******************************************************************************** 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/334/334.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10817 1.0000 500 10833 1.0000 500 11624 1.0000 500 1643 1.0000 500 1676 1.0000 500 1768 1.0000 500 1798 1.0000 500 19649 1.0000 500 21576 1.0000 500 22052 1.0000 500 22355 1.0000 500 22490 1.0000 500 24437 1.0000 500 24762 1.0000 500 24942 1.0000 500 25064 1.0000 500 25669 1.0000 500 270005 1.0000 500 30990 1.0000 500 3781 1.0000 500 38351 1.0000 500 3998 1.0000 500 4971 1.0000 500 6589 1.0000 500 7370 1.0000 500 7372 1.0000 500 7374 1.0000 500 7828 1.0000 500 8033 1.0000 500 8810 1.0000 500 9127 1.0000 500 9963 1.0000 500 bd648 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/334/334.seqs.fa -oc motifs/334 -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= 33 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= 16500 N= 33 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.258 C 0.231 G 0.241 T 0.270 Background letter frequencies (from dataset with add-one prior applied): A 0.258 C 0.231 G 0.241 T 0.270 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 12 sites = 24 llr = 221 E-value = 5.1e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A ::9:::23:321 pos.-specific C ::::::2::::: probability G :a:1a8419377 matrix T a::9:3261421 bits 2.1 * 1.9 * * 1.7 ** * * 1.5 *** * * Relative 1.3 ****** * Entropy 1.1 ****** * (13.3 bits) 0.8 ****** * * 0.6 ****** * ** 0.4 ****** ** ** 0.2 ****** ***** 0.0 ------------ Multilevel TGATGGGTGTGG consensus TAA A sequence C G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 3998 339 1.27e-07 TGGTTGAGGG TGATGGGTGAGG GACTTAAAAA 8810 164 1.21e-06 GGAAAGTCCG TGATGGAAGTGG AAATCAATCT 270005 78 1.72e-06 AGGTCTGCCA TGATGGCAGGGG TTGTGGGTAT 19649 78 2.54e-06 GTGATGGAGC TGATGGGTGATG GATGTGTTAC 1768 157 3.61e-06 CTGGAGATTT TGATGGGAGTAG TAGATTCGGT 9127 348 6.26e-06 AGAAGGCGGG TGATGGTGGTGG GTGTCGTCAT 3781 177 6.26e-06 AGGGATCGAA TGATGGTTGGAG GCTGCAAATG 25669 29 7.22e-06 ACGGTGGAGA TGATGGCTGCGG CCATGGCCGT 22490 75 7.22e-06 GATGGAGGGG TGATGTCAGAGG TGAGTGGAAC 10817 67 8.78e-06 CACGATGCGA TGATGGGCGAGG ACTGCATTGT 9963 304 1.65e-05 GTCGTCGGCA TGATGTATGTTG ATGTTACACA 30990 161 1.65e-05 TATTGGTGAC TGATGGGAGTGC TCGAGCGTCT 4971 62 1.92e-05 ATTGACATCG TGATGTATGTGA CAGCAGGAAG 6589 233 2.15e-05 TGAGGATCTA TGAGGGGTGTAG TTACAATTGA 24437 176 2.15e-05 CAGCTGTTGG TGATGGGTGGAT ATCAACGGAC 1643 142 2.32e-05 TTTGTTGAGT TGAGGGAAGAGG GAGGGAAGGG 24942 102 3.10e-05 