******************************************************************************** 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/455/455.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10951 1.0000 500 11144 1.0000 500 11718 1.0000 500 11762 1.0000 500 12085 1.0000 500 12087 1.0000 500 19937 1.0000 500 2095 1.0000 500 2224 1.0000 500 23614 1.0000 500 262559 1.0000 500 269248 1.0000 500 2990 1.0000 500 3078 1.0000 500 31875 1.0000 500 41547 1.0000 500 42828 1.0000 500 5198 1.0000 500 5757 1.0000 500 6784 1.0000 500 6810 1.0000 500 6991 1.0000 500 7003 1.0000 500 7146 1.0000 500 7859 1.0000 500 870 1.0000 500 9431 1.0000 500 bd1058 1.0000 368 ******************************************************************************** ******************************************************************************** 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/455/455.seqs.fa -oc motifs/455 -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= 28 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= 13868 N= 28 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.258 C 0.233 G 0.239 T 0.269 Background letter frequencies (from dataset with add-one prior applied): A 0.258 C 0.233 G 0.239 T 0.269 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 16 sites = 19 llr = 212 E-value = 3.8e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 3435:373:223:813 pos.-specific C :1:11:::::4:2:2: probability G 7572963698368277 matrix T :1:3:1:11:11::1: bits 2.1 1.9 1.7 * * 1.5 * * * Relative 1.3 * ** ** * Entropy 1.1 * * * * ** ** * (16.1 bits) 0.8 * * ****** *** * 0.6 * * ****** ***** 0.4 *** ****** ***** 0.2 **************** 0.0 ---------------- Multilevel GGGAGGAGGGCGGAGG consensus AAAT AGA AGA G A sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 6784 97 7.30e-10 TGATTGGTTT GGGTGGAGGGCGGAGG TATTTGCCAA 41547 334 3.88e-09 AGGTCCAGGA GGGAGGAGGGAGGAGG GAACCTTCAT 12087 78 3.06e-08 GGCGTCTCCG GGGGGGAGGGGGGAGA GGCCGGAGAG 6991 331 1.44e-07 TGTCGTCTGT GGGAGAAGGGGAGGGG ACTAGATTCT 2095 398 2.15e-07 TGGTGAGGCG AGGAGGAAGGTGGAGG ACCGATTCGG 12085 29 4.59e-07 GACGAAGGAG GGATGGAAGACGGAGG AGTCGGACTC 7003 157 1.87e-06 TAACAAGTGC GAGTGGAGGGTGGACA CGTTGATGGC 5757 308 2.48e-06 TGAACTGAGA GAGAGAGAGAGAGAGG AACAGGGGAT 870 27 3.57e-06 GTATGGTATT GGATGAAGGGAGGGGA ACTTTGTGGG 23614 260 4.62e-06 ATATGAAATG GAATGGATGGGGGATG GGTAGGATGA 9431 186 5.02e-06 TCGGCCTTTT GCGAGAAAGGAAGAGA AGACAAAGAG 2990 174 5.02e-06 GTTCTTATAA AAGAGTAGGGGAGGGG GTCACTTTGA 3078 404 6.40e-06 TGTGTTCGCG AAAGGGAGGACAGACG TCGACGCTCG 6810 86 7.50e-06 CCAACAGGGA AAGAGAGGGGCGCATG CATCTTGTGA 11762 125 1.01e-05 AGTATGTACG