******************************************************************************** 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/484/484.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 21390 1.0000 500 22783 1.0000 500 22807 1.0000 500 23672 1.0000 500 23981 1.0000 500 24293 1.0000 500 24537 1.0000 500 24595 1.0000 500 24631 1.0000 500 25531 1.0000 500 25680 1.0000 500 260939 1.0000 500 263374 1.0000 500 263452 1.0000 500 31472 1.0000 500 3197 1.0000 500 32933 1.0000 500 35855 1.0000 500 35916 1.0000 500 3936 1.0000 500 7508 1.0000 500 7727 1.0000 500 8022 1.0000 500 bd1803 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/484/484.seqs.fa -oc motifs/484 -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= 24 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= 12000 N= 24 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.263 C 0.246 G 0.228 T 0.262 Background letter frequencies (from dataset with add-one prior applied): A 0.263 C 0.246 G 0.228 T 0.262 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 16 sites = 22 llr = 221 E-value = 2.4e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :1:453356158:722 pos.-specific C a3754573285:9186 probability G ::2:::::1:::1::: matrix T :51:12:2:::2:1:1 bits 2.1 1.9 1.7 * 1.5 * Relative 1.3 * * ** * Entropy 1.1 * * **** * (14.5 bits) 0.9 * ** * **** * 0.6 **** ** ******* 0.4 **************** 0.2 **************** 0.0 ---------------- Multilevel CTCCACCAACAACACC consensus C ACAACC C A sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 7508 469 2.67e-09 TCCTTTTCGG CTCACCCAACAACACC CCCTTCAACT 31472 203 5.12e-08 TTCCGTTAGC CTCCACCAACCACCCC CAGACGGACG 22783 485 4.23e-07 GCAACAAAAA CACAACCAACAACACA 35855 400 5.48e-07 CATTTTCACC CCCCCCCTAACACACC CTGTCGTGCA 263452 461 7.23e-07 AACAACCGAA CTCCCCCTCCAACTCC AACCATTCCA 23981 423 1.03e-06 GCCCTTCCAG CCCCTCCCACCACCCC GAGCCCACAT 260939 339 1.31e-06 TGTTGCTTGC CTCAAAACACAACACA GACTGTCGGC 3936 270 1.84e-06 TACTCACCCC CTCGACCAACAACCCC CCCCTTGTGT 24595 465 3.94e-06 ACCCCTGTCT CCCACAACACAACTCC ACACACAACA 7727 448 6.41e-06 TCCTTCAACA CCGCATCACCCACACA ACACACACAT 25680 470 6.41e-06 CCTACACTTA CCGACCACACCACAAC AACTCTAAAC 263374 226 9.29e-06 TCACCCCTAT CACCATCCGCCACACA CACTCATCTC 35916 470 1.57e-05 CTCTTTCTGC CCCCCTCCGCCACGCC GCCGTAAGGC 24631 333 2.54e-05 TATTGTAATG CTCATCATACATCACT GTTGACCACC 8022 480 2.74e-05 CCCTGGCTTG CTCCCACATCCTCTCC ACATC 24537 437 2.95e-05 CCGTCGAGAG CAGCTCCTACAAGACC ACGACCACCC 21390 478 2.95e-05 GATGAGACCA CTGCCACAACCAAAAC GAACGTC bd1803 224 3.69e-05 ATCGCTGGCA CTCACAATCCATCAAC AAGCACCCAA 25531 446 4.57e-05 TTTCTTCCAG CTCAACCACGATCACT AGCCTTCTGT 23672 427 4.57e-05 CATAGTGAAC ACTCATCCACCACACC GCCACCGAGA 32933 457 6.01e-05 GAAGCAAGAC CTTCACAACAAACACT TGATTGGCAG 24293 186 1.75e-04 CATTGTACGA CTCAAACAGAAAGAAA AATCTGTCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 7508 2.7e-09 468_[+1]_16 31472 5.1e-08 202_[+1]_282 22783 4.2e-07 484_[+1] 35855 5.5e-07 399_[+1]_85 263452 7.2e-07 