******************************************************************************** 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/147/147.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10062 1.0000 500 10588 1.0000 500 10893 1.0000 500 1588 1.0000 500 2119 1.0000 500 22202 1.0000 500 2580 1.0000 500 260784 1.0000 500 261863 1.0000 500 262028 1.0000 500 262467 1.0000 500 263360 1.0000 500 263397 1.0000 500 263925 1.0000 500 264534 1.0000 500 29850 1.0000 500 31276 1.0000 500 31599 1.0000 500 3261 1.0000 500 34295 1.0000 500 34795 1.0000 500 35318 1.0000 500 35693 1.0000 500 5046 1.0000 500 5221 1.0000 500 5614 1.0000 500 6031 1.0000 500 8416 1.0000 500 8509 1.0000 500 8972 1.0000 500 9725 1.0000 500 bd730 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/147/147.seqs.fa -oc motifs/147 -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= 32 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= 16000 N= 32 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.271 C 0.223 G 0.243 T 0.264 Background letter frequencies (from dataset with add-one prior applied): A 0.271 C 0.223 G 0.243 T 0.264 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 19 sites = 19 llr = 236 E-value = 2.3e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :::3::1:1:2:1412::1 pos.-specific C 32:1:::3::1:2::12:1 probability G 3:94287535167386:a6 matrix T 581282226574:3128:3 bits 2.2 2.0 * 1.7 * 1.5 * * Relative 1.3 ** ** ** Entropy 1.1 ** *** * * * ** (17.9 bits) 0.9 ** *** ** ** * ** 0.7 ** ********* * *** 0.4 *** *************** 0.2 ******************* 0.0 ------------------- Multilevel TTGGTGGGTTTGGAGGTGG consensus C A TTCGG T T C T sequence G T T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------- 262467 250 4.64e-10 ATGAAGTGAT CTGGTGGCTTTGGTGGTGG GTGATGGGTG 261863 315 1.05e-09 CGTGAGTTTT TTGTTGGGTGTTGGGGTGG CGTTGCTGGG 262028 45 4.32e-08 CTTCTGCTGC TTGGTTGGTTGGGAGGTGG CGATATGAGG 5614 139 4.89e-08 GGTAGGAGAG TTGTTGTCGTTTGAGGTGG GTGACAAGCT 34795 171 9.02e-08 TGCTGGTAGG CCGGTGGGGGTGCTGGTGG TGCTGCTGTG 29850 82 1.01e-07 TGTTGCAATT GTGGTGGTGGTGATGGTGG TTATCTCTAA 22202 58 1.60e-07 GCGTGGAGGG TTGGTTGGGTTGCTGGCGG ATGAGCCAGA 260784 53 3.36e-07 CAATTTGGCA TTGCTGGCTTTGGATTTGG AAGACTGGAT 264534 431 3.72e-07 TTTAAGTGGA CTTTTGGGGTTGGAGTTGG ACCAAAACCA 31599 5 6.06e-07 AAAT GTGAGGTGTGTTGTGGCGG AGGTTTTTCC 8416 314 9.59e-07 TTGGCTGGGA GTTGTTGTTTTGGGGGTGT CCACTAATTT 10062 171 2.05e-06 ATCAGTGGTG GTGATGGTTGATGATGTGT CACTGTCAAC 2119 225 2.22e-06 TCCGCTCGTA TTGTTGGGTGTTGGATCGT CCATTCACAG 