******************************************************************************** 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/241/241.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 10252 1.0000 500 10254 1.0000 500 1302 1.0000 500 13572 1.0000 500 19601 1.0000 500 20877 1.0000 500 21139 1.0000 500 21519 1.0000 500 21612 1.0000 500 23526 1.0000 500 23534 1.0000 500 24037 1.0000 500 24503 1.0000 500 24780 1.0000 500 25028 1.0000 500 25599 1.0000 500 25868 1.0000 500 260874 1.0000 500 262431 1.0000 500 262934 1.0000 500 263880 1.0000 500 29232 1.0000 500 30915 1.0000 500 32477 1.0000 500 4330 1.0000 500 5154 1.0000 500 5882 1.0000 500 6555 1.0000 500 6607 1.0000 500 8157 1.0000 500 ThpsCp125 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/241/241.seqs.fa -oc motifs/241 -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= 31 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= 15500 N= 31 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.269 C 0.228 G 0.233 T 0.271 Background letter frequencies (from dataset with add-one prior applied): A 0.269 C 0.228 G 0.233 T 0.271 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 21 sites = 21 llr = 262 E-value = 2.2e-009 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 552553239:15:1631a217 pos.-specific C 417325671292581:9:393 probability G :1:1:::::::211::::::: matrix T 1211322::8:14:27::4:: 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 AACAACCCATCACCATCATCA consensus CT CTAAA T TA C C sequence CT A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 23534 455 8.93e-11 GTACGCTAGC CACCACCCATCATCATCACCC CCCACAACCT 6607 427 1.35e-09 CGACACGCAT CTCCATCCATCACCATCACCC ATTCACCATG 24503 401 5.20e-09 CACCGCCCTC CACAACCCCTCTCCATCAACA CCGACCGACG 21139 254 5.20e-09 GATGAAACCT CACATCCAATCGTCAACATCA TACAACAATT 24780 474 1.93e-07 GAACCACAGA AGATATCCATCATCATCATCA CTTCAC 263880 462 2.92e-07 CTTTGTAACC AACAACCAACCACACACATCC GTGCACCCCC 13572 462 2.92e-07 CTTTGTAACC AACAACCAACCACACACATCC GTGCACCCCC 21519 11 4.35e-07 ATCAAGCATG CCTACACCATCGTCTTCATCA TCTCTATTAG 8157 464 6.97e-07 AATCGACAGT TTCAACACATTATCATCAACA TCTCATTCCA 4330 477 7.64e-07 CGGCCTCGCT CCTCACCCATCACCAACCTCA TGC 6555 13 9.99e-07 AAATTCTGTG CTCGTTTAATCGCCCTCACCA CATCCTCAGC 5882 446 9.99e-07 CGACAAAAAC AAAATCACATCCCGTACACCA CTTCCAACCG 25028 472 9.99e-07 CTGCTCTCCG AACCACAAATCCTCTTAACCC GCCTAACC 25599 465 1.29e-06 AGTACGCCTC AACATTCAACACTCATCACCC AGCATATCAT 1302 11 1.29e-06 TCCATCGGCA TCATCATCATCACCATCATCA TCAAATACAA 10252 478 1.53e-06 CATTGTCGTG AGCAAACCCTCCCATACATCA TC 5154 178 2.29e-06 TGTGACGCGA CACACAACATCGCCGTCAAAA ATGCTGAATT 21612 460 4.51e-06 CGCTGACTAC AACCTACAATATTGATCAACA GTCTGCACAT 32477 312 5.19e-06 ACGGGAAGCT TTCGCTTCACCAGCAACATCA GCTCGCGAAG 262431 63 1.07e-05 TATGACGGCC ATCGCCACCTCTCCATCAATC TCTTCATATA 23526 226 2.53e-05 ACTATTATAG AAACTATCATCAGCTTAACAA AAGTACCTCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 23534 8.9e-11 454_[+1]_25 