460_[+1]_24 23981 1e-06 422_[+1]_62 260939 1.3e-06 338_[+1]_146 3936 1.8e-06 269_[+1]_215 24595 3.9e-06 464_[+1]_20 7727 6.4e-06 447_[+1]_37 25680 6.4e-06 469_[+1]_15 263374 9.3e-06 225_[+1]_259 35916 1.6e-05 469_[+1]_15 24631 2.5e-05 332_[+1]_152 8022 2.7e-05 479_[+1]_5 24537 3e-05 436_[+1]_48 21390 3e-05 477_[+1]_7 bd1803 3.7e-05 223_[+1]_261 25531 4.6e-05 445_[+1]_39 23672 4.6e-05 426_[+1]_58 32933 6e-05 456_[+1]_28 24293 0.00017 185_[+1]_299 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=16 seqs=22 7508 ( 469) CTCACCCAACAACACC 1 31472 ( 203) CTCCACCAACCACCCC 1 22783 ( 485) CACAACCAACAACACA 1 35855 ( 400) CCCCCCCTAACACACC 1 263452 ( 461) CTCCCCCTCCAACTCC 1 23981 ( 423) CCCCTCCCACCACCCC 1 260939 ( 339) CTCAAAACACAACACA 1 3936 ( 270) CTCGACCAACAACCCC 1 24595 ( 465) CCCACAACACAACTCC 1 7727 ( 448) CCGCATCACCCACACA 1 25680 ( 470) CCGACCACACCACAAC 1 263374 ( 226) CACCATCCGCCACACA 1 35916 ( 470) CCCCCTCCGCCACGCC 1 24631 ( 333) CTCATCATACATCACT 1 8022 ( 480) CTCCCACATCCTCTCC 1 24537 ( 437) CAGCTCCTACAAGACC 1 21390 ( 478) CTGCCACAACCAAAAC 1 bd1803 ( 224) CTCACAATCCATCAAC 1 25531 ( 446) CTCAACCACGATCACT 1 23672 ( 427) ACTCATCCACCACACC 1 32933 ( 457) CTTCACAACAAACACT 1 24293 ( 186) CTCAAACAGAAAGAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 11640 bayes= 9.40033 E= 2.4e-002 -253 195 -1110 -1110 -95 37 -1110 106 -1110 156 -33 -153 64 115 -233 -1110 79 73 -1110 -94 5 115 -1110 -53 5 156 -1110 -1110 79 37 -1110 -21 117 -12 -74 -253 -95 173 -233 -1110 105 88 -1110 -1110 164 -1110 -1110 -53 -253 181 -133 -1110 137 -85 -233 -94 -53 173 -1110 -1110 -21 137 -1110 -94 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 22 E= 2.4e-002 0.045455 0.954545 0.000000 0.000000 0.136364 0.318182 0.000000 0.545455 0.000000 0.727273 0.181818 0.090909 0.409091 0.545455 0.045455 0.000000 0.454545 0.409091 0.000000 0.136364 0.272727 0.545455 0.000000 0.181818 0.272727 0.727273 0.000000 0.000000 0.454545 0.318182 0.000000 0.227273 0.590909 0.227273 0.136364 0.045455 0.136364 0.818182 0.045455 0.000000 0.545455 0.454545 0.000000 0.000000 0.818182 0.000000 0.000000 0.181818 0.045455 0.863636 0.090909 0.000000 0.681818 0.136364 0.045455 0.136364 0.181818 0.818182 0.000000 0.000000 0.227273 0.636364 0.000000 0.136364 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- C[TC]C[CA][AC][CA][CA][ACT][AC]C[AC]ACAC[CA] -------------------------------------------------------------------------------- Time 4.59 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 12 sites = 23 llr = 200 E-value = 2.6e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :5::3::3:122 pos.