******************************************************************************** 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/30/30.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10881 1.0000 500 11325 1.0000 500 12153 1.0000 500 1383 1.0000 500 20921 1.0000 500 24233 1.0000 500 25773 1.0000 500 261690 1.0000 500 26212 1.0000 500 262762 1.0000 500 263431 1.0000 500 263724 1.0000 500 263781 1.0000 500 264275 1.0000 500 268266 1.0000 500 32096 1.0000 500 3577 1.0000 500 36494 1.0000 500 38240 1.0000 500 4961 1.0000 500 6056 1.0000 500 6595 1.0000 500 9000 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/30/30.seqs.fa -oc motifs/30 -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= 23 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= 11500 N= 23 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.238 C 0.226 G 0.265 T 0.271 Background letter frequencies (from dataset with add-one prior applied): A 0.238 C 0.226 G 0.265 T 0.271 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 21 sites = 18 llr = 225 E-value = 5.6e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 1:112:::33:311:2::313 pos.-specific C 69414548524758:874176 probability G 11:1:121::::1:::2:1:: matrix T 21474442246131a:16522 bits 2.1 1.9 * 1.7 * 1.5 * * Relative 1.3 * *** Entropy 1.1 * * ** ***** (18.0 bits) 0.9 * * * ** ***** * 0.6 ***** ** ** ***** ** 0.4 ********************* 0.2 ********************* 0.0 --------------------- Multilevel CCCTCCCCCTTCCCTCCTTCC consensus T T TTT AACAT AGCATA sequence G C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 263724 445 2.48e-09 ACAGTTTTCC CCTTTTCCCTCCTCTCCCTCT TCAGCTTCCT 263431 192 4.55e-09 GTCACCTCAC CCTTCCCCTTCCGCTCCCTCC GCTGACAGCT 12153 205 6.09e-09 ATTGTCATCT CCCTTCTCCTTCCCTCGCACT GACATAGATG 4961 476 1.80e-08 CTGGTCAACT CCTTATTCTCTCTCTCCCTCC CAGC 32096 465 2.05e-08 GTCCTCAGCC TCCTTCTCCCTCTCTCCTATC TTATTTCTCT 38240 392 6.05e-08 CCTCGTTCCT CCCGCGGCCTCCCCTCCCTCC CTCGGTCGGC 1383 475 1.61e-07 TAAGTTGGAT CCTTCTCTCATCCCTACTAAC CAATC 36494 382 4.28e-07 GTCCAATACC TCTTCTCCACTCTCTCCTGTC TACCACCACC 26212 445 4.28e-07 GCCAATGAAT CCTTCCCCAACACCTCTCCCA CACAGATCAA 10881 376 8.75e-07 CCTCTCTATT CTCTCTTCAACAACTCCTTCC TCTGTACACT 3577 355 2.69e-06 CATAATCCAC CCCTTTTCATTACATAGTACA AACTCAAAAT 268266 406 2.69e-06 CTTTGCTCCA GCTCACTCAACACCTCGCTCA AGATCCTAAA 264275 447 2.89e-06 TATGAAGCAA TCCATCGTCATCTCTACCACC AGAGCATTCG 262762 352 3.87e-06 CATATTGGAT ACATATTCTTTCTCTACTTTC CTTTCTTTTT 6595 393 4.77e-06 TGTTTGGTTG CCACTTCCCTTTGCTCCTTCT CGCTAATCTT 24233 475 6.26e-06 CCTACCATAT TGCGCCGCCACCCCTCCTAAA