5046 298 3.27e-06 TAAAGACGTT TCGGGGAGTGAGGGGGTGG GAGAAGCTCA 263397 439 3.27e-06 GTGAAGATTA TTGATGGCATTGGAGATGA TGAGATTCAA 3261 406 5.78e-06 GGTTAAAATA TTGCTGTGTGCTGAGACGT TGTGCCAACC bd730 362 6.19e-06 TAGATGATGG CTGATGGCTTTGCAACTGT GATGGTGATG 10893 375 1.10e-05 GCAGAGATGG CTGGGGTTGTCGGTGGTGC AAACGAAGTC 8509 150 1.64e-05 GGTGTGATGG GCGATTGGTGATAGGATGG ATCGGTGCAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 262467 4.6e-10 249_[+1]_232 261863 1e-09 314_[+1]_167 262028 4.3e-08 44_[+1]_437 5614 4.9e-08 138_[+1]_343 34795 9e-08 170_[+1]_311 29850 1e-07 81_[+1]_400 22202 1.6e-07 57_[+1]_424 260784 3.4e-07 52_[+1]_429 264534 3.7e-07 430_[+1]_51 31599 6.1e-07 4_[+1]_477 8416 9.6e-07 313_[+1]_168 10062 2.1e-06 170_[+1]_311 2119 2.2e-06 224_[+1]_257 5046 3.3e-06 297_[+1]_184 263397 3.3e-06 438_[+1]_43 3261 5.8e-06 405_[+1]_76 bd730 6.2e-06 361_[+1]_120 10893 1.1e-05 374_[+1]_107 8509 1.6e-05 149_[+1]_332 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=19 seqs=19 262467 ( 250) CTGGTGGCTTTGGTGGTGG 1 261863 ( 315) TTGTTGGGTGTTGGGGTGG 1 262028 ( 45) TTGGTTGGTTGGGAGGTGG 1 5614 ( 139) TTGTTGTCGTTTGAGGTGG 1 34795 ( 171) CCGGTGGGGGTGCTGGTGG 1 29850 ( 82) GTGGTGGTGGTGATGGTGG 1 22202 ( 58) TTGGTTGGGTTGCTGGCGG 1 260784 ( 53) TTGCTGGCTTTGGATTTGG 1 264534 ( 431) CTTTTGGGGTTGGAGTTGG 1 31599 ( 5) GTGAGGTGTGTTGTGGCGG 1 8416 ( 314) GTTGTTGTTTTGGGGGTGT 1 10062 ( 171) GTGATGGTTGATGATGTGT 1 2119 ( 225) TTGTTGGGTGTTGGATCGT 1 5046 ( 298) TCGGGGAGTGAGGGGGTGG 1 263397 ( 439) TTGATGGCATTGGAGATGA 1 3261 ( 406) TTGCTGTGTGCTGAGACGT 1 bd730 ( 362) CTGATGGCTTTGCAACTGT 1 10893 ( 375) CTGGGGTTGTCGGTGGTGC 1 8509 ( 150) GCGATTGGTGATAGGATGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 19 n= 15424 bayes= 9.85822 E= 2.3e-006 -1089 24 11 85 -1089 -50 -1089 168 -1089 -1089 188 -132 -4 -108 79 -32 -1089 -1089 -62 168 -1089 -1089 170 -32 -236 -1089 160 -32 -1089 24 111 -32 -236 -1089 38 126 -1089 -1089 96 100 -78 -108 -220 138 -1089 -1089 138 48 -136 -50 160 -1089 64 -1089 11 26 -136 -1089 170 -132 -78 -208 138 -74 -1089 -8 -1089 158 -1089 -1089 204 -1089 -236 -208 138 0 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 19 nsites= 19 E= 2.3e-006 0.000000 0.263158 0.263158 0.473684 0.000000 0.157895 0.000000 0.842105 0.000000 0.000000 0.894737 0.105263 0.263158 0.105263 0.421053 0.210526 0.000000 0.000000 0.157895 0.842105 0.000000 0.000000 0.789474 0.210526 0.052632 0.000000 0.736842 0.210526 0.000000 0.263158 0.526316 0.210526 0.052632 0.000000 0.315789 0.631579 0.000000 0.000000 0.473684 