TTTTCTGTTT TGTTGGCTGGGG TTGATGATGT 7372 285 7.17e-05 GACGGACGTG TGATATTTGTGG CAAACATTCG 21576 137 7.17e-05 GCGCTCTGCT TGACGGGTGGGT TACGAGAGGA 25064 200 7.66e-05 TTCAATGCCC TGGTGGTTGTTG TCAGCCAGCG 7370 107 9.55e-05 GATGGTTTCT AGATGGATGTGA ACTCGGTTAA 8033 246 1.03e-04 ACTCTTGTCT TGATGTGTTATG ATAGTGTTTG 38351 122 1.18e-04 GATCGTTCAC TGATGTTGGAGA TGTGCAAAAC 1798 147 1.36e-04 CGTCGCTGTC TGATGGCATGGT ATTGTATCGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 3998 1.3e-07 338_[+1]_150 8810 1.2e-06 163_[+1]_325 270005 1.7e-06 77_[+1]_411 19649 2.5e-06 77_[+1]_411 1768 3.6e-06 156_[+1]_332 9127 6.3e-06 347_[+1]_141 3781 6.3e-06 176_[+1]_312 25669 7.2e-06 28_[+1]_460 22490 7.2e-06 74_[+1]_414 10817 8.8e-06 66_[+1]_422 9963 1.7e-05 303_[+1]_185 30990 1.7e-05 160_[+1]_328 4971 1.9e-05 61_[+1]_427 6589 2.2e-05 232_[+1]_256 24437 2.2e-05 175_[+1]_313 1643 2.3e-05 141_[+1]_347 24942 3.1e-05 101_[+1]_387 7372 7.2e-05 284_[+1]_204 21576 7.2e-05 136_[+1]_352 25064 7.7e-05 199_[+1]_289 7370 9.6e-05 106_[+1]_382 8033 0.0001 245_[+1]_243 38351 0.00012 121_[+1]_367 1798 0.00014 146_[+1]_342 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=12 seqs=24 3998 ( 339) TGATGGGTGAGG 1 8810 ( 164) TGATGGAAGTGG 1 270005 ( 78) TGATGGCAGGGG 1 19649 ( 78) TGATGGGTGATG 1 1768 ( 157) TGATGGGAGTAG 1 9127 ( 348) TGATGGTGGTGG 1 3781 ( 177) TGATGGTTGGAG 1 25669 ( 29) TGATGGCTGCGG 1 22490 ( 75) TGATGTCAGAGG 1 10817 ( 67) TGATGGGCGAGG 1 9963 ( 304) TGATGTATGTTG 1 30990 ( 161) TGATGGGAGTGC 1 4971 ( 62) TGATGTATGTGA 1 6589 ( 233) TGAGGGGTGTAG 1 24437 ( 176) TGATGGGTGGAT 1 1643 ( 142) TGAGGGAAGAGG 1 24942 ( 102) TGTTGGCTGGGG 1 7372 ( 285) TGATATTTGTGG 1 21576 ( 137) TGACGGGTGGGT 1 25064 ( 200) TGGTGGTTGTTG 1 7370 ( 107) AGATGGATGTGA 1 8033 ( 246) TGATGTGTTATG 1 38351 ( 122) TGATGTTGGAGA 1 1798 ( 147) TGATGGCATGGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 16137 bayes= 9.83901 E= 5.1e-001 -263 -1123 -1123 183 -1123 -1123 205 -1123 183 -1123 -253 -269 -1123 -247 -153 170 -263 -1123 199 -1123 -1123 -1123 164 -11 -31 -15 64 -37 17 -247 -153 111 -1123 -1123 193 -169 17 -247 5 63 -63 -1123 147 -70 -105 -247 156 -111 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 24 E= 5.1e-001 0.041667 0.000000 0.000000 0.958333 0.000000 0.000000 1.000000 0.000000 0.916667 0.000000 0.041667 0.041667 0.000000 0.041667 0.083333 0.875000 0.041667 0.000000 0.958333 0.000000 0.000000 0.000000 0.750000 0.250000 0.208333 0.208333 0.375000 0.208333 0.291667 0.041667 0.083333 0.583333 0.000000 0.000000 0.916667 0.083333 0.291667 0.041667 