-specific C ::1:41::::52 probability G 829a:2819925 matrix T 23::37161:11 bits 2.1 * 1.9 * 1.7 ** * 1.5 ** ** Relative 1.3 * ** * ** Entropy 1.1 * ** * ** (12.5 bits) 0.9 * ** ** ** 0.6 * ** ***** 0.4 ********** * 0.2 ************ 0.0 ------------ Multilevel GAGGCTGTGGCG consensus T AG A GA sequence G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ 25531 484 8.53e-07 CTCTCACTCG GAGGATGTGGCA GCTTC 24631 172 1.94e-06 TGAAGGGAAT GAGGCTGTGGTG ATCAAAGTGA 23981 67 3.44e-06 ATGATGTGGA GAGGATGTGGGA GCAAGCCAGG 8022 107 4.74e-06 GTTTACAAGT GAGGATGTGGGC TCGGGGTGGT 7727 2 5.94e-06 G GAGGTTTTGGCG CGCTCAGGTC 35916 68 8.49e-06 GTACCATTGT GAGGCTGATGCG AAGAGAACGT 263452 133 1.19e-05 TTACGGCGGC GTGGCGGAGGGG GGCAGAAAGA 7508 236 1.36e-05 GTCGGAGCTG GAGGCTGAGGAC CCTCTCCTTT 23672 212 2.08e-05 CTACTTCACT TGGGTTGAGGCG CATCGTGACC 22807 396 2.08e-05 GATATGAACT GTGGCTGGGGTG TTCGAAGAGA 24293 366 2.25e-05 CCCAGGGCTC GGGGTGGGGGCG CTCTCCGTGA 32933 11 3.36e-05 TTGCTTCAAT GAGGCTGTTGGC GTCGTTCACG 22783 352 3.36e-05 GGTTTCTTGA GAGGCCGAGGCC GGTCCACACC 31472 87 3.66e-05 TACTCACGTG TTGGATGAGGCA CGAGGATTGA 35855 283 4.40e-05 TTTGTATCTA GTGGCTTTGGCT CGGTTGAGAT 3197 149 5.26e-05 AAAGGTTTTC GTCGTTGTGGAG CGAACAGCAA 260939 64 6.85e-05 TTCGTGGTCA GAGGTTATGGAG CGAGGGTCTC 263374 277 8.66e-05 CTCTCTACTC CAGGCGGTGGCA CCACCTTCGT 21390 356 1.09e-04 GAGAGTGCAC GGCGAGGTGGGG AGCTTCCAAG 24537 348 1.18e-04 CTACTTTGCC GGGGAGGGGGCT CGGTCGGGGA 3936 52 1.81e-04 GTTGATGGCG TTGGCCGTTGCG ATCGCGAGGG 24595 314 1.93e-04 ACTTGAAAAA TGGGATGTGACA TCTGATTATT 25680 337 2.83e-04 CGTGTCGGCG GTGGTTTTGAAG ACAACACTCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 25531 8.5e-07 483_[+2]_5 24631 1.9e-06 171_[+2]_317 23981 3.4e-06 66_[+2]_422 8022 4.7e-06 106_[+2]_382 7727 5.9e-06 1_[+2]_487 35916 8.5e-06 67_[+2]_421 263452 1.2e-05 132_[+2]_356 7508 1.4e-05 235_[+2]_253 23672 2.1e-05 211_[+2]_277 22807 2.1e-05 395_[+2]_93 24293 2.3e-05 365_[+2]_123 32933 3.4e-05 10_[+2]_478 22783 3.4e-05 351_[+2]_137 31472 3.7e-05 86_[+2]_402 35855 4.4e-05 282_[+2]_206 3197 5.3e-05 148_[+2]_340 260939 6.8e-05 63_[+2]_425 263374 8.7e-05 276_[+2]_212 21390 0.00011 355_[+2]_133 24537 0.00012 347_[+2]_141 3936 0.00018 51_[+2]_437 24595 0.00019 313_[+2]_175 25680 0.00028 336_[+2]_152 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=12 seqs=23 25531 ( 484) GAGGATGTGGCA 1 24631 ( 172) GAGGCTGTGGTG 1 23981 ( 67) GAGGATGTGGGA 1 8022 ( 107) GAGGATGTGGGC 1 7727 ( 2) GAGGTTTTGGCG 1 35916 ( 68) GAGGCTGATGCG 1 263452 ( 133) GTGGCGGAGGGG 1 7508 ( 236) GAGGCTGAGGAC 1 23672 ( 212) TGGGTTGAGGCG 1 22807 ( 396) GTGGCTGGGGTG 1 24293 ( 366) GGGGTGGGGGCG 1 32933 ( 11) GAGGCTGTTGGC 1 22783 ( 352) GAGGCCGAGGCC 1 31472 ( 87) TTGGATGAGGCA 1 35855 ( 283) GTGGCTTTGGCT 1 3197 ( 149) GTCGTTGTGGAG 1 260939 ( 64) GAGGTTATGGAG 1 263374 ( 277) CAGGCGGTGGCA 1 21390 ( 356) GGCGAGGTGGGG 1 24537 ( 348) GGGGAGGGGGCT 1 3936 ( 52) TTGGCCGTTGCG 1 24595 ( 314) TGGGATGTGACA 1 25680 ( 337) GTGGTTTTGAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 12 n= 11736 bayes= 9.3955 E= 2.6e-001 -1117 -250 178 -59 86 -1117 -7 21 -1117 -150 200 -1117 -1117 -1117 213 -1117 21 82 -1117 -1 -1117 -150 -7 141 -259 -1117 186 -101 -1 -1117 -81 121 -1117 -1117 193 -101 -160 -1117 200 -1117 -60 108 -7 -159 -28 -50 119 -159 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 12 nsites= 23 E= 2.6e-001 0.000000 