AGGCGGGTGGCGGAGA CGATAATGTC 7859 281 1.26e-05 GCCAGGATAG GGAGCGAGGGCTGAGG TTTTGGTTGC 2224 361 1.88e-05 TGTCCGTCCG GAGGGGGGTGCGGAAG GTGGCCTACT 269248 125 2.74e-05 TTGATCGGTA ATGAGAGAGGCACAGG GTCCGGTGCC 31875 7 3.26e-05 CAACTG GCAAGGAGGAGGCGCG CCCTACCCCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 6784 7.3e-10 96_[+1]_388 41547 3.9e-09 333_[+1]_151 12087 3.1e-08 77_[+1]_407 6991 1.4e-07 330_[+1]_154 2095 2.2e-07 397_[+1]_87 12085 4.6e-07 28_[+1]_456 7003 1.9e-06 156_[+1]_328 5757 2.5e-06 307_[+1]_177 870 3.6e-06 26_[+1]_458 23614 4.6e-06 259_[+1]_225 9431 5e-06 185_[+1]_299 2990 5e-06 173_[+1]_311 3078 6.4e-06 403_[+1]_81 6810 7.5e-06 85_[+1]_399 11762 1e-05 124_[+1]_360 7859 1.3e-05 280_[+1]_204 2224 1.9e-05 360_[+1]_124 269248 2.7e-05 124_[+1]_360 31875 3.3e-05 6_[+1]_478 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=16 seqs=19 6784 ( 97) GGGTGGAGGGCGGAGG 1 41547 ( 334) GGGAGGAGGGAGGAGG 1 12087 ( 78) GGGGGGAGGGGGGAGA 1 6991 ( 331) GGGAGAAGGGGAGGGG 1 2095 ( 398) AGGAGGAAGGTGGAGG 1 12085 ( 29) GGATGGAAGACGGAGG 1 7003 ( 157) GAGTGGAGGGTGGACA 1 5757 ( 308) GAGAGAGAGAGAGAGG 1 870 ( 27) GGATGAAGGGAGGGGA 1 23614 ( 260) GAATGGATGGGGGATG 1 9431 ( 186) GCGAGAAAGGAAGAGA 1 2990 ( 174) AAGAGTAGGGGAGGGG 1 3078 ( 404) AAAGGGAGGACAGACG 1 6810 ( 86) AAGAGAGGGGCGCATG 1 11762 ( 125) AGGCGGGTGGCGGAGA 1 7859 ( 281) GGAGCGAGGGCTGAGG 1 2224 ( 361) GAGGGGGGTGCGGAAG 1 269248 ( 125) ATGAGAGAGGCACAGG 1 31875 ( 7) GCAAGGAGGAGGCGCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 13448 bayes= 10.3635 E= 3.8e-004 29 -1089 151 -1089 51 -115 98 -235 29 -1089 151 -1089 87 -214 -19 -3 -1089 -214 198 -1089 29 -1089 140 -235 151 -1089 14 -1089 3 -1089 140 -135 -1089 -1089 198 -235 -29 -1089 172 -1089 -71 85 40 -135 29 -1089 140 -235 -1089 -56 181 -1089 161 -1089 -19 -1089 -229 -56 151 -135 3 -1089 162 -1089 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 19 E= 3.8e-004 0.315789 0.000000 0.684211 0.000000 0.368421 0.105263 0.473684 0.052632 0.315789 0.000000 0.684211 0.000000 0.473684 0.052632 0.210526 0.263158 0.000000 0.052632 0.947368 0.000000 0.315789 0.000000 0.631579 0.052632 0.736842 0.000000 0.263158 0.000000 0.263158 0.000000 0.631579 0.105263 0.000000 0.000000 0.947368 0.052632 0.210526 0.000000 0.789474 0.000000 0.157895 0.421053 0.315789 0.105263 0.315789 0.000000 0.631579 0.052632 0.000000 0.157895 0.842105 0.000000 0.789474 0.000000 0.210526 0.000000 0.052632 0.157895 0.684211 0.105263 0.263158 0.000000 0.736842 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [GA][GA][GA][ATG]G[GA][AG][GA]G[GA][CG][GA]G[AG]G[GA] -------------------------------------------------------------------------------- Time 6.28 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 14 llr = 191 E-value = 1.8e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 11::11243:12::::::1:: pos.