******************************************************************************** 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/404/404.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 1218 1.0000 500 20633 1.0000 500 21459 1.0000 500 21712 1.0000 500 22902 1.0000 500 23052 1.0000 500 23379 1.0000 500 25325 1.0000 500 262068 1.0000 500 264145 1.0000 500 269513 1.0000 500 28038 1.0000 500 3260 1.0000 500 3284 1.0000 500 33724 1.0000 500 3456 1.0000 500 3493 1.0000 500 3590 1.0000 500 4100 1.0000 500 5153 1.0000 500 5340 1.0000 500 7174 1.0000 500 8510 1.0000 500 885 1.0000 500 9861 1.0000 500 bd716 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/404/404.seqs.fa -oc motifs/404 -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= 26 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= 13000 N= 26 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.257 C 0.233 G 0.247 T 0.264 Background letter frequencies (from dataset with add-one prior applied): A 0.257 C 0.233 G 0.247 T 0.264 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 15 sites = 16 llr = 180 E-value = 7.0e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :333:13:111:4:: pos.-specific C 9463:9::721a11a probability G :3:1::4::11::3: matrix T 1123a:3a368:56: bits 2.1 * * 1.9 * * * * 1.7 * ** * * * 1.5 * ** * * * Relative 1.3 * ** * * * Entropy 1.1 * ** * * * (16.3 bits) 0.8 * ** ** ** * 0.6 * * ** ** ***** 0.4 * * *********** 0.2 *************** 0.0 --------------- Multilevel CCCATCGTCTTCTTC consensus AAC A T AG sequence G T T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 885 308 3.63e-08 TTACTCTCTA CGCTTCTTCTTCTTC CCATTCATCA 9861 457 5.11e-08 ACCTCCTCTT CCACTCATCTTCTTC AACGAAGATA 28038 140 6.11e-08 TTGAGCGATA CACTTCATCTTCATC TACAGCTCGA 21712 32 2.93e-07 CTGATGGTGT CGCATCGTTTTCATC CGATGATGAT 3590 272 4.22e-07 GTTGATACAA CCTCTCTTCTTCTGC AACATGATGG 3260 103 4.22e-07 TCCCCATTCT CTCTTCGTCTTCTGC TTTGCGGTGA 23379 366 1.86e-06 GCTGTCGATG CAAGTCGTCTTCATC CAAACATTGA 8510 84 3.53e-06 CCGCCGGCAG CCTCTCGTTTCCTTC CATCACATTT bd716 338 3.85e-06 GAGAAATGTA CCAATCATTGTCATC TCTCAGACGT 22902 174 3.85e-06 TTGTCACCCC CGAATCTTCCTCCTC TCACGCAAGA 25325 85 4.21e-06 TCAACCATCC CCCCTCTTCTGCTCC TTAGACTTCC 3493 431 1.04e-05 ACAGCCTGTT CCCTTCGTTGACTTC TAGTTTAGTC 3456 419 1.12e-05 GCACATCAGA CACATCATCCCCACC ACGTCCGCCC 21459 183 1.55e-05 CTGGCGTTGA TGCATCATCATCTTC GCTGTATGCG 33724 445 1.65e-05 GCTGTCTCGT CTCCTCGTATTCCGC AGAGATTACA 5340 393 3.32e-05 GACAGCGTCT CATTTATTCCTCAGC AAGTCAAAGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 885 3.6e-08 307_[+1]_178 9861 5.1e-08 456_[+1]_29 28038 6.1e-08 139_[+1]_346 21712 2.9e-07 31_[+1]_454 3590 4.2e-07 271_[+1]_214 3260 4.2e-07 102_[+1]_383 23379 1.9e-06 365_[+1]_120 8510 3.5e-06 83_[+1]_402 bd716 3.9e-06 337_[+1]_148 22902 3.9e-06 173_[+1]_312 25325 4.2e-06 84_[+1]_401 3493 1e-05 430_[+1]_55 3456 1.1e-05 418_[+1]_67 21459 1.5e-05 182_[+1]_303 33724 1.6e-05 444_[+1]_41 5340 3.3e-05 392_[+1]_93 