6607 1.3e-09 426_[+1]_53 24503 5.2e-09 400_[+1]_79 21139 5.2e-09 253_[+1]_226 24780 1.9e-07 473_[+1]_6 263880 2.9e-07 461_[+1]_18 13572 2.9e-07 461_[+1]_18 21519 4.3e-07 10_[+1]_469 8157 7e-07 463_[+1]_16 4330 7.6e-07 476_[+1]_3 6555 1e-06 12_[+1]_467 5882 1e-06 445_[+1]_34 25028 1e-06 471_[+1]_8 25599 1.3e-06 464_[+1]_15 1302 1.3e-06 10_[+1]_469 10252 1.5e-06 477_[+1]_2 5154 2.3e-06 177_[+1]_302 21612 4.5e-06 459_[+1]_20 32477 5.2e-06 311_[+1]_168 262431 1.1e-05 62_[+1]_417 23526 2.5e-05 225_[+1]_254 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=21 seqs=21 23534 ( 455) CACCACCCATCATCATCACCC 1 6607 ( 427) CTCCATCCATCACCATCACCC 1 24503 ( 401) CACAACCCCTCTCCATCAACA 1 21139 ( 254) CACATCCAATCGTCAACATCA 1 24780 ( 474) AGATATCCATCATCATCATCA 1 263880 ( 462) AACAACCAACCACACACATCC 1 13572 ( 462) AACAACCAACCACACACATCC 1 21519 ( 11) CCTACACCATCGTCTTCATCA 1 8157 ( 464) TTCAACACATTATCATCAACA 1 4330 ( 477) CCTCACCCATCACCAACCTCA 1 6555 ( 13) CTCGTTTAATCGCCCTCACCA 1 5882 ( 446) AAAATCACATCCCGTACACCA 1 25028 ( 472) AACCACAAATCCTCTTAACCC 1 25599 ( 465) AACATTCAACACTCATCACCC 1 1302 ( 11) TCATCATCATCACCATCATCA 1 10252 ( 478) AGCAAACCCTCCCATACATCA 1 5154 ( 178) CACACAACATCGCCGTCAAAA 1 21612 ( 460) AACCTACAATATTGATCAACA 1 32477 ( 312) TTCGCTTCACCAGCAACATCA 1 262431 ( 63) ATCGCCACCTCTCCATCAATC 1 23526 ( 226) AAACTATCATCAGCTTAACAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 14880 bayes= 10.4541 E= 2.2e-009 83 74 -1104 -92 96 -67 -129 -19 -50 165 -1104 -151 83 33 -71 -151 83 6 -1104 8 9 106 -1104 -19 -17 133 -1104 -51 31 155 -1104 -1104 167 -67 -1104 -1104 -1104 -26 -1104 158 -149 191 -1104 -250 83 -26 -29 -92 -1104 120 -129 49 -91 174 -129 -1104 109 -67 -229 -19 31 -1104 -1104 130 -149 199 -1104 -1104 183 -225 -1104 -1104 -17 55 -1104 66 -149 191 -1104 -250 131 55 -1104 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 21 E= 2.2e-009 0.476190 0.380952 0.000000 0.142857 0.523810 0.142857 0.095238 0.238095 0.190476 0.714286 0.000000 0.095238 0.476190 0.285714 0.142857 0.095238 0.476190 0.238095 0.000000 0.285714 0.285714 0.476190 0.000000 0.238095 0.238095 0.571429 0.000000 0.190476 0.333333 0.666667 0.000000 0.000000 0.857143 0.142857 0.000000 0.000000 0.000000 0.190476 0.000000 0.809524 0.095238 0.857143 0.000000 0.047619 0.476190 0.190476 0.190476 0.142857 0.000000 0.523810 0.095238 0.380952 0.142857 0.761905 0.095238 0.000000 0.571429 0.142857 0.047619 0.238095 0.333333 0.000000 0.000000 0.666667 0.095238 0.904762 0.000000 0.000000 0.952381 0.047619 0.000000 0.000000 0.238095 0.333333 0.000000 0.428571 0.095238 0.857143 0.000000 0.047619 0.666667 0.333333 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [AC][AT]C[AC][ATC][CAT][CA][CA]ATCA[CT]C[AT][TA]CA[TCA]C[AC] -------------------------------------------------------------------------------- Time 8.21 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 16 sites = 25 llr = 260 E-value = 1.7e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 2::2:12:531:4:31 pos.