0.250000 0.416667 0.166667 0.000000 0.666667 0.166667 0.125000 0.041667 0.708333 0.125000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- TGATG[GT][GACT][TA]G[TAG]GG -------------------------------------------------------------------------------- Time 9.97 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 22 llr = 259 E-value = 4.7e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 3:418395:862474452551 pos.-specific C 44:8:71:a1:81251:6315 probability G ::1::::5::2:1:124:13: matrix T 36511::::12:3::3221:4 bits 2.1 * 1.9 * 1.7 * 1.5 * * * Relative 1.3 ** * * Entropy 1.1 * * ** ** * * (17.0 bits) 0.8 * ******* * * 0.6 *********** ** * * 0.4 ************ ** ** ** 0.2 ********************* 0.0 --------------------- Multilevel CTTCACAACAACAACAACAAC consensus ACA A G G TCATGTCGT sequence T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 11624 439 1.75e-10 CATCCCACTC TTTCACAACAACTACTGCAAC CCTAGCTCTC 10833 295 5.26e-09 AAAACACACA CTACACAGCTACAACAACAAT GAACACTATC 7372 210 1.04e-08 GGGTAACTGC TCTCACAGCAGCAAAGACAAT ATCATCCATG 24762 266 1.04e-07 GTTGTCTTCA CTACACAACATCTAGAGCCGC TGCGTAAAAG 22355 479 2.18e-07 CCATTAGCAT ATTTACAACAACAACGGAAGC T 9127 462 2.45e-07 GAACGCAGTT ACTCAAAACAACAAATACACA GCACGGTCAA 7828 366 3.08e-07 GTTGTCTTGA CTACACAACATCTAGAGCTGC TGCGTAAAAG 9963 319 5.33e-07 TATGTTGATG TTACACATCAACCACATCCAT CAACCATCAT 30990 467 1.91e-06 ATGACGACTC CTTCACAACAAAGCAAGCATT GACAACATAT 1676 429 2.09e-06 CCCAAGACGC ACAATCAGCAGCAACGTCAAT AGCAACTCTC 270005 244 2.28e-06 AAGAACGATA TCTCACCGCAAAAACAATCGT ATCACAGATC 1768 51 2.28e-06 GATAATGTCT CCTCAAAGCATCTGAATCCAC TGCCCTCTCC 8033 476 2.96e-06 TCTTCCTCAA ATTCACAGCCAAACCCATCAC TATA 7370 446 2.96e-06 CGTCCGTCGT CTGCCCAGCAACACAAAACAC TACCCGTCTC 8810 368 3.50e-06 GCCACTAGCT TCTCAAAACCGCACAGAAAAC ATCAGCTCAA 1643 416 3.50e-06 TACTTTCACA ACAAACAGCAACTAACGAGAC AAGTGAAGAA 7374 279 4.48e-06 GCTAACCACT CTACGAAGCATCCACTGCACC CTTTTTTGAG 1798 388 4.85e-06 ACACCGCTTT ATGCTCAACAACGACAACGCT GAGTCCAACG 22052 411 7.69e-06 AGAGAACTCC TCACAACACAACGCAGACAAA CGCAGCTACT 24942 472 9.56e-06 TTTCCCATTG CTTTACAGCAGACACTTTAGC TTTTCAAC 25669 343 1.10e-05 GGCCCATAAC CCAAAAAACTACTACTATTAT ATGATTTATG bd648 380 1.87e-05 ACAACACAAT ATTCTCAACCGCTACTGTTGA TACTGGTGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 11624 1.8e-10 438_[+2]_41 10833 5.3e-09 294_[+2]_185 7372 1e-08 209_[+2]_270 24762 1e-07 265_[+2]_214 22355 2.2e-07 478_[+2]_1 9127 2.4e-07 461_[+2]_18 7828 3.1e-07 365_[+2]_114 9963 5.3e-07 318_[+2]_161 30990 1.9e-06 466_[+2]_13 1676 2.1e-06 428_[+2]_51 