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=15 seqs=16 885 ( 308) CGCTTCTTCTTCTTC 1 9861 ( 457) CCACTCATCTTCTTC 1 28038 ( 140) CACTTCATCTTCATC 1 21712 ( 32) CGCATCGTTTTCATC 1 3590 ( 272) CCTCTCTTCTTCTGC 1 3260 ( 103) CTCTTCGTCTTCTGC 1 23379 ( 366) CAAGTCGTCTTCATC 1 8510 ( 84) CCTCTCGTTTCCTTC 1 bd716 ( 338) CCAATCATTGTCATC 1 22902 ( 174) CGAATCTTCCTCCTC 1 25325 ( 85) CCCCTCTTCTGCTCC 1 3493 ( 431) CCCTTCGTTGACTTC 1 3456 ( 419) CACATCATCCCCACC 1 21459 ( 183) TGCATCATCATCTTC 1 33724 ( 445) CTCCTCGTATTCCGC 1 5340 ( 393) CATTTATTCCTCAGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 12636 bayes= 10.3611 E= 7.0e-003 -1064 201 -1064 -207 -4 69 2 -108 -4 127 -1064 -49 28 43 -198 25 -1064 -1064 -1064 192 -204 201 -1064 -1064 28 -1064 60 25 -1064 -1064 -1064 192 -204 156 -1064 -8 -204 -31 -98 124 -204 -90 -198 151 -1064 210 -1064 -1064 55 -90 -1064 92 -1064 -90 2 124 -1064 210 -1064 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 16 E= 7.0e-003 0.000000 0.937500 0.000000 0.062500 0.250000 0.375000 0.250000 0.125000 0.250000 0.562500 0.000000 0.187500 0.312500 0.312500 0.062500 0.312500 0.000000 0.000000 0.000000 1.000000 0.062500 0.937500 0.000000 0.000000 0.312500 0.000000 0.375000 0.312500 0.000000 0.000000 0.000000 1.000000 0.062500 0.687500 0.000000 0.250000 0.062500 0.187500 0.125000 0.625000 0.062500 0.125000 0.062500 0.750000 0.000000 1.000000 0.000000 0.000000 0.375000 0.125000 0.000000 0.500000 0.000000 0.125000 0.250000 0.625000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- C[CAG][CA][ACT]TC[GAT]T[CT]TTC[TA][TG]C -------------------------------------------------------------------------------- Time 5.79 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 16 llr = 206 E-value = 2.5e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 24189:a7178:468471672 pos.-specific C 643::4:253363224:3438 probability G :162:6::4::312:134::1 matrix T 211:11:1:1:12::::2:1: bits 2.1 1.9 * 1.7 * * 1.5 * * Relative 1.3 ** * * * Entropy 1.1 ** * * * * * * (18.6 bits) 0.8 ***** *** * * *** 0.6 * ********** **** *** 0.4 * ********** **** *** 0.2 ********************* 0.0 --------------------- Multilevel CAGAAGAACAACAAAAAGAAC consensus CC C GCCGC CGCCC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 20633 410 8.44e-12 CTAGCCCCTT CCGAACAACAACCAACAGAAC AAAACATAAT 4100 417 6.09e-10 TTTTTTTATT CCGAAGAACAACAACCGCAAC GACGTTGGAC 9861 361 2.07e-09 TCCCGAACAA CACAACAACAACAACAACAAC AACAACAACA 3456 297 3.31e-09 AACAAAACCG ACGAAGAAGAAGCAACAGCAC CGGCTACTAC 5153 479 4.47e-09 CTCACGCCAA TAGAAGAACAACACAAATAAC A 264145 137 1.76e-07 GTTCGAGGGA CACGACAACAACACACACCAA GCTCAGCTTT 3493 476 1.06e-06 TGTTCGGCTC CCCGACACCAACAAAGAGACA AACA 21712 460 1.24e-06 GACACAGGAA CGGAACACCAAGTGAGAGACC CAACAGACCC 22902 195 1.34e-06 CCTCTCACGC AAGAAGAAGCCGTAACAGAAG CAAACAGAGA 33724 184 2.97e-06 TTTGGAATCG TCGAAGAAGCCGAAAAGAATC CTCCTCACTT 23052 375 2.97e-06 TGTTGGAAGT CTAATGAAAAACCAAAGGAAC CACGTATGTT 262068 478 3.39e-06 TCAAGCAATT