0.526316 0.157895 0.105263 0.052632 0.684211 0.000000 0.000000 0.631579 0.368421 0.105263 0.157895 0.736842 0.000000 0.421053 0.000000 0.263158 0.315789 0.105263 0.000000 0.789474 0.105263 0.157895 0.052632 0.631579 0.157895 0.000000 0.210526 0.000000 0.789474 0.000000 0.000000 1.000000 0.000000 0.052632 0.052632 0.631579 0.263158 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [TCG]TG[GAT]T[GT][GT][GCT][TG][TG]T[GT]G[ATG]GG[TC]G[GT] -------------------------------------------------------------------------------- Time 9.98 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 12 sites = 15 llr = 172 E-value = 5.3e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 5::5:1::51:: pos.-specific C 586553aa39aa probability G ::::2::::::: matrix T :24136::3::: bits 2.2 ** ** 2.0 ** ** 1.7 ** *** 1.5 ** *** Relative 1.3 * ** *** Entropy 1.1 *** ** *** (16.5 bits) 0.9 *** *** *** 0.7 ******** *** 0.4 ************ 0.2 ************ 0.0 ------------ Multilevel ACCACTCCACCC consensus CTTCTC C sequence G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 35693 419 3.89e-07 CTTTCCCCTG CCCACTCCCCCC CCGAAACAGC 1588 81 5.49e-07 GGCATCAAGC ACCACTCCTCCC AAGCCGAAAA 34295 291 7.81e-07 CCAGACACAA CCCACCCCCCCC AAACCTTTCA 263360 277 7.81e-07 TTTTCTCCTT CCCCTTCCACCC TTCCGATGAA 5614 371 1.12e-06 CTACGTTCCT CCTCCTCCTCCC TCCCCATCCT 5046 447 1.39e-06 ACACAACAAC ACCAGTCCACCC TTGACTCCAC 8509 33 2.78e-06 ATGCCTCCCC ACCCTCCCTCCC CAAGAGCACC 31276 467 2.78e-06 TAAAGTGTCT ACTCTTCCCCCC CTTCCAATGG 10893 434 2.78e-06 GATTACTCCG CCCCGCCCCCCC TCGAGCAGAC 260784 449 3.57e-06 GAGCGAAATC CTTCCTCCACCC TGCATTGTAG 35318 480 5.06e-06 TTACATTTAA ACTCGCCCTCCC AATACAAAT 263925 196 5.51e-06 CAATGAGTGG ATCATTCCACCC CTCCTACACT 34795 25 5.69e-06 GTCGGGGTAG ACTTCTCCACCC AGTTGCATCA 8416 459 9.17e-06 GTGACAATCG ACCACCCCAACC TCCTCATCAC 29850 335 1.65e-05 GCAAGCATAA CTTACACCACCC GTTAACTTCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 35693 3.9e-07 418_[+2]_70 1588 5.5e-07 80_[+2]_408 34295 7.8e-07 290_[+2]_198 263360 7.8e-07 276_[+2]_212 5614 1.1e-06 370_[+2]_118 5046 1.4e-06 446_[+2]_42 8509 2.8e-06 32_[+2]_456 31276 2.8e-06 466_[+2]_22 10893 2.8e-06 433_[+2]_55 260784 3.6e-06 448_[+2]_40 35318 5.1e-06 479_[+2]_9 263925 5.5e-06 195_[+2]_293 34795 5.7e-06 24_[+2]_464 8416 9.2e-06 458_[+2]_30 29850 1.7e-05 334_[+2]_154 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=12 seqs=15 35693 ( 419) CCCACTCCCCCC 1 1588 ( 81) ACCACTCCTCCC 1 34295 ( 291) CCCACCCCCCCC 1 263360 ( 277) CCCCTTCCACCC 1 5614 ( 