TAATC 25773 289 7.14e-06 GAACAGGAAC ACCTCCGGCCTCCTTCCTCCA AGCTTGCTAT 261690 377 9.82e-06 CACGTCTATT GCTTTCCTATCACTTCGTTTC AATCAATTCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 263724 2.5e-09 444_[+1]_35 263431 4.6e-09 191_[+1]_288 12153 6.1e-09 204_[+1]_275 4961 1.8e-08 475_[+1]_4 32096 2.1e-08 464_[+1]_15 38240 6.1e-08 391_[+1]_88 1383 1.6e-07 474_[+1]_5 36494 4.3e-07 381_[+1]_98 26212 4.3e-07 444_[+1]_35 10881 8.7e-07 375_[+1]_104 3577 2.7e-06 354_[+1]_125 268266 2.7e-06 405_[+1]_74 264275 2.9e-06 446_[+1]_33 262762 3.9e-06 351_[+1]_128 6595 4.8e-06 392_[+1]_87 24233 6.3e-06 474_[+1]_5 25773 7.1e-06 288_[+1]_191 261690 9.8e-06 376_[+1]_103 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=21 seqs=18 263724 ( 445) CCTTTTCCCTCCTCTCCCTCT 1 263431 ( 192) CCTTCCCCTTCCGCTCCCTCC 1 12153 ( 205) CCCTTCTCCTTCCCTCGCACT 1 4961 ( 476) CCTTATTCTCTCTCTCCCTCC 1 32096 ( 465) TCCTTCTCCCTCTCTCCTATC 1 38240 ( 392) CCCGCGGCCTCCCCTCCCTCC 1 1383 ( 475) CCTTCTCTCATCCCTACTAAC 1 36494 ( 382) TCTTCTCCACTCTCTCCTGTC 1 26212 ( 445) CCTTCCCCAACACCTCTCCCA 1 10881 ( 376) CTCTCTTCAACAACTCCTTCC 1 3577 ( 355) CCCTTTTCATTACATAGTACA 1 268266 ( 406) GCTCACTCAACACCTCGCTCA 1 264275 ( 447) TCCATCGTCATCTCTACCACC 1 262762 ( 352) ACATATTCTTTCTCTACTTTC 1 6595 ( 393) CCACTTCCCTTTGCTCCTTCT 1 24233 ( 475) TGCGCCGCCACCCCTCCTAAA 1 25773 ( 289) ACCTCCGGCCTCCTTCCTCCA 1 261690 ( 377) GCTTTCCTATCACTTCGTTTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 11040 bayes= 10.664 E= 5.6e-005 -110 130 -125 -29 -1081 197 -225 -229 -110 97 -1081 71 -210 -102 -125 141 -51 97 -1081 52 -1081 114 -225 71 -1081 78 -25 52 -1081 178 -225 -70 49 114 -1081 -70 49 -3 -1081 71 -1081 97 -1081 103 22 156 -1081 -229 -210 114 -125 30 -210 188 -1081 -129 -1081 -1081 -1081 188 -10 178 -1081 -1081 -1081 167 -25 -229 -1081 97 -1081 103 49 -102 -225 88 -110 156 -1081 -29 22 130 -1081 -70 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 18 E= 5.6e-005 0.111111 0.555556 0.111111 0.222222 0.000000 0.888889 0.055556 0.055556 0.111111 0.444444 0.000000 0.444444 0.055556 0.111111 0.111111 0.722222 0.166667 0.444444 0.000000 0.388889 0.000000 0.500000 0.055556 0.444444 0.000000 0.388889 0.222222 0.388889 0.000000 0.777778 0.055556 0.166667 0.333333 0.500000 0.000000 0.166667 0.333333 0.222222 0.000000 0.444444 0.000000 0.444444 0.000000 0.555556 0.277778 0.666667 0.000000 0.055556 0.055556 0.500000 0.111111 0.333333 0.055556 0.833333 0.000000 0.111111 0.000000 0.000000 0.000000 1.000000 0.222222 0.777778 0.000000 0.000000 0.000000 0.722222 0.222222 0.055556 0.000000 0.444444 0.000000 0.555556 