-specific C :2::14647a14425367296 probability G 4319:::1:::11::::1::1 matrix T 54917622::82585742712 bits 2.1 * 1.9 * 1.7 * 1.5 ** * * Relative 1.3 ** ** * * Entropy 1.1 ** *** ***** * (19.7 bits) 0.8 *** *** ******** 0.6 * ***** *** ********* 0.4 * ***** *** ********* 0.2 ********************* 0.0 --------------------- Multilevel TTTGTTCACCTCTTCTCCTCC consensus GG CACA ACCTCTTC T sequence C TT T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 6991 368 1.83e-09 TTTTTTGATA TTTGTTCAACTATTTTTCTCC TTCTTGTCTA bd1058 188 5.07e-09 TTCGCAGTAT GCTGCTCTCCTCCTCTTCTCC ATGTTGCCTT 7859 408 2.35e-08 TAAAGTTACT TGTGTTCCCCTTTTTCCGTCC AGTCGACGGC 5757 140 2.63e-08 TAGCATTACA TTTGTTATCCTCTCCTCCTCG TACATCTTGG 42828 293 2.63e-08 CTGTCACTTA TGTTTTCCCCTATTTTCTTCC GCGTTGGTCG 269248 1 6.34e-08 . GATGTCCACCTCCTCTCCCTC TTGCGGTACA 9431 19 3.14e-07 GCACACGAAA TGTGTCTGCCTCTTTCTCTCG CCGTAACGCT 41547 411 3.41e-07 TGTAATGGAC ATTGTTTTCCTGCTTTTCTCT CCTCCCCTCA 5198 311 4.73e-07 GGATACTCTC TGTGAACAACTTCCCTCCTCC CTGTACCTCG 3078 139 6.46e-07 CTTGATAATG GCTGTCCACCTATCCCCTCCT CTACCTTGCA 262559 379 8.08e-07 GGAATAAAGA GCTGTCTCCCAGCTTCCCTCT TCCACTGCCA 11144 266 1.08e-06 CGTTCTCGGA GTTTATCACCTCGTTTCTCCC CAGCAGATTA 7146 437 1.61e-06 GCCGTCTTCG GTTGCTACACCTCTCTTCTTC ATACCACAAT 2095 282 1.95e-06 GGGTATACCA TTGGTCACACCCTTCTCCACC ACGTGAGTAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 6991 1.8e-09 367_[+2]_112 bd1058 5.1e-09 187_[+2]_160 7859 2.3e-08 407_[+2]_72 5757 2.6e-08 139_[+2]_340 42828 2.6e-08 292_[+2]_187 269248 6.3e-08 [+2]_479 9431 3.1e-07 18_[+2]_461 41547 3.4e-07 410_[+2]_69 5198 4.7e-07 310_[+2]_169 3078 6.5e-07 138_[+2]_341 262559 8.1e-07 378_[+2]_101 11144 1.1e-06 265_[+2]_214 7146 1.6e-06 436_[+2]_43 2095 2e-06 281_[+2]_198 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=14 6991 ( 368) TTTGTTCAACTATTTTTCTCC 1 bd1058 ( 188) GCTGCTCTCCTCCTCTTCTCC 1 7859 ( 408) TGTGTTCCCCTTTTTCCGTCC 1 5757 ( 140) TTTGTTATCCTCTCCTCCTCG 1 42828 ( 293) TGTTTTCCCCTATTTTCTTCC 1 269248 ( 1) GATGTCCACCTCCTCTCCCTC 1 9431 ( 19) TGTGTCTGCCTCTTTCTCTCG 1 41547 ( 411) ATTGTTTTCCTGCTTTTCTCT 1 5198 ( 311) TGTGAACAACTTCCCTCCTCC 1 3078 ( 139) GCTGTCCACCTATCCCCTCCT 1 262559 ( 379) GCTGTCTCCCAGCTTCCCTCT 1 11144 ( 266) GTTTATCACCTCGTTTCTCCC 1 7146 ( 437) GTTGCTACACCTCTCTTCTTC 1 2095 ( 282) TTGGTCACACCCTTCTCCACC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 13308 bayes= 10.4974 E= 1.8e-001 -185 -1045 84 89 -185 -12 25 67 -1045 -1045 -174 179 -1045 -1045 184 -91 -85 -71 -1045 141 -185 61 -1045 109 -27 129 -1045 -33 47 61 -174 -33 15 161 -1045 -1045 -1045 210 -1045 -1045 -185 -71 -1045 154 -27 88 -74 -33 -1045 88 -174 89 -1045 -12 -1045 154 -1045 110 -1045 89 -1045 29 -1045 141 -1045 146 -1045 41 -1045 161 -174 -33 -185 -12 -1045 141 -1045 188 -1045 -91 -1045 146 -74 -33 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 14 E= 1.8e-001 0.071429 0.000000 0.428571 0.500000 0.071429 0.214286 0.285714 0.428571 0.000000 0.000000 0.071429 0.928571 0.000000 0.000000 0.857143 0.142857 0.142857 0.142857 0.000000 0.714286 0.071429 0.357143 0.000000 0.571429 0.214286 0.571429 0.000000 0.214286 0.357143 0.357143 0.071429 0.214286 0.285714 0.714286 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.071429 0.142857 0.000000 0.785714 0.214286 0.428571 0.142857 0.214286 0.000000 0.428571 0.071429 0.500000 0.000000 0.214286 0.000000 0.785714 0.000000 0.500000 0.000000 0.500000 0.000000 0.285714 0.000000 0.714286 0.000000 0.642857 0.000000 0.357143 0.000000 0.714286 0.071429 0.214286 0.071429 0.214286 0.000000 0.714286 0.000000 0.857143 0.000000 0.142857 0.000000 0.642857 0.142857 0.214286 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [TG][TGC]TGT[TC][CAT][ACT][CA]CT[CAT][TC][TC][CT][TC][CT][CT][TC]C[CT] -------------------------------------------------------------------------------- Time 12.29 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 20 sites = 20 llr = 231 E-value = 1.0e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :235:55:553575823816 pos.-specific C 9253a4:9556145158193 probability G 1:12:2111121::22:1:1 matrix T 1721::51:1:4:1:2:1:2 bits 2.1 * 1.9 * 1.7 * * 1.5 * * Relative 1.3 * * * * * Entropy 1.1 * * * * * * * (16.7 bits) 0.8 * * ** * * *** 0.6 ** ******* *** *** 0.4 *** ******* *** **** 0.2 ******************** 0.0 -------------------- Multilevel CTCACAACAACAAAACCACA consensus AAC CT CCATCC AA C sequence G G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------- 42828 459 5.31e-09 TCCCATCTAT CTCACAGCCACAAAACCACA TACACCATCC 5198 431 2.27e-08 CCTCTCTGAT CTCGCCACCACAACAGCACT AACAACACCG 5757 465 2.35e-07 CGCTTCACCA CACACATCCCACACGCCACA TCAAATCCGA 6810 443 2.95e-07 AAGCGTGAAG CTAGCCACACCAACACAACG CCTTCGGATC 11762 481 2.95e-07 CGACCAACTT CCTCCATCACCAACATCACC 23614 329 4.10e-07 TGTTTGAGAT CACACATCATGTAAACCACA CTGTAATCTG 7859 478 5.64e-07 CTTCGTCTTC GTTACAACCACAACAGAACA AAC 7003 454 5.64e-07 ATTGTCCCCA CTCCCCTCAAGTCTAACACA TAACTACAAA 269248 470 6.93e-07 GATGACGACC CTCACCACACATCAAACAAC GATACTTTAC 10951 315 6.93e-07 ATTTGCTTGA