371) CCTCCTCCTCCC 1 5046 ( 447) ACCAGTCCACCC 1 8509 ( 33) ACCCTCCCTCCC 1 31276 ( 467) ACTCTTCCCCCC 1 10893 ( 434) CCCCGCCCCCCC 1 260784 ( 449) CTTCCTCCACCC 1 35318 ( 480) ACTCGCCCTCCC 1 263925 ( 196) ATCATTCCACCC 1 34795 ( 25) ACTTCTCCACCC 1 8416 ( 459) ACCACCCCAACC 1 29850 ( 335) CTTACACCACCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 15648 bayes= 11.7316 E= 5.3e-005 98 107 -1055 -1055 -1055 184 -1055 -40 -1055 143 -1055 60 78 107 -1055 -198 -1055 126 -28 2 -202 58 -1055 119 -1055 217 -1055 -1055 -1055 217 -1055 -1055 78 26 -1055 2 -202 207 -1055 -1055 -1055 217 -1055 -1055 -1055 217 -1055 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 15 E= 5.3e-005 0.533333 0.466667 0.000000 0.000000 0.000000 0.800000 0.000000 0.200000 0.000000 0.600000 0.000000 0.400000 0.466667 0.466667 0.000000 0.066667 0.000000 0.533333 0.200000 0.266667 0.066667 0.333333 0.000000 0.600000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.466667 0.266667 0.000000 0.266667 0.066667 0.933333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [AC][CT][CT][AC][CTG][TC]CC[ACT]CCC -------------------------------------------------------------------------------- Time 19.88 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 16 sites = 22 llr = 227 E-value = 1.9e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :a4:5:52413::431 pos.-specific C :::::1:::2:::::1 probability G a:3a182756:49636 matrix T ::4:4:2:::661:41 bits 2.2 2.0 * * 1.7 ** * 1.5 ** * * Relative 1.3 ** * * * Entropy 1.1 ** * * * (14.9 bits) 0.9 ** * * * **** 0.7 ** * * ******* 0.4 ****** ********* 0.2 **************** 0.0 ---------------- Multilevel GAAGAGAGGGTTGGTG consensus T T G ACAG AA sequence G T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 31276 235 2.06e-08 TGACGATGTG GAAGAGGGGGTTGGAG CTCGGTCTAA 260784 190 2.06e-08 TTATTTCGCA GAGGAGAGAGTTGGAG TGATGTGGAA 5614 217 1.74e-07 TGCTGTAGAA GAAGGGAGGGTTGAGG GAGGGTAAAG 263925 416 6.21e-07 TGCCGATTTT GAAGTGTGGGAGGATG AGGAGGACTT 31599 168 7.09e-07 GTTGAGGTTT GAGGTGAGAGTTGGTC TCAAATTCAA 22202 163 1.04e-06 GGGTGTTGGT GAGGAGAGGGTGGCTG GGAATTAATA 262467 123 1.33e-06 TCGCTTCCAT GATGTGGAGGATGGGG TTGCGGCAGA bd730 334 2.92e-06 ACTGTGATGT GATGGGTGACTTGATG TCTAGATGAT 29850 269 3.59e-06 GAGGAGCAGC GATGAGAATGTTGGTG AGAGAAGGGT 10588 438 3.59e-06 ACTGCAAATG GAAGTGGGGCTGGGAA CTGGCCTGAT 10062 339 3.96e-06 GACCATCGTG GAGGTGGGAGGTGGTG GTGTGATGGT 3261 264 4.38e-06 AGCAGAAGAC GAAGAGAGAATGGGGA AGTCGGTTGG 263397 152 1.19e-05 TTCTCGTCGA GATGAGAAGATTTGAG TCTGACGTTG 34795 477 1.29e-05 