0.333333 0.111111 0.055556 0.500000 0.111111 0.666667 0.000000 0.222222 0.277778 0.555556 0.000000 0.166667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [CT]C[CT]T[CT][CT][CTG]C[CA][TAC][TC][CA][CT]CT[CA][CG][TC][TA][CT][CA] -------------------------------------------------------------------------------- Time 5.26 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 21 sites = 23 llr = 239 E-value = 4.8e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 421::21:1:61:7:38:232 pos.-specific C :2212:1:3::3:14::1::: probability G 163465171922a157:7857 matrix T 5:4423624:23:1::23:22 bits 2.1 1.9 * 1.7 * 1.5 * * Relative 1.3 * * * * Entropy 1.1 * * ** * (15.0 bits) 0.9 * * * *** * 0.6 * * * ** ******* * 0.4 ** ***** ** ******* * 0.2 ********************* 0.0 --------------------- Multilevel TGTGGGTGTGACGAGGAGGGG consensus ACGTCT TC TT CA T A sequence TA G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 6595 359 1.95e-10 TTCATGTATC TGTGGGTGTGACGACAAGGAG AACTGTTTGG 38240 196 1.34e-09 ATAAGGCTTG AGGGGGGGCGACGACGAGGGG AGAGACAACA 32096 270 9.20e-08 AGGAGGTTTA TGAGGTTGTGTTGAGAAGGGG TCAGAGGCGA 10881 227 1.05e-06 TGTTCGGCGT TGGTGGTTTGACGAAGAGGAT CACGAGGTTC 263724 220 1.63e-06 GTGGGTGTGA TGTTCTTGCGGCGAGATGGTG ATGGAGAGAG 20921 130 1.82e-06 TGAACATGCA AAGGGTTGTGTTGAGAAGATG CAACAACAAC 262762 158 2.02e-06 TGATGGCTGA TGGGTGAGCGGCGAGGAGGCG GCAGCACCGC 263781 336 2.48e-06 GCGGTGGAGG AGCTTGTGGGAGGAGGAGAGT CGGCGGGAGG 26212 330 4.09e-06 TGGTATTTCA ACTGGTTGGGATGCGATGGGG TTGGTGTAAC 1383 79 4.50e-06 CTTGTTTTGC TCCGCGTTTGATGACGACGGT GTGGTGAGGA 36494 134 5.44e-06 TTTTCCTTCG AGCTGGGGCGTAGCGGAGGAG GGCATGATGC 9000 374 5.97e-06 TATGTAGTGG AGTGGTGGCGACGGCGACGTG TTGTCACGTT 6056 301 7.83e-06 TGTTCATCGT AGGCGACGAGACGAGGATGGA GTTCCTCTTC 25773 116 7.83e-06 GACGGCAGCT TCGTCATGTGAGGTGGATGGA CGATCGATGC 24233 230 8.56e-06 TCTCGGCCTC ACCTGACGTGAGGACGTTGAG GTGAGAGGTG 11325 479 8.56e-06 TGGTTGTTGG TGTGCGTGTGGAGACAAGATA T 263431 311 1.82e-05 TGAGTGTTAA GCTTTGAACGATGACGATGGG CGTGCTTTGA 268266 450 1.97e-05 ATCGAGCTTG TGTCCGTGTGTTGTCGTTGGG GAAACGTTTA 12153 78 2.30e-05 AGTATGTTTA AAGGTGTTGGGGGAGGAGGAT ATTATGATAG 3577 219 2.67e-05 ACGTCGAGGC GATTGTTGCCACGGCGAGGAG GATAAGGACG 264275 140 3.58e-05 ATTCTTGAAG TGGAGAATAGAGGAGAAGGTG GATAGTATTC 261690 20 4.73e-05 TTGGGGCAGC TTTTTGTTTTATGAGAATGGG ATGAGTTGGC 4961 419 1.87e-04 ATTTGGATTT GAATGACGCGTTGCCGAGAGA ACCTCTTCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 6595 2e-10 358_[+2]_121 38240 1.3e-09 195_[+2]_284 32096 9.2e-08 269_[+2]_210 10881 1e-06 226_[+2]_253 263724 1.6e-06 219_[+2]_260 20921 1.8e-06 129_[+2]_350 