270005 2.3e-06 243_[+2]_236 1768 2.3e-06 50_[+2]_429 8033 3e-06 475_[+2]_4 7370 3e-06 445_[+2]_34 8810 3.5e-06 367_[+2]_112 1643 3.5e-06 415_[+2]_64 7374 4.5e-06 278_[+2]_201 1798 4.9e-06 387_[+2]_92 22052 7.7e-06 410_[+2]_69 24942 9.6e-06 471_[+2]_8 25669 1.1e-05 342_[+2]_137 bd648 1.9e-05 379_[+2]_100 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=22 11624 ( 439) TTTCACAACAACTACTGCAAC 1 10833 ( 295) CTACACAGCTACAACAACAAT 1 7372 ( 210) TCTCACAGCAGCAAAGACAAT 1 24762 ( 266) CTACACAACATCTAGAGCCGC 1 22355 ( 479) ATTTACAACAACAACGGAAGC 1 9127 ( 462) ACTCAAAACAACAAATACACA 1 7828 ( 366) CTACACAACATCTAGAGCTGC 1 9963 ( 319) TTACACATCAACCACATCCAT 1 30990 ( 467) CTTCACAACAAAGCAAGCATT 1 1676 ( 429) ACAATCAGCAGCAACGTCAAT 1 270005 ( 244) TCTCACCGCAAAAACAATCGT 1 1768 ( 51) CCTCAAAGCATCTGAATCCAC 1 8033 ( 476) ATTCACAGCCAAACCCATCAC 1 7370 ( 446) CTGCCCAGCAACACAAAACAC 1 8810 ( 368) TCTCAAAACCGCACAGAAAAC 1 1643 ( 416) ACAAACAGCAACTAACGAGAC 1 7374 ( 279) CTACGAAGCATCCACTGCACC 1 1798 ( 388) ATGCTCAACAACGACAACGCT 1 22052 ( 411) TCACAACACAACGCAGACAAA 1 24942 ( 472) CTTTACAGCAGACACTTTAGC 1 25669 ( 343) CCAAAAAACTACTACTATTAT 1 bd648 ( 380) ATTCTCAACCGCTACTGTTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 15840 bayes= 9.84538 E= 4.7e-004 30 82 -1110 1 -1110 82 -1110 113 66 -1110 -140 89 -92 174 -1110 -157 158 -234 -240 -98 8 165 -1110 -1110 181 -134 -1110 -1110 95 -1110 92 -257 -1110 211 -1110 -1110 158 -76 -1110 -157 119 -1110 -8 -57 -51 182 -1110 -1110 66 -76 -82 24 149 -2 -240 -1110 49 124 -140 -1110 66 -134 -8 1 81 -1110 60 -57 -51 135 -1110 -25 95 24 -140 -98 108 -76 18 -257 -92 111 -1110 43 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 22 E= 4.7e-004 0.318182 0.409091 0.000000 0.272727 0.000000 0.409091 0.000000 0.590909 0.409091 0.000000 0.090909 0.500000 0.136364 0.772727 0.000000 0.090909 0.772727 0.045455 0.045455 0.136364 0.272727 0.727273 0.000000 0.000000 0.909091 0.090909 0.000000 0.000000 0.500000 0.000000 0.454545 0.045455 0.000000 1.000000 0.000000 0.000000 0.772727 0.136364 0.000000 0.090909 0.590909 0.000000 0.227273 0.181818 0.181818 0.818182 0.000000 0.000000 0.409091 0.136364 0.136364 0.318182 0.727273 0.227273 0.045455 0.000000 0.363636 0.545455 0.090909 0.000000 0.409091 0.090909 0.227273 0.272727 0.454545 0.000000 0.363636 0.181818 0.181818 0.590909 0.000000 0.227273 0.500000 0.272727 0.090909 0.136364 0.545455 0.136364 0.272727 0.045455 0.136364 0.500000 0.000000 0.363636 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [CAT][TC][TA]CA[CA]A[AG]CA[AG]C[AT][AC][CA][ATG][AG][CT][AC][AG][CT] -------------------------------------------------------------------------------- Time 19.62 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 8 llr = 138 E-value = 2.5e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::a:6393::1a9::a853:8 pos.