CTCACCACCAAAAAAGAGCA AGCAGATTCT 262559 107 1.51e-06 CATAGGTTGG TAAACGACACCACAACCACA AGAAGGCTCA 7146 470 1.66e-06 ACCACAATAG CCAGCATTCACTACATCACA CATTTCACAG bd1058 94 3.98e-06 ACGTATGATT CTCCCATCAGAACCAGCTCC CGCGCACATA 9431 352 5.50e-06 CATAAGATTG CTCACAATAAGTCCACCTCT CTCTCATAAA 31875 88 6.44e-06 CTGGACCAAT GTATCCTCCCCTCAACAACT TTCATCTAAG 870 75 7.51e-06 GCGGATGGTT CTACCGACCAATCAATCCCC TTGGTAGTTT 2990 478 8.11e-06 AAGCGTCTTT CTTTCAACACCGAAGCCAAA CCG 6784 401 1.09e-05 GTATCACCCT CTCCCCTGCCCCAACACACA ATCCATAATT 19937 280 1.17e-05 ACCTCCGAAA CAAACGACGCAAACGACACC AGTGTTGCCC 2224 219 1.26e-05 GAACCATGAA CCGGCATCAACGATACAACA CGACCGCACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 42828 5.3e-09 458_[+3]_22 5198 2.3e-08 430_[+3]_50 5757 2.4e-07 464_[+3]_16 6810 3e-07 442_[+3]_38 11762 3e-07 480_[+3] 23614 4.1e-07 328_[+3]_152 7859 5.6e-07 477_[+3]_3 7003 5.6e-07 453_[+3]_27 269248 6.9e-07 469_[+3]_11 10951 6.9e-07 314_[+3]_166 262559 1.5e-06 106_[+3]_374 7146 1.7e-06 469_[+3]_11 bd1058 4e-06 93_[+3]_255 9431 5.5e-06 351_[+3]_129 31875 6.4e-06 87_[+3]_393 870 7.5e-06 74_[+3]_406 2990 8.1e-06 477_[+3]_3 6784 1.1e-05 400_[+3]_80 19937 1.2e-05 279_[+3]_201 2224 1.3e-05 218_[+3]_262 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=20 seqs=20 42828 ( 459) CTCACAGCCACAAAACCACA 1 5198 ( 431) CTCGCCACCACAACAGCACT 1 5757 ( 465) CACACATCCCACACGCCACA 1 6810 ( 443) CTAGCCACACCAACACAACG 1 11762 ( 481) CCTCCATCACCAACATCACC 1 23614 ( 329) CACACATCATGTAAACCACA 1 7859 ( 478) GTTACAACCACAACAGAACA 1 7003 ( 454) CTCCCCTCAAGTCTAACACA 1 269248 ( 470) CTCACCACACATCAAACAAC 1 10951 ( 315) CTCACCACCAAAAAAGAGCA 1 262559 ( 107) TAAACGACACCACAACCACA 1 7146 ( 470) CCAGCATTCACTACATCACA 1 bd1058 ( 94) CTCCCATCAGAACCAGCTCC 1 9431 ( 352) CTCACAATAAGTCCACCTCT 1 31875 ( 88) GTATCCTCCCCTCAACAACT 1 870 ( 75) CTACCGACCAATCAATCCCC 1 2990 ( 478) CTTTCAACACCGAAGCCAAA 1 6784 ( 401) CTCCCCTGCCCCAACACACA 1 19937 ( 280) CAAACGACGCAAACGACACC 1 2224 ( 219) CCGGCATCAACGATACAACA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 20 n= 13336 bayes= 10.3234 E= 1.0e-002 -1097 187 -126 -243 -37 -64 -1097 127 22 110 -226 -84 80 10 -26 -143 -1097 210 -1097 -1097 95 59 -67 -1097 95 -1097 -226 74 -1097 187 -226 -143 95 95 -226 -1097 80 95 -226 -243 22 124 -67 -1097 80 -122 -126 38 133 59 -1097 -1097 80 95 -1097 -143 163 -222 -67 -1097 -37 95 -26 -84 -5 169 -1097 -1097 163 -222 -226 -143 -137 195 -1097 -1097 109 10 -226 -84 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 20 nsites= 20 E= 1.0e-002 0.000000 0.850000 0.100000 0.050000 0.200000 0.150000 0.000000 0.650000 0.300000 0.500000 0.050000 0.150000 0.450000 