GACGGTGTAT GAAGAGACGGTGGAGT TTCTACCA 8972 452 1.52e-05 GTCGTTTACT GATGGCGAAGTTGGTG ATATGATGTT 264534 7 2.25e-05 CGTGAT GATGTCTGAGATTGGG TAGTAAAGGC 5046 112 2.43e-05 TTGTCTATGG GATGAGAGAGAAGAGA CCACCGTAGC 35693 33 3.47e-05 CTGCTTTTTT GATGACATGCTGGAGG GTTGTGGTAT 262028 70 4.25e-05 GTGGCGATAT GAGGTGTGGCTGTATC ACTTTGGTAG 5221 15 4.55e-05 TGCTGTCGTG GAGGAACGGGATGAAG GAATATGAAG 8509 58 5.87e-05 GAGCACCGCC GAAGTGAGCAAGGGAT CAACCGCTGA 2580 52 6.24e-05 TTGAGTTGGA AAAGAGTGGCATGGAT GAAGTATCAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 31276 2.1e-08 234_[+3]_250 260784 2.1e-08 189_[+3]_295 5614 1.7e-07 216_[+3]_268 263925 6.2e-07 415_[+3]_69 31599 7.1e-07 167_[+3]_317 22202 1e-06 162_[+3]_322 262467 1.3e-06 122_[+3]_362 bd730 2.9e-06 333_[+3]_151 29850 3.6e-06 268_[+3]_216 10588 3.6e-06 437_[+3]_47 10062 4e-06 338_[+3]_146 3261 4.4e-06 263_[+3]_221 263397 1.2e-05 151_[+3]_333 34795 1.3e-05 476_[+3]_8 8972 1.5e-05 451_[+3]_33 264534 2.3e-05 6_[+3]_478 5046 2.4e-05 111_[+3]_373 35693 3.5e-05 32_[+3]_452 262028 4.3e-05 69_[+3]_415 5221 4.5e-05 14_[+3]_470 8509 5.9e-05 57_[+3]_427 2580 6.2e-05 51_[+3]_433 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=16 seqs=22 31276 ( 235) GAAGAGGGGGTTGGAG 1 260784 ( 190) GAGGAGAGAGTTGGAG 1 5614 ( 217) GAAGGGAGGGTTGAGG 1 263925 ( 416) GAAGTGTGGGAGGATG 1 31599 ( 168) GAGGTGAGAGTTGGTC 1 22202 ( 163) GAGGAGAGGGTGGCTG 1 262467 ( 123) GATGTGGAGGATGGGG 1 bd730 ( 334) GATGGGTGACTTGATG 1 29850 ( 269) GATGAGAATGTTGGTG 1 10588 ( 438) GAAGTGGGGCTGGGAA 1 10062 ( 339) GAGGTGGGAGGTGGTG 1 3261 ( 264) GAAGAGAGAATGGGGA 1 263397 ( 152) GATGAGAAGATTTGAG 1 34795 ( 477) GAAGAGACGGTGGAGT 1 8972 ( 452) GATGGCGAAGTTGGTG 1 264534 ( 7) GATGTCTGAGATTGGG 1 5046 ( 112) GATGAGAGAGAAGAGA 1 35693 ( 33) GATGACATGCTGGAGG 1 262028 ( 70) GAGGTGTGGCTGTATC 1 5221 ( 15) GAGGAACGGGATGAAG 1 8509 ( 58) GAAGTGAGCAAGGGAT 1 2580 ( 52) AAAGAGTGGCATGGAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 15520 bayes= 9.8159 E= 1.9e+000 -257 -1110 197 -1110 188 -1110 -1110 -1110 43 -1110 17 46 -1110 -1110 204 -1110 88 -1110 -83 46 -257 -71 175 -1110 88 -229 -10 -21 -57 -229 158 -253 43 -229 117 -253 -99 3 139 -1110 23 -1110 -242 127 -257 -1110 58 116 -1110 -1110 183 -95 43 -229 128 -1110 23 -1110 39 46 -99 -129 139 -95 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 22 E= 1.9e+000 0.045455 0.000000 0.954545 0.000000 1.000000 0.000000 0.000000 0.000000 0.363636 0.000000 0.272727 0.363636 0.000000 0.000000 1.000000 0.000000 0.500000 0.000000 0.136364 0.363636 0.045455 