-specific C 19:a33:155:::58:3:383 probability G :1::14131:9::53::513: matrix T 9::::1:445::1:::::4:: bits 2.1 * 1.9 ** * * 1.7 ** * * 1.5 *** * *** * Relative 1.3 **** * *** *** ** Entropy 1.1 **** * ********* ** (24.8 bits) 0.8 **** * ********* ** 0.6 ***** * ********** ** 0.4 ***** * ********** ** 0.2 ******* ********** ** 0.0 --------------------- Multilevel TCACAGATCCGAACCAAATCA consensus CA ATT GG CGAGC sequence C G C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 8033 342 2.07e-12 ACAGTAAATG TCACAGATCCGAAGCAAGCCA CAAAGGAAAT 7828 194 1.00e-09 GAGAAAGTAT TCACCCAACTGAACCAAGTCC ATCGGATCGA 25064 480 1.45e-09 GAACTTTTCG TCACAGATGTGAACCAAATGA 24762 105 3.06e-09 GAGAAAGTAT TCACCTAACTGAACCAAGTCC ATCGGATCGA 270005 282 9.79e-09 ATCACTAATA TCACAAACTTGAACGACAACA CCACCCCTCA 21576 457 1.44e-08 TGTGCAGCGT TCACAGGGTCGAAGGAAGGCA CGGACTGAGC 24437 229 6.42e-08 TCGCCAGTGA TGACACATCCGATGCACAAGA CGATGATAGC 22355 418 6.42e-08 CAACGAACTC CCACGAAGTCAAAGCAAACCA CCGTAACTCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 8033 2.1e-12 341_[+3]_138 7828 1e-09 193_[+3]_286 25064 1.5e-09 479_[+3] 24762 3.1e-09 104_[+3]_375 270005 9.8e-09 281_[+3]_198 21576 1.4e-08 456_[+3]_23 24437 6.4e-08 228_[+3]_251 22355 6.4e-08 417_[+3]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=8 8033 ( 342) TCACAGATCCGAAGCAAGCCA 1 7828 ( 194) TCACCCAACTGAACCAAGTCC 1 25064 ( 480) TCACAGATGTGAACCAAATGA 1 24762 ( 105) TCACCTAACTGAACCAAGTCC 1 270005 ( 282) TCACAAACTTGAACGACAACA 1 21576 ( 457) TCACAGGGTCGAAGGAAGGCA 1 24437 ( 229) TGACACATCCGATGCACAAGA 1 22355 ( 418) CCACGAAGTCAAAGCAAACCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 15840 bayes= 10.9506 E= 2.5e-001 -965 -88 -965 170 -965 192 -94 -965 195 -965 -965 -965 -965 211 -965 -965 127 11 -94 -965 -5 11 64 -111 176 -965 -94 -965 -5 -88 5 47 -965 111 -94 47 -965 111 -965 89 -105 -965 186 -965 195 -965 -965 -965 176 -965 -965 -111 -965 111 105 -965 -965 170 5 -965 195 -965 -965 -965 154 11 -965 -965 95 -965 105 -965 -5 11 -94 47 -965 170 5 -965 154 11 -965 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 8 E= 2.5e-001 0.000000 0.125000 0.000000 0.875000 0.000000 0.875000 0.125000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.625000 0.250000 0.125000 0.000000 0.250000 0.250000 0.375000 0.125000 0.875000 0.000000 0.125000 0.000000 0.250000 0.125000 0.250000 0.375000 0.000000 0.500000 0.125000 0.375000 0.000000 0.500000 0.000000 0.500000 0.125000 0.000000 0.875000 0.000000 1.000000 0.000000 0.000000 0.000000 0.875000 0.000000 0.000000 0.125000 0.000000 0.500000 0.500000 0.000000 0.000000 0.750000 0.250000 0.000000 1.