0.250000 0.200000 0.100000 0.000000 1.000000 0.000000 0.000000 0.500000 0.350000 0.150000 0.000000 0.500000 0.000000 0.050000 0.450000 0.000000 0.850000 0.050000 0.100000 0.500000 0.450000 0.050000 0.000000 0.450000 0.450000 0.050000 0.050000 0.300000 0.550000 0.150000 0.000000 0.450000 0.100000 0.100000 0.350000 0.650000 0.350000 0.000000 0.000000 0.450000 0.450000 0.000000 0.100000 0.800000 0.050000 0.150000 0.000000 0.200000 0.450000 0.200000 0.150000 0.250000 0.750000 0.000000 0.000000 0.800000 0.050000 0.050000 0.100000 0.100000 0.900000 0.000000 0.000000 0.550000 0.250000 0.050000 0.150000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- C[TA][CA][ACG]C[AC][AT]C[AC][AC][CA][AT][AC][AC]A[CAG][CA]AC[AC] -------------------------------------------------------------------------------- Time 18.06 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10951 5.86e-03 314_[+3(6.93e-07)]_166 11144 2.13e-03 265_[+2(1.08e-06)]_214 11718 6.61e-01 500 11762 7.79e-05 124_[+1(1.01e-05)]_340_\ [+3(2.95e-07)] 12085 1.26e-03 28_[+1(4.59e-07)]_456 12087 4.52e-04 77_[+1(3.06e-08)]_54_[+1(8.13e-05)]_\ 337 19937 3.80e-02 279_[+3(1.17e-05)]_201 2095 9.99e-06 281_[+2(1.95e-06)]_95_\ [+1(2.15e-07)]_87 2224 6.56e-04 218_[+3(1.26e-05)]_122_\ [+1(1.88e-05)]_124 23614 3.80e-05 259_[+1(4.62e-06)]_53_\ [+3(4.10e-07)]_152 262559 2.81e-05 106_[+3(1.51e-06)]_252_\ [+2(8.08e-07)]_101 269248 3.77e-08 [+2(6.34e-08)]_103_[+1(2.74e-05)]_\ 329_[+3(6.93e-07)]_11 2990 7.05e-04 173_[+1(5.02e-06)]_288_\ [+3(8.11e-06)]_3 3078 9.53e-05 138_[+2(6.46e-07)]_244_\ [+1(6.40e-06)]_81 31875 1.76e-03 6_[+1(3.26e-05)]_65_[+3(6.44e-06)]_\ 328_[+3(9.20e-05)]_45 41547 3.62e-08 310_[+1(1.09e-05)]_7_[+1(3.88e-09)]_\ 61_[+2(3.41e-07)]_19_[+2(8.14e-05)]_29 42828 3.40e-09 292_[+2(2.63e-08)]_145_\ [+3(5.31e-09)]_22 5198 5.17e-07 310_[+2(4.73e-07)]_99_\ [+3(2.27e-08)]_50 5757 6.79e-10 139_[+2(2.63e-08)]_147_\ [+1(2.48e-06)]_95_[+2(7.63e-05)]_25_[+3(2.35e-07)]_16 6784 5.22e-08 96_[+1(7.30e-10)]_42_[+1(3.45e-05)]_\ 230_[+3(1.09e-05)]_80 6810 3.77e-05 85_[+1(7.50e-06)]_341_\ [+3(2.95e-07)]_38 6991 1.26e-08 330_[+1(1.44e-07)]_21_\ [+2(1.83e-09)]_112 7003 1.39e-05 156_[+1(1.87e-06)]_281_\ [+3(5.64e-07)]_27 7146 3.90e-05 436_[+2(1.61e-06)]_12_\ [+3(1.66e-06)]_11 7859 6.15e-09 280_[+1(1.26e-05)]_111_\ [+2(2.35e-08)]_49_[+3(5.64e-07)]_3 870 2.15e-04 26_[+1(3.57e-06)]_32_[+3(7.51e-06)]_\ 406 9431 2.29e-07 18_[+2(3.14e-07)]_146_\ [+1(5.02e-06)]_150_[+3(5.50e-06)]_93_[+1(3.65e-05)]_20 bd1058 5.15e-07 93_[+3(3.98e-06)]_74_[+2(5.07e-09)]_\ 122_[+3(9.67e-05)]_18 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************