289_\ [+1(2.54e-08)]_50 24599 1.81e-04 290_[+2(3.37e-05)]_143_\ [+1(2.58e-07)]_32 25163 1.11e-04 16_[+2(2.23e-05)]_44_[+3(5.98e-07)]_\ 409 25235 1.90e-05 351_[+2(2.77e-09)]_134 260749 7.99e-04 111_[+1(8.25e-05)]_48_\ [+1(6.37e-07)]_301 262767 7.43e-14 58_[+3(7.62e-08)]_208_\ [+1(1.30e-08)]_3_[+2(3.64e-05)]_103_[+2(9.21e-10)]_62 268582 1.18e-04 234_[+1(2.19e-06)]_177_\ [+3(2.24e-05)]_53 4756 3.01e-10 149_[+3(7.93e-07)]_5_[+2(1.67e-07)]_\ 101_[+3(5.55e-05)]_173_[+1(4.77e-08)]_5 5896 1.49e-01 436_[+2(9.51e-05)]_49 5926 5.54e-05 248_[+2(3.37e-06)]_218_\ [+3(7.25e-07)]_3 6375 4.02e-06 151_[+3(2.90e-05)]_41_\ [+3(8.83e-08)]_133_[+2(1.38e-06)]_128 7293 4.01e-05 225_[+2(8.27e-05)]_89_\ [+1(1.83e-08)]_151 7798 1.09e-06 55_[+2(4.97e-05)]_154_\ [+3(1.01e-09)]_260 8084 4.39e-08 95_[+3(8.58e-07)]_167_\ [+2(1.74e-06)]_78_[+1(9.34e-07)]_109 908 4.89e-02 420_[+2(1.73e-05)]_65 9950 2.38e-06 133_[+2(1.38e-06)]_270_\ [+1(7.11e-08)]_62 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************