-specific C ::1::11:2::::::: probability G 2723a2:a3198:854 matrix T 6365:68::6:26125 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 TGTTGTTGATGGTGGT consensus ATGG GA TA AG sequence G A C T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------------- 6555 142 1.58e-09 CCAGCGTTGT TGTTGTTGGTGGTGGT GACAGTGGTG 263880 317 1.25e-07 AGATCTTTGC GGTGGTTGAAGGAGGT AGCCGAAGAA 13572 317 1.25e-07 AGATCTTTGC GGTGGTTGAAGGAGGT AGCCGAAGAA 23526 117 1.75e-07 GTTGGATAGC TGTGGTTGATGGTTGT TTGTTATGTT 260874 60 4.68e-07 GAGTTGGTGT TGTAGTAGAAGGTGGG TTTGCTTCCT 24037 333 4.68e-07 GAGCTTCGTG AGTTGTTGGAGGAGAG TGGACAAGAG 19601 242 5.31e-07 GGTGCTCATG TTTGGGTGGTGGTGGT TAGATGAGAA 10254 343 8.89e-07 AGTGCACGGA GTTTGGTGGTGGTGGT TGATGCGGTG 5882 143 1.44e-06 TTGCACTGTA GGTTGTTGATGGTAGT AGATGGGCTG 25868 367 1.44e-06 GTGTTTGTGA TGGGGATGGTGGTGAT GTGTATGATG 262431 188 4.15e-06 CTAGTAAACT TTGGGTCGATGGTGAT TTCACACTGA 6607 274 6.08e-06 ATGTGAGTGA TGTTGATGCTGCTGGT ACATCATATT 1302 145 8.01e-06 TTGGTTGCGG TGAAGTTGAGGGTGGT CGGAGGCAGC 21612 315 1.04e-05 TCCACTACGA TGTTGTTGATGGTCTA CCGCGGTGCC 262934 434 1.14e-05 CTGCCGGTAG TGTAGTAGCAGGTTGG GATCGTAGGG 25028 290 1.14e-05 CATTGCGGTG GTGTGGTGGTGGAGTG GCTTCGGCTT 10252 46 1.14e-05 TGTGCGTGTG ATGTGTTGATGGATAG GGCGATGATG 23534 208 1.86e-05 AGCGACAGCC TGCTTTTGCTGGAGGG AATGATGTCG 20877 336 1.86e-05 TCGTCCTTTG CGTTGCTGATGTTGAG AGGATAGTTT 29232 125 2.92e-05 CAGTAGGAGG AGGAGCTGCAGGAGAT GGTATCAGGA 4330 304 3.63e-05 CACGATAACA TGTGGTAGAAGTAGTA TTTCATTTGG 30915 404 3.63e-05 ATCCAATCAA AGCTGGAGAAGGAGAT TCTCTACCAC 5154 369 3.89e-05 AAATAATAAT TGTTGTTGAGATAGTG TAAATCAGCC 8157 46 6.18e-05 GTGATGTTGG TTTTGACGCTGTTGTG GGTTTGGCTT 21139 110 1.12e-04 GACTTTCAGT ATGAGTTGGTATTGAG AAAATGGTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 6555 1.6e-09 141_[+2]_343 263880 1.2e-07 316_[+2]_168 13572 1.2e-07 316_[+2]_168 23526 1.8e-07 116_[+2]_368 260874 4.7e-07 59_[+2]_425 24037 4.7e-07 332_[+2]_152 19601 5.3e-07 241_[+2]_243 10254 8.9e-07 342_[+2]_142 5882 1.4e-06 142_[+2]_342 25868 1.4e-06 366_[+2]_118 262431 4.2e-06 187_[+2]_297 6607 6.1e-06 273_[+2]_211 1302 8e-06 144_[+2]_340 21612 1e-05 314_[+2]_170 262934 1.1e-05 433_[+2]_51 25028 1.1e-05 289_[+2]_195 10252 1.1e-05 45_[+2]_439 23534 1.9e-05 207_[+2]_277 20877 1.9e-05 335_[+2]_149 29232 2.9e-05 124_[+2]_360 4330 3.6e-05 303_[+2]_181 30915 3.6e-05 403_[+2]_81 5154 3.9e-05 368_[+2]_116 8157 6.2e-05 45_[+2]_439 21139 0.00011 109_[+2]_375 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=16 seqs=25 6555 ( 142) TGTTGTTGGTGGTGGT 1 263880 ( 317) GGTGGTTGAAGGAGGT 1 13572 ( 317) GGTGGTTGAAGGAGGT 1 23526 ( 117) TGTGGTTGATGGTTGT 1 260874 ( 60) TGTAGTAGAAGGTGGG 1 24037 ( 333) AGTTGTTGGAGGAGAG 1 19601 ( 242) TTTGGGTGGTGGTGGT 1 10254 ( 343) GTTTGGTGGTGGTGGT 1 5882 ( 143) GGTTGTTGATGGTAGT 1 25868 ( 367) TGGGGATGGTGGTGAT 1 262431 ( 188) TTGGGTCGATGGTGAT 1 6607 ( 274) TGTTGATGCTGCTGGT 1 1302 ( 