0.136364 0.818182 0.000000 0.500000 0.045455 0.227273 0.227273 0.181818 0.045455 0.727273 0.045455 0.363636 0.045455 0.545455 0.045455 0.136364 0.227273 0.636364 0.000000 0.318182 0.000000 0.045455 0.636364 0.045455 0.000000 0.363636 0.590909 0.000000 0.000000 0.863636 0.136364 0.363636 0.045455 0.590909 0.000000 0.318182 0.000000 0.318182 0.363636 0.136364 0.090909 0.636364 0.136364 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- GA[ATG]G[AT]G[AGT]G[GA][GC][TA][TG]G[GA][TAG]G -------------------------------------------------------------------------------- Time 29.90 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10062 4.62e-05 41_[+3(7.04e-05)]_113_\ [+1(2.05e-06)]_149_[+3(3.96e-06)]_2_[+1(3.03e-05)]_125 10588 1.23e-02 437_[+3(3.59e-06)]_47 10893 9.94e-05 374_[+1(1.10e-05)]_40_\ [+2(2.78e-06)]_55 1588 2.87e-03 80_[+2(5.49e-07)]_408 2119 1.42e-03 224_[+1(2.22e-06)]_257 22202 4.11e-06 57_[+1(1.60e-07)]_86_[+3(1.04e-06)]_\ 228_[+1(1.93e-05)]_75 2580 2.53e-01 51_[+3(6.24e-05)]_433 260784 1.08e-09 52_[+1(3.36e-07)]_118_\ [+3(2.06e-08)]_1_[+3(2.25e-05)]_85_[+3(6.24e-05)]_125_[+2(3.57e-06)]_40 261863 1.81e-05 [+1(2.75e-05)]_295_[+1(1.05e-09)]_\ 167 262028 2.39e-05 44_[+1(4.32e-08)]_6_[+3(4.25e-05)]_\ 415 262467 9.80e-09 122_[+3(1.33e-06)]_111_\ [+1(4.64e-10)]_53_[+3(1.00e-05)]_163 263360 9.76e-03 276_[+2(7.81e-07)]_212 263397 2.37e-04 151_[+3(1.19e-05)]_271_\ [+1(3.27e-06)]_43 263925 3.06e-05 195_[+2(5.51e-06)]_208_\ [+3(6.21e-07)]_69 264534 7.56e-05 6_[+3(2.25e-05)]_408_[+1(3.72e-07)]_\ 51 29850 1.68e-07 36_[+1(7.47e-05)]_26_[+1(1.01e-07)]_\ 168_[+3(3.59e-06)]_50_[+2(1.65e-05)]_154 31276 5.73e-07 234_[+3(2.06e-08)]_216_\ [+2(2.78e-06)]_22 31599 1.96e-06 4_[+1(6.06e-07)]_144_[+3(7.09e-07)]_\ 317 3261 1.07e-04 263_[+3(4.38e-06)]_126_\ [+1(5.78e-06)]_76 34295 2.91e-03 290_[+2(7.81e-07)]_198 34795 1.83e-07 24_[+2(5.69e-06)]_134_\ [+1(9.02e-08)]_287_[+3(1.29e-05)]_8 35318 1.23e-02 479_[+2(5.06e-06)]_9 35693 2.31e-04 32_[+3(3.47e-05)]_370_\ [+2(3.89e-07)]_70 5046 2.31e-06 111_[+3(2.43e-05)]_170_\ [+1(3.27e-06)]_130_[+2(1.39e-06)]_42 5221 1.40e-01 14_[+3(4.55e-05)]_470 5614 4.46e-10 138_[+1(4.89e-08)]_59_\ [+3(1.74e-07)]_138_[+2(1.12e-06)]_118 6031 4.59e-01 500 8416 1.77e-04 313_[+1(9.59e-07)]_126_\ [+2(9.17e-06)]_30 8509 3.87e-05 32_[+2(2.78e-06)]_13_[+3(5.87e-05)]_\ 76_[+1(1.64e-05)]_332 8972 2.04e-02 451_[+3(1.52e-05)]_33 9725 5.18e-01 500 bd730 3.57e-04 333_[+3(2.92e-06)]_12_\ [+1(6.19e-06)]_120 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************