CCGAAGATGCCCGAACAACAA GT 8510 430 4.39e-06 CAGTGCACAA CATGATATCAACCAAAATCAC TTCATTAATA 5340 165 4.39e-06 AGGTACCGCG TTGAAGAAGTACACCAACCCC ACTGCGAAAG 21459 312 5.29e-06 CCCGACGCCG AGGAAGAAGCATTGAAGCCAC AAAGGAGGAG 28038 217 5.62e-06 CAATATATGC CACAACACAACGCGACGTACC AGTTTCCATG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 20633 8.4e-12 409_[+2]_70 4100 6.1e-10 416_[+2]_63 9861 2.1e-09 360_[+2]_119 3456 3.3e-09 296_[+2]_183 5153 4.5e-09 478_[+2]_1 264145 1.8e-07 136_[+2]_343 3493 1.1e-06 475_[+2]_4 21712 1.2e-06 459_[+2]_20 22902 1.3e-06 194_[+2]_285 33724 3e-06 183_[+2]_296 23052 3e-06 374_[+2]_105 262068 3.4e-06 477_[+2]_2 8510 4.4e-06 429_[+2]_50 5340 4.4e-06 164_[+2]_315 21459 5.3e-06 311_[+2]_168 28038 5.6e-06 216_[+2]_263 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=16 20633 ( 410) CCGAACAACAACCAACAGAAC 1 4100 ( 417) CCGAAGAACAACAACCGCAAC 1 9861 ( 361) CACAACAACAACAACAACAAC 1 3456 ( 297) ACGAAGAAGAAGCAACAGCAC 1 5153 ( 479) TAGAAGAACAACACAAATAAC 1 264145 ( 137) CACGACAACAACACACACCAA 1 3493 ( 476) CCCGACACCAACAAAGAGACA 1 21712 ( 460) CGGAACACCAAGTGAGAGACC 1 22902 ( 195) AAGAAGAAGCCGTAACAGAAG 1 33724 ( 184) TCGAAGAAGCCGAAAAGAATC 1 23052 ( 375) CTAATGAAAAACCAAAGGAAC 1 262068 ( 478) CCGAAGATGCCCGAACAACAA 1 8510 ( 430) CATGATATCAACCAAAATCAC 1 5340 ( 165) TTGAAGAAGTACACCAACCCC 1 21459 ( 312) AGGAAGAAGCATTGAAGCCAC 1 28038 ( 217) CACAACACAACGCGACGTACC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 12480 bayes= 10.3432 E= 2.5e-002 -45 142 -1064 -49 55 69 -98 -108 -204 10 134 -207 166 -1064 -40 -1064 187 -1064 -1064 -207 -1064 69 119 -207 196 -1064 -1064 -1064 142 -31 -1064 -108 -104 110 60 -1064 142 10 -1064 -207 154 10 -1064 -1064 -1064 142 34 -207 77 43 -198 -49 128 -31 -40 -1064 166 -31 -1064 -1064 77 91 -98 -1064 142 -1064 34 -1064 -104 43 60 -49 128 69 -1064 -1064 142 10 -1064 -207 -45 169 -198 -1064 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 16 E= 2.5e-002 0.187500 0.625000 0.000000 0.187500 0.375000 0.375000 0.125000 0.125000 0.062500 0.250000 0.625000 0.062500 0.812500 0.000000 0.187500 0.000000 0.937500 0.000000 0.000000 0.062500 0.000000 0.375000 0.562500 0.062500 1.000000 0.000000 0.000000 0.000000 0.687500 0.187500 0.000000 0.125000 0.125000 0.500000 0.375000 0.000000 0.687500 0.250000 0.000000 0.062500 0.750000 0.250000 0.000000 0.000000 0.000000 0.625000 0.312500 0.062500 0.437500 0.312500 0.062500 0.187500 0.625000 0.187500 0.187500 0.000000 0.812500 0.187500 0.000000 0.000000 0.437500 0.437500 0.125000 0.000000 0.687500 0.000000 0.312500 0.000000 0.125000 0.312500 0.375000 0.187500 0.625000 0.375000 0.000000 0.000000 0.687500 0.250000 0.000000 0.062500 0.187500 0.750000 0.062500 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- C[AC][GC]AA[GC]AA[CG][AC][AC][CG][AC]AA[AC][AG][GC][AC][AC]C -------------------------------------------------------------------------------- Time 11.69 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 12 sites = 26 llr = 222 E-value = 4.9e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::7::1:::121 pos.