145) TGAAGTTGAGGGTGGT 1 21612 ( 315) TGTTGTTGATGGTCTA 1 262934 ( 434) TGTAGTAGCAGGTTGG 1 25028 ( 290) GTGTGGTGGTGGAGTG 1 10252 ( 46) ATGTGTTGATGGATAG 1 23534 ( 208) TGCTTTTGCTGGAGGG 1 20877 ( 336) CGTTGCTGATGTTGAG 1 29232 ( 125) AGGAGCTGCAGGAGAT 1 4330 ( 304) TGTGGTAGAAGTAGTA 1 30915 ( 404) AGCTGGAGAAGGAGAT 1 5154 ( 369) TGTTGTTGAGATAGTG 1 8157 ( 46) TTTTGACGCTGTTGTG 1 21139 ( 110) ATGAGTTGGTATTGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 16 n= 15035 bayes= 9.72052 E= 1.7e-006 -43 -251 -22 105 -1129 -1129 163 5 -274 -151 4 124 -43 -1129 26 94 -1129 -1129 204 -276 -116 -151 -54 124 -75 -151 -1129 149 -1129 -1129 210 -1129 95 -19 26 -1129 25 -1129 -154 115 -175 -1129 198 -1129 -1129 -251 171 -44 57 -1129 -1129 115 -274 -251 178 -117 25 -1129 104 -44 -175 -1129 78 94 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 16 nsites= 25 E= 1.7e-006 0.200000 0.040000 0.200000 0.560000 0.000000 0.000000 0.720000 0.280000 0.040000 0.080000 0.240000 0.640000 0.200000 0.000000 0.280000 0.520000 0.000000 0.000000 0.960000 0.040000 0.120000 0.080000 0.160000 0.640000 0.160000 0.080000 0.000000 0.760000 0.000000 0.000000 1.000000 0.000000 0.520000 0.200000 0.280000 0.000000 0.320000 0.000000 0.080000 0.600000 0.080000 0.000000 0.920000 0.000000 0.000000 0.040000 0.760000 0.200000 0.400000 0.000000 0.000000 0.600000 0.040000 0.040000 0.800000 0.120000 0.320000 0.000000 0.480000 0.200000 0.080000 0.000000 0.400000 0.520000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [TAG][GT][TG][TGA]GTTG[AGC][TA]G[GT][TA]G[GAT][TG] -------------------------------------------------------------------------------- Time 15.74 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 6 llr = 117 E-value = 6.8e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A ::8a:3a::273:522::::: pos.-specific C 8:2:22:35::5:58:82:22 probability G :a::83:758327::8:8:88 matrix T 2::::2::::::3:::2:a:: bits 2.1 * 1.9 * * * * 1.7 * * * * 1.5 ** ** * * ******* Relative 1.3 ***** ** * ******* Entropy 1.1 ***** ***** ********* (28.2 bits) 0.9 ***** ***** ********* 0.6 ***** *************** 0.4 ***** *************** 0.2 ***** *************** 0.0 --------------------- Multilevel CGAAGAAGCGACGACGCGTGG consensus G CG GATC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 263880 336 1.37e-11 AGGAGGTAGC CGAAGAAGGGGCTCCGCGTGG CTGCTCAAGT 13572 336 1.37e-11 AGGAGGTAGC CGAAGAAGGGGCTCCGCGTGG CTGCTCAAGT 20877 377 1.37e-10 GGTGCTTGCT TGAAGGAGCGAGGACGCGTGG AAGGATACGT 6607 57 1.66e-09 GCACGAAGGA CGCAGTACCGAAGCCACGTGG AGCATGAGCC 25868 20 2.60e-09 GTCGACCAGA CGAACGACGGACGACGTCTGG ACGGCCTCTC 262934 104 1.17e-08 AGAGGTGCCA CGAAGCAGCAAAGAAGCGTCC CAACGGAGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 263880 1.4e-11 335_[+3]_144 13572 1.4e-11 335_[+3]_144 20877 1.4e-10 376_[+3]_103 6607 1.7e-09 56_[+3]_423 25868 2.6e-09 19_[+3]_460 262934 1.2e-08 103_[+3]_376 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=6 263880 ( 