0.043478 0.782609 0.173913 0.478261 0.000000 0.217391 0.304348 0.000000 0.086957 0.913043 0.000000 0.000000 0.000000 1.000000 0.000000 0.304348 0.434783 0.000000 0.260870 0.000000 0.086957 0.217391 0.695652 0.043478 0.000000 0.826087 0.130435 0.260870 0.000000 0.130435 0.608696 0.000000 0.000000 0.869565 0.130435 0.086957 0.000000 0.913043 0.000000 0.173913 0.521739 0.217391 0.086957 0.217391 0.173913 0.521739 0.086957 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- G[ATG]GG[CAT][TG]G[TA]GG[CG][GA] -------------------------------------------------------------------------------- Time 8.92 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 12 llr = 164 E-value = 5.1e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :6:8:33:612:953:122:4 pos.-specific C ::1:1:::2:2:1:1522311 probability G a381943a156a:4734329: matrix T :212:34:241::1:2344:5 bits 2.1 * * * 1.9 * * * 1.7 * * * * * 1.5 * * * ** * Relative 1.3 * * * * ** * Entropy 1.1 * * * * ** * (19.7 bits) 0.9 * *** * ** * * 0.6 ***** * * ***** ** 0.4 **************** ** 0.2 ****************** ** 0.0 --------------------- Multilevel GAGAGGTGAGGGAAGCGTTGT consensus G AG T GAGTGC A sequence TA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 22807 414 2.12e-12 GGTGTTCGAA GAGAGGTGAGGGAAGCTTTGT CCCAGGTGTT 8022 129 8.73e-09 TCGGGGTGGT GGGAGGGGCTGGAAGGGCTGA GAAGCTGGGA 25531 6 2.92e-08 TGCAC GTGTGATGTTGGAAGCGTTGT TGCGAAGCTC 3936 71 6.86e-08 GCGATCGCGA GGGAGATGAGGGAGGCGAGCT TCATCGTTTC 22783 127 1.62e-07 ATGGTTCGGC GAGAGTAGAGGGCGGTTCTGA AACGATGATG 24631 67 2.12e-07 CTTGTGGTTG GAGAGTTGAAGGAAACTTCGC TTGATCGTTG 7727 139 2.31e-07 ATGAAGCGCT GAGAGAGGCGAGAGAGTGAGA GAGTGAGAAG 24293 384 3.51e-07 GGCGCTCTCC GTGAGGGGATCGAACCCTCGA CCTCAAGATT 35916 135 1.30e-06 GTATTGGAAT GGTTGGAGTTGGAGGGGGAGT TCGGTTGTTA 21390 149 1.39e-06 TGGTCGTGTC GAGACTAGATCGAGATGTGGT AGAAATCACG 24537 130 1.48e-06 GACGAATGAG GAGGGAGGGGAGAAGCAGCGA ACGATTAGAC 25680 259 1.68e-06 CCCTAGTATC GACAGGTGAGTGATGGCATGT GAGGTCTGCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 22807 2.1e-12 413_[+3]_66 8022 8.7e-09 128_[+3]_351 25531 2.9e-08 5_[+3]_474 3936 6.9e-08 70_[+3]_409 22783 1.6e-07 126_[+3]_353 24631 2.1e-07 66_[+3]_413 7727 2.3e-07 138_[+3]_341 24293 3.5e-07 383_[+3]_96 35916 1.3e-06 134_[+3]_345 21390 1.4e-06 148_[+3]_331 24537 1.5e-06 129_[+3]_350 25680 1.7e-06 258_[+3]_221 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=12 22807 ( 414) GAGAGGTGAGGGAAGCTTTGT 1 8022 ( 129) GGGAGGGGCTGGAAGGGCTGA 1 25531 ( 6) GTGTGATGTTGGAAGCGTTGT 1 3936 ( 71) GGGAGATGAGGGAGGCGAGCT 1 22783 ( 127) GAGAGTAGAGGGCGGTTCTGA 1 24631 ( 67) GAGAGTTGAAGGAAACTTCGC 1 7727 ( 139) GAGAGAGGCGAGAGAGTGAGA 1 24293 ( 384) GTGAGGGGATCGAACCCTCGA 1 35916 ( 135) GGTTGGAGTTGGAGGGGGAGT 1 21390 ( 149) GAGACTAGATCGAGATGTGGT 1 24537 ( 130) GAGGGAGGGGAGAAGCAGCGA 1 25680 ( 259) GACAGGTGAGTGATGGCATGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 11520 bayes= 10.3532 E= 5.1e+000 -1023 -1023 213 -1023 115 -1023 13 -65 -1023 -156 187 -165 151 -1023 -145 -65 -1023 -156 201 -1023 34 -1023 87 -7 -7 -1023 55 67 -1023 -1023 213 -1023 115 -56 -145 -65 -166 -1023 113 67 -66 -56 135 -165 -1023 -1023 213 -1023 180 -156 -1023 -1023 92 -1023 87 -165 -7 -156 155 -1023 -1023 102 55 -65 -166 -56 87 34 -66 -56 13 67 -66 2 -45 67 -1023 -156 201 -1023 66 -156 -1023 93 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 12 E= 5.1e+000 0.000000 0.000000 1.000000 0.000000 0.583333 0.000000 0.250000 0.166667 0.000000 0.083333 0.833333 0.083333 0.750000 0.000000 0.083333 0.166667 0.000000 0.083333 0.916667 0.000000 0.333333 0.000000 0.416667 0.250000 0.250000 0.000000 0.333333 0.416667 0.000000 0.000000 1.000000 0.000000 0.583333 0.166667 0.083333 0.166667 0.083333 0.000000 0.500000 0.416667 0.166667 0.166667 0.583333 0.083333 0.000000 0.000000 1.000000 0.000000 0.916667 0.083333 0.000000 0.000000 0.500000 0.000000 0.416667 0.083333 0.250000 0.083333 0.666667 0.000000 0.000000 0.500000 0.333333 0.166667 0.083333 0.166667 0.416667 0.333333 0.166667 0.166667 0.250000 0.416667 0.166667 0.250000 0.166667 0.416667 0.000000 0.083333 0.916667 0.000000 0.416667 0.083333 0.000000 0.500000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- G[AG]GAG[GAT][TGA]GA[GT]GGA[AG][GA][CG][GT][TG][TC]G[TA] -------------------------------------------------------------------------------- Time 13.21 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 21390 5.98e-05 148_[+3(1.39e-06)]_308_\ [+1(2.95e-05)]_7 22783 6.95e-08 126_[+3(1.62e-07)]_204_\ [+2(3.36e-05)]_121_[+1(4.23e-07)] 22807 3.39e-09 395_[+2(2.08e-05)]_6_[+3(2.12e-12)]_\ 66 23672 9.11e-03 211_[+2(2.08e-05)]_203_\ [+1(4.57e-05)]_58 23981 5.44e-05 66_[+2(3.44e-06)]_344_\ [+1(1.03e-06)]_62 24293 2.10e-05 365_[+2(2.25e-05)]_6_[+3(3.51e-07)]_\ 96 24537 6.76e-05 129_[+3(1.48e-06)]_286_\ [+1(2.95e-05)]_48 24595 7.60e-03 464_[+1(3.94e-06)]_20 24631 2.75e-07 66_[+3(2.12e-07)]_84_[+2(1.94e-06)]_\ 149_[+1(2.54e-05)]_152 25531 3.63e-08 5_[+3(2.92e-08)]_387_[+3(7.18e-05)]_\ 11_[+1(4.57e-05)]_22_[+2(8.53e-07)]_5 25680 4.14e-05 258_[+3(1.68e-06)]_190_\ [+1(6.41e-06)]_15 260939 4.87e-04 63_[+2(6.85e-05)]_263_\ [+1(1.31e-06)]_146 263374 8.05e-03 225_[+1(9.29e-06)]_35_\ [+2(8.66e-05)]_212 263452 9.03e-05 132_[+2(1.19e-05)]_316_\ [+1(7.23e-07)]_24 31472 3.91e-05 86_[+2(3.66e-05)]_104_\ [+1(5.12e-08)]_124_[+1(5.25e-05)]_142 3197 2.57e-01 148_[+2(5.26e-05)]_340 32933 1.53e-02 10_[+2(3.36e-05)]_434_\ [+1(6.01e-05)]_28 35855 2.08e-04 282_[+2(4.40e-05)]_105_\ [+1(5.48e-07)]_85 35916 3.46e-06 67_[+2(8.49e-06)]_55_[+3(1.30e-06)]_\ 314_[+1(1.57e-05)]_15 3936 5.40e-07 70_[+3(6.86e-08)]_178_\ [+1(1.84e-06)]_185_[+1(8.81e-05)]_14 7508 9.95e-07 235_[+2(1.36e-05)]_221_\ [+1(2.67e-09)]_16 7727 2.36e-07 1_[+2(5.94e-06)]_125_[+3(2.31e-07)]_\ 288_[+1(6.41e-06)]_37 8022 3.63e-08 106_[+2(4.74e-06)]_10_\ [+3(8.73e-09)]_330_[+1(2.74e-05)]_5 bd1803 2.23e-01 223_[+1(3.69e-05)]_261 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************