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.250000 0.250000 0.125000 0.375000 0.000000 0.750000 0.250000 0.000000 0.750000 0.250000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- TCAC[AC][GAC]A[TAG][CT][CT]GAA[CG][CG]A[AC][AG][TAC][CG][AC] -------------------------------------------------------------------------------- Time 28.95 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10817 1.91e-02 66_[+1(8.78e-06)]_422 10833 7.18e-05 294_[+2(5.26e-09)]_185 11624 2.81e-06 438_[+2(1.75e-10)]_41 1643 6.03e-04 141_[+1(2.32e-05)]_262_\ [+2(3.50e-06)]_64 1676 7.04e-03 428_[+2(2.09e-06)]_51 1768 1.53e-04 50_[+2(2.28e-06)]_85_[+1(3.61e-06)]_\ 332 1798 6.45e-03 387_[+2(4.85e-06)]_92 19649 6.22e-03 77_[+1(2.54e-06)]_411 21576 3.90e-06 136_[+1(7.17e-05)]_308_\ [+3(1.44e-08)]_23 22052 1.66e-02 410_[+2(7.69e-06)]_28_\ [+2(9.86e-05)]_20 22355 2.40e-07 417_[+3(6.42e-08)]_40_\ [+2(2.18e-07)]_1 22490 6.60e-03 74_[+1(7.22e-06)]_414 24437 3.08e-05 175_[+1(2.15e-05)]_41_\ [+3(6.42e-08)]_251 24762 1.32e-08 104_[+3(3.06e-09)]_140_\ [+2(1.04e-07)]_162_[+2(9.45e-05)]_31 24942 3.10e-03 101_[+1(3.10e-05)]_358_\ [+2(9.56e-06)]_8 25064 3.80e-06 199_[+1(7.66e-05)]_268_\ [+3(1.45e-09)] 25669 4.90e-04 28_[+1(7.22e-06)]_9_[+1(5.68e-05)]_\ 108_[+1(7.66e-05)]_161_[+2(1.10e-05)]_137 270005 1.60e-09 77_[+1(1.72e-06)]_154_\ [+2(2.28e-06)]_17_[+3(9.79e-09)]_198 30990 3.59e-04 160_[+1(1.65e-05)]_294_\ [+2(1.91e-06)]_13 3781 2.67e-03 107_[+3(8.44e-05)]_48_\ [+1(6.26e-06)]_312 38351 2.33e-01 500 3998 1.89e-03 338_[+1(1.27e-07)]_150 4971 5.31e-02 61_[+1(1.92e-05)]_427 6589 7.44e-02 232_[+1(2.15e-05)]_256 7370 1.78e-03 106_[+1(9.55e-05)]_327_\ [+2(2.96e-06)]_34 7372 2.15e-06 209_[+2(1.04e-08)]_54_\ [+1(7.17e-05)]_204 7374 1.64e-02 278_[+2(4.48e-06)]_201 7828 1.28e-08 85_[+3(1.12e-05)]_87_[+3(1.00e-09)]_\ 151_[+2(3.08e-07)]_23_[+3(6.09e-05)]_70 8033 3.42e-11 341_[+3(2.07e-12)]_113_\ [+2(2.96e-06)]_4 8810 7.52e-05 163_[+1(1.21e-06)]_192_\ [+2(3.50e-06)]_112 9127 3.22e-05 347_[+1(6.26e-06)]_102_\ [+2(2.45e-07)]_18 9963 1.17e-04 303_[+1(1.65e-05)]_3_[+2(5.33e-07)]_\ 161 bd648 6.64e-02 379_[+2(1.87e-05)]_100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************