262762 2e-06 157_[+2]_322 263781 2.5e-06 335_[+2]_144 26212 4.1e-06 329_[+2]_150 1383 4.5e-06 78_[+2]_401 36494 5.4e-06 133_[+2]_346 9000 6e-06 373_[+2]_106 6056 7.8e-06 300_[+2]_179 25773 7.8e-06 115_[+2]_364 24233 8.6e-06 229_[+2]_250 11325 8.6e-06 478_[+2]_1 263431 1.8e-05 310_[+2]_169 268266 2e-05 449_[+2]_30 12153 2.3e-05 77_[+2]_402 3577 2.7e-05 218_[+2]_261 264275 3.6e-05 139_[+2]_340 261690 4.7e-05 19_[+2]_460 4961 0.00019 418_[+2]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=21 seqs=23 6595 ( 359) TGTGGGTGTGACGACAAGGAG 1 38240 ( 196) AGGGGGGGCGACGACGAGGGG 1 32096 ( 270) TGAGGTTGTGTTGAGAAGGGG 1 10881 ( 227) TGGTGGTTTGACGAAGAGGAT 1 263724 ( 220) TGTTCTTGCGGCGAGATGGTG 1 20921 ( 130) AAGGGTTGTGTTGAGAAGATG 1 262762 ( 158) TGGGTGAGCGGCGAGGAGGCG 1 263781 ( 336) AGCTTGTGGGAGGAGGAGAGT 1 26212 ( 330) ACTGGTTGGGATGCGATGGGG 1 1383 ( 79) TCCGCGTTTGATGACGACGGT 1 36494 ( 134) AGCTGGGGCGTAGCGGAGGAG 1 9000 ( 374) AGTGGTGGCGACGGCGACGTG 1 6056 ( 301) AGGCGACGAGACGAGGATGGA 1 25773 ( 116) TCGTCATGTGAGGTGGATGGA 1 24233 ( 230) ACCTGACGTGAGGACGTTGAG 1 11325 ( 479) TGTGCGTGTGGAGACAAGATA 1 263431 ( 311) GCTTTGAACGATGACGATGGG 1 268266 ( 450) TGTCCGTGTGTTGTCGTTGGG 1 12153 ( 78) AAGGTGTTGGGGGAGGAGGAT 1 3577 ( 219) GATTGTTGCCACGGCGAGGAG 1 264275 ( 140) TGGAGAATAGAGGAGAAGGTG 1 261690 ( 20) TTTTTGTTTTATGAGAATGGG 1 4961 ( 419) GAATGACGCGTTGCCGAGAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 11040 bayes= 8.90388 E= 4.8e-002 72 -1117 -102 82 -45 -6 109 -264 -145 -38 39 53 -245 -138 72 68 -1117 -6 109 -32 -13 -1117 98 -6 -87 -79 -102 117 -245 -1117 148 -32 -145 62 -102 68 -1117 -238 179 -264 136 -1117 -61 -32 -145 62 -28 36 -1117 -1117 192 -1117 155 -79 -160 -164 -245 94 98 -1117 55 -1117 130 -1117 180 -1117 -1117 -64 -1117 -138 130 -6 -45 -1117 164 -1117 13 -238 85 -32 -45 -1117 130 -64 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 23 E= 4.8e-002 0.391304 0.000000 0.130435 0.478261 0.173913 0.217391 0.565217 0.043478 0.086957 0.173913 0.347826 0.391304 0.043478 0.086957 0.434783 0.434783 0.000000 0.217391 0.565217 0.217391 0.217391 0.000000 0.521739 0.260870 0.130435 0.130435 0.130435 0.608696 0.043478 0.000000 0.739130 0.217391 0.086957 0.347826 0.130435 0.434783 0.000000 0.043478 0.913043 0.043478 0.608696 0.000000 0.173913 0.217391 0.086957 0.347826 0.217391 0.347826 0.000000 0.000000 1.000000 0.000000 0.695652 0.130435 0.086957 0.086957 0.043478 0.434783 0.521739 0.000000 0.347826 0.000000 0.652174 0.000000 0.826087 0.000000 0.000000 0.173913 0.000000 0.086957 0.652174 0.260870 0.173913 0.000000 0.826087 0.000000 