-specific C 1::4::1:14:: probability G :a::822a6173 matrix T 8:36277:3426 bits 2.1 * 1.9 * 1.7 * * 1.5 * * * Relative 1.3 ** * * Entropy 1.1 ** ** * (12.3 bits) 0.8 ******** * 0.6 ********* ** 0.4 ********* ** 0.2 ************ 0.0 ------------ Multilevel TGATGTTGGTGT consensus TC TC G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 885 37 1.51e-07 TAGGAAGTCA TGATGTTGGTGT AACAAGAATT 5153 306 7.10e-07 AGCTGGGATT TGATGTTGTTGT TTTTGCTGTA 3260 174 3.43e-06 AACACGCCCG CGATGTTGGTGT TGACTCTATC 23052 359 3.43e-06 ACTGCGGCAG TGACGTTGTTGG AAGTCTAATG 262068 419 5.63e-06 TGAAACAACC CGACGTTGGTGT AGTCGAAAAA 21712 145 7.05e-06 CGTGCGTTGA TGATGATGGCGG GGCGTACGAA 1218 18 1.28e-05 TTGCGTTGGC TGTTGTTGGAGG TGCGCGAGGA 3456 61 2.60e-05 ATGCGAGTGT TGATGATGGCGA TAGGGCCGCC 33724 417 2.80e-05 GCTGCCCTCG TGTTGTTGTTTT CCTGTCGCTG 4100 246 3.75e-05 GCGAAATGTC TGATTGTGGTGG TGATCAAGGG 3493 323 3.75e-05 ATTCACTTAG TGATGTTGGGAG GAGGGGCTAT 5340 59 4.05e-05 CTTCAGAGGA TGACGGTGCTGT GTGAACACGT bd716 141 4.82e-05 GGTGATGTTT TGTCGTCGTCGT GACGGGTGAT 28038 10 4.82e-05 TTTGTTGTT TGTCGTCGTCGT CTGAATTGTA 269513 336 5.68e-05 ACAGCTAGGC TGTTGTTGGGTT GTTGGTGCTT 7174 331 6.36e-05 CTGAAGTAGT TGATGTGGGAGA GAGCGGTGAG 9861 35 6.90e-05 AAGGAGCCAC TGATGTTGACTT TCGCGAGATT 20633 74 6.90e-05 AAGGTGGCAG TGTCGGTGGCAT TCAAAGCCTA 264145 244 8.88e-05 CTCATTTGGG TTTCGTTGGCGT CTCCCTCGGC 22902 401 8.88e-05 CCTGGAGAGA TGACGTCGCCGG TCGGTCAGTA 8510 395 1.06e-04 CCCGAGGAGA AGACGTGGGTGT GCCCTTTGGA 3590 21 1.14e-04 GTAGAGGTAG TGGTGTTGGCTG CCATCATCGT 25325 218 1.22e-04 AAAGAATGGC CGATTTGGGTGT CTCTTTCACC 3284 156 1.88e-04 TGGTAGACGT TGACGATGGAAG CGGAGGAATT 23379 428 2.00e-04 GAGGTCCACT TGATTTGGTCAT TCCATAAACT 21459 30 2.00e-04 CCGCTTGTTG TGATTGTGTTGA CGTTTGGCTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 885 1.5e-07 36_[+3]_452 5153 7.1e-07 305_[+3]_183 3260 3.4e-06 173_[+3]_315 23052 3.4e-06 358_[+3]_130 262068 5.6e-06 418_[+3]_70 21712 7.1e-06 144_[+3]_344 1218 1.3e-05 17_[+3]_471 3456 2.6e-05 60_[+3]_428 33724 2.8e-05 416_[+3]_72 4100 3.8e-05 245_[+3]_243 3493 3.8e-05 322_[+3]_166 5340 4.1e-05 58_[+3]_430 bd716 4.8e-05 140_[+3]_348 28038 4.8e-05 9_[+3]_479 269513 5.7e-05 335_[+3]_153 7174 6.4e-05 330_[+3]_158 9861 6.9e-05 34_[+3]_454 20633 6.9e-05 73_[+3]_415 264145 8.9e-05 243_[+3]_245 22902 8.9e-05 400_[+3]_88 8510 0.00011 394_[+3]_94 3590 0.00011 20_[+3]_468 25325 0.00012 217_[+3]_271 3284 0.00019 155_[+3]_333 23379 0.0002 427_[+3]_61 21459 0.0002 29_[+3]_459 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=12 seqs=26 885 ( 37) TGATGTTGGTGT 1 5153 ( 306) TGATGTTGTTGT 1 3260 ( 174) CGATGTTGGTGT 1 23052 ( 359) TGACGTTGTTGG 1 262068 ( 419) CGACGTTGGTGT 1 21712 ( 145) TGATGATGGCGG 1 1218 ( 18) TGTTGTTGGAGG 1 3456 ( 61) TGATGATGGCGA 1 33724 ( 417) TGTTGTTGTTTT 1 4100 ( 246) TGATTGTGGTGG 1 3493 ( 323) TGATGTTGGGAG 1 5340 ( 59) TGACGGTGCTGT 1 bd716 ( 141) TGTCGTCGTCGT 1 28038 ( 10) TGTCGTCGTCGT 1 