0.260870 0.043478 0.478261 0.217391 0.173913 0.000000 0.652174 0.173913 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [TA][GC][TG][GT][GCT][GTA]T[GT][TC]G[AT][CTG]GA[GC][GA]A[GT]G[GAT]G -------------------------------------------------------------------------------- Time 10.31 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 20 sites = 9 llr = 143 E-value = 8.8e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :88:87366739:26:9229 pos.-specific C a128:37243618246138: probability G :::::::2::1:26:1:2:1 matrix T :1:22::::::::::3:2:: bits 2.1 * 1.9 * 1.7 * 1.5 * * * * Relative 1.3 * *** * ** * ** Entropy 1.1 ******* ** ** * * ** (23.0 bits) 0.9 ******* ** ** * * ** 0.6 ***************** ** 0.4 ***************** ** 0.2 ***************** ** 0.0 -------------------- Multilevel CAACAACAAACACGACACCA consensus CTTCACCCA GACT AA sequence G C G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------- 263781 46 1.23e-10 CAGGACTTGT CAACTACAAACACGATACCA TTTTGCATGA 263431 445 2.46e-09 TAGGCTCTGC CAATACAACACACGATACCA CCACAAAGAC 20921 160 3.40e-09 GCAACAACAA CAACAACGAACAGGCCACAA CCACTGTCGA 26212 63 4.87e-09 GGCCAAGCTC CAACAACGCCCACGAGAGCA ACCACCATGT 10881 444 2.36e-08 CTGACCCCGG CAACACCACCACCAACATCA TCGTTAAGCG 9000 143 6.25e-08 CCATCAATGT CAACTCCCAACACCCCATCG TCTTGTTCGT 36494 340 7.74e-08 CCTTCTTCAA CCCTAACCCAAACGCCAGCA GACCCCCCGA 4961 375 1.17e-07 ACAAAGGCTC CAACAAAAAAGACCCCCAAA ATTCTACTTA 25773 481 3.14e-07 AACCGCAGAT CTCCAAAAACAAGAATAACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 263781 1.2e-10 45_[+3]_435 263431 2.5e-09 444_[+3]_36 20921 3.4e-09 159_[+3]_321 26212 4.9e-09 62_[+3]_418 10881 2.4e-08 443_[+3]_37 9000 6.3e-08 142_[+3]_338 36494 7.7e-08 339_[+3]_141 4961 1.2e-07 374_[+3]_106 25773 3.1e-07 480_[+3] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=20 seqs=9 263781 ( 46) CAACTACAAACACGATACCA 1 263431 ( 445) CAATACAACACACGATACCA 1 20921 ( 160) CAACAACGAACAGGCCACAA 1 26212 ( 63) CAACAACGCCCACGAGAGCA 1 10881 ( 444) CAACACCACCACCAACATCA 1 9000 ( 143) CAACTCCCAACACCCCATCG 1 36494 ( 340) CCCTAACCCAAACGCCAGCA 1 4961 ( 375) CAACAAAAAAGACCCCCAAA 1 25773 ( 481) CTCCAAAAACAAGAATAACA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 20 n= 11063 bayes= 11.1109 E= 8.8e-002 -982 214 -982 -982 171 -102 -982 -129 171 -3 -982 -982 -982 178 -982 -29 171 -982 -982 -29 149 56 -982 -982 49 156 -982 -982 122 -3 -25 -982 122 97 -982 -982 149 56 -982 -982 49 130 -125 -982 190 -102 -982 -982 -982 178 -25 -982 -10 -3 107 -982 122 97 -982 -982 -982 130 -125 30 190 -102 -982 -982 -10 56 -25 -29 -10 178 -982 -982 190 -982 -125 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 20 nsites= 9 E= 8.8e-002 0.000000 1.000000 0.000000 0.000000 0.777778 0.111111 0.000000 0.111111 0.777778 0.222222 0.000000 0.000000 0.000000 0.777778 0.000000 0.222222 0.777778 0.000000 0.000000 0.222222 0.666667 0.333333 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.555556 0.222222 0.222222 0.000000 0.555556 0.444444 0.000000 0.000000 0.666667 0.333333 0.000000 0.000000 0.333333 0.555556 0.111111 0.000000 0.888889 0.111111 0.000000 0.000000 0.000000 0.777778 0.222222 0.000000 0.222222 0.222222 0.555556 0.000000 0.555556 0.444444 0.000000 0.000000 0.000000 0.555556 0.111111 0.333333 0.888889 0.111111 0.000000 0.000000 0.222222 0.333333 0.222222 0.222222 0.222222 0.777778 0.000000 0.000000 0.888889 0.000000 0.111111 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- CA[AC][CT][AT][AC][CA][ACG][AC][AC][CA]A[CG][GAC][AC][CT]A[CAGT][CA]A -------------------------------------------------------------------------------- Time 15.12 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10881 9.24e-10 226_[+2(1.05e-06)]_128_\ [+1(8.75e-07)]_47_[+3(2.36e-08)]_37 11325 4.62e-02 478_[+2(8.56e-06)]_1 12153 1.70e-06 77_[+2(2.30e-05)]_106_\ [+1(6.09e-09)]_275 1383 2.00e-05 78_[+2(4.50e-06)]_223_\ [+1(1.25e-05)]_131_[+1(1.61e-07)]_5 20921 1.39e-07 129_[+2(1.82e-06)]_9_[+3(3.40e-09)]_\ 321 24233 9.02e-04 229_[+2(8.56e-06)]_224_\ [+1(6.26e-06)]_5 25773 4.32e-07 115_[+2(7.83e-06)]_152_\ [+1(7.14e-06)]_171_[+3(3.14e-07)] 261690 3.73e-03 19_[+2(4.73e-05)]_336_\ [+1(9.82e-06)]_103 26212 3.89e-10 62_[+3(4.87e-09)]_247_\ [+2(4.09e-06)]_94_[+1(4.28e-07)]_35 262762 1.82e-04 157_[+2(2.02e-06)]_173_\ [+1(3.87e-06)]_128 263431 1.18e-11 191_[+1(4.55e-09)]_98_\ [+2(1.82e-05)]_113_[+3(2.46e-09)]_[+3(4.48e-05)]_16 263724 1.99e-07 219_[+2(1.63e-06)]_204_\ [+1(2.48e-09)]_35 263781 1.20e-08 45_[+3(1.23e-10)]_270_\ [+2(2.48e-06)]_110_[+3(1.06e-06)]_14 264275 7.43e-04 139_[+2(3.58e-05)]_286_\ [+1(2.89e-06)]_33 268266 9.32e-05 405_[+1(2.69e-06)]_23_\ [+2(1.97e-05)]_30 32096 4.74e-08 269_[+2(9.20e-08)]_174_\ [+1(2.05e-08)]_15 3577 1.05e-03 218_[+2(2.67e-05)]_115_\ [+1(2.69e-06)]_125 36494 6.56e-09 133_[+2(5.44e-06)]_185_\ [+3(7.74e-08)]_22_[+1(4.28e-07)]_98 38240 3.02e-09 195_[+2(1.34e-09)]_175_\ [+1(6.05e-08)]_88 4961 1.30e-08 374_[+3(1.17e-07)]_81_\ [+1(1.80e-08)]_4 6056 1.04e-02 300_[+2(7.83e-06)]_179 6595 3.50e-08 291_[+2(7.16e-06)]_46_\ [+2(1.95e-10)]_13_[+1(4.77e-06)]_87 9000 4.12e-06 142_[+3(6.25e-08)]_211_\ [+2(5.97e-06)]_106 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************