269513 ( 336) TGTTGTTGGGTT 1 7174 ( 331) TGATGTGGGAGA 1 9861 ( 35) TGATGTTGACTT 1 20633 ( 74) TGTCGGTGGCAT 1 264145 ( 244) TTTCGTTGGCGT 1 22902 ( 401) TGACGTCGCCGG 1 8510 ( 395) AGACGTGGGTGT 1 3590 ( 21) TGGTGTTGGCTG 1 25325 ( 218) CGATTTGGGTGT 1 3284 ( 156) TGACGATGGAAG 1 23379 ( 428) TGATTTGGTCAT 1 21459 ( 30) TGATTGTGTTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 12714 bayes= 8.93074 E= 4.9e-002 -274 -101 -1134 168 -1134 -1134 196 -277 143 -1134 -268 3 -1134 72 -1134 122 -1134 -1134 178 -78 -115 -1134 -68 147 -1134 -101 -68 147 -1134 -1134 202 -1134 -274 -160 132 3 -115 72 -168 68 -74 -1134 149 -78 -115 -1134 32 113 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 26 E= 4.9e-002 0.038462 0.115385 0.000000 0.846154 0.000000 0.000000 0.961538 0.038462 0.692308 0.000000 0.038462 0.269231 0.000000 0.384615 0.000000 0.615385 0.000000 0.000000 0.846154 0.153846 0.115385 0.000000 0.153846 0.730769 0.000000 0.115385 0.153846 0.730769 0.000000 0.000000 1.000000 0.000000 0.038462 0.076923 0.615385 0.269231 0.115385 0.384615 0.076923 0.423077 0.153846 0.000000 0.692308 0.153846 0.115385 0.000000 0.307692 0.576923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- TG[AT][TC]GTTG[GT][TC]G[TG] -------------------------------------------------------------------------------- Time 17.24 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 1218 4.06e-02 17_[+3(1.28e-05)]_471 20633 3.41e-08 73_[+3(6.90e-05)]_324_\ [+2(8.44e-12)]_70 21459 1.81e-04 182_[+1(1.55e-05)]_114_\ [+2(5.29e-06)]_168 21712 7.72e-08 31_[+1(2.93e-07)]_98_[+3(7.05e-06)]_\ 303_[+2(1.24e-06)]_20 22902 8.13e-06 173_[+1(3.85e-06)]_6_[+2(1.34e-06)]_\ 185_[+3(8.88e-05)]_88 23052 1.54e-04 358_[+3(3.43e-06)]_4_[+2(2.97e-06)]_\ 105 23379 2.61e-03 365_[+1(1.86e-06)]_120 25325 3.13e-03 84_[+1(4.21e-06)]_401 262068 3.97e-04 418_[+3(5.63e-06)]_47_\ [+2(3.39e-06)]_2 264145 2.31e-04 136_[+2(1.76e-07)]_86_\ [+3(8.88e-05)]_245 269513 1.40e-01 335_[+3(5.68e-05)]_153 28038 4.16e-07 9_[+3(4.82e-05)]_118_[+1(6.11e-08)]_\ 62_[+2(5.62e-06)]_263 3260 1.81e-05 102_[+1(4.22e-07)]_56_\ [+3(3.43e-06)]_315 3284 3.34e-01 500 33724 2.16e-05 183_[+2(2.97e-06)]_212_\ [+3(2.80e-05)]_16_[+1(1.65e-05)]_41 3456 3.12e-08 60_[+3(2.60e-05)]_224_\ [+2(3.31e-09)]_101_[+1(1.12e-05)]_67 3493 7.51e-06 322_[+3(3.75e-05)]_96_\ [+1(1.04e-05)]_30_[+2(1.06e-06)]_4 3590 3.58e-04 271_[+1(4.22e-07)]_214 4100 6.56e-07 245_[+3(3.75e-05)]_159_\ [+2(6.09e-10)]_63 5153 6.49e-08 305_[+3(7.10e-07)]_161_\ [+2(4.47e-09)]_1 5340 7.70e-05 58_[+3(4.05e-05)]_94_[+2(4.39e-06)]_\ 207_[+1(3.32e-05)]_93 7174 1.61e-02 330_[+3(6.36e-05)]_158 8510 2.49e-05 83_[+1(3.53e-06)]_331_\ [+2(4.39e-06)]_50 885 1.80e-07 36_[+3(1.51e-07)]_259_\ [+1(3.63e-08)]_[+1(1.37e-05)]_163 9861 3.41e-10 34_[+3(6.90e-05)]_9_[+1(3.82e-05)]_\ 290_[+2(2.07e-09)]_[+2(1.80e-08)]_[+2(5.62e-06)]_33_[+1(5.11e-08)]_29 bd716 6.58e-04 140_[+3(4.82e-05)]_185_\ [+1(3.85e-06)]_148 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************