336) CGAAGAAGGGGCTCCGCGTGG 1 13572 ( 336) CGAAGAAGGGGCTCCGCGTGG 1 20877 ( 377) TGAAGGAGCGAGGACGCGTGG 1 6607 ( 57) CGCAGTACCGAAGCCACGTGG 1 25868 ( 20) CGAACGACGGACGACGTCTGG 1 262934 ( 104) CGAAGCAGCAAAGAAGCGTCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 14880 bayes= 10.9344 E= 6.8e-001 -923 187 -923 -70 -923 -923 210 -923 163 -45 -923 -923 189 -923 -923 -923 -923 -45 184 -923 31 -45 52 -70 189 -923 -923 -923 -923 55 151 -923 -923 113 110 -923 -69 -923 184 -923 131 -923 52 -923 31 113 -48 -923 -923 -923 151 30 90 113 -923 -923 -69 187 -923 -923 -69 -923 184 -923 -923 187 -923 -70 -923 -45 184 -923 -923 -923 -923 188 -923 -45 184 -923 -923 -45 184 -923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 6 E= 6.8e-001 0.000000 0.833333 0.000000 0.166667 0.000000 0.000000 1.000000 0.000000 0.833333 0.166667 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.166667 0.833333 0.000000 0.333333 0.166667 0.333333 0.166667 1.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.500000 0.500000 0.000000 0.166667 0.000000 0.833333 0.000000 0.666667 0.000000 0.333333 0.000000 0.333333 0.500000 0.166667 0.000000 0.000000 0.000000 0.666667 0.333333 0.500000 0.500000 0.000000 0.000000 0.166667 0.833333 0.000000 0.000000 0.166667 0.000000 0.833333 0.000000 0.000000 0.833333 0.000000 0.166667 0.000000 0.166667 0.833333 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.166667 0.833333 0.000000 0.000000 0.166667 0.833333 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- CGAAG[AG]A[GC][CG]G[AG][CA][GT][AC]CGCGTGG -------------------------------------------------------------------------------- Time 23.16 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 10252 3.46e-04 45_[+2(1.14e-05)]_416_\ [+1(1.53e-06)]_2 10254 2.35e-03 342_[+2(8.89e-07)]_142 1302 1.27e-05 10_[+1(1.29e-06)]_113_\ [+2(8.01e-06)]_10_[+3(7.46e-05)]_309 13572 4.12e-14 24_[+1(8.33e-05)]_271_\ [+2(1.25e-07)]_3_[+3(1.37e-11)]_105_[+1(2.92e-07)]_18 19601 4.97e-03 241_[+2(5.31e-07)]_243 20877 1.46e-07 335_[+2(1.86e-05)]_25_\ [+3(1.37e-10)]_103 21139 1.14e-05 77_[+1(5.01e-05)]_117_\ [+1(5.01e-05)]_17_[+1(5.20e-09)]_226 21519 2.42e-03 10_[+1(4.35e-07)]_469 21612 4.81e-04 314_[+2(1.04e-05)]_129_\ [+1(4.51e-06)]_20 23526 1.08e-04 116_[+2(1.75e-07)]_93_\ [+1(2.53e-05)]_254 23534 3.49e-09 80_[+3(5.53e-05)]_106_\ [+2(1.86e-05)]_231_[+1(8.93e-11)]_25 24037 1.39e-03 332_[+2(4.68e-07)]_152 24503 2.33e-05 400_[+1(5.20e-09)]_79 24780 1.49e-03 473_[+1(1.93e-07)]_6 25028 2.21e-04 289_[+2(1.14e-05)]_166_\ [+1(9.99e-07)]_8 25599 1.32e-02 358_[+1(2.67e-05)]_85_\ [+1(1.29e-06)]_15 25868 1.32e-07 19_[+3(2.60e-09)]_326_\ [+2(1.44e-06)]_118 260874 4.69e-03 59_[+2(4.68e-07)]_425 262431 5.77e-04 62_[+1(1.07e-05)]_104_\ [+2(4.15e-06)]_297 262934 5.09e-06 103_[+3(1.17e-08)]_309_\ [+2(1.14e-05)]_51 263880 4.12e-14 24_[+1(8.33e-05)]_271_\ [+2(1.25e-07)]_3_[+3(1.37e-11)]_105_[+1(2.92e-07)]_18 29232 5.21e-02 124_[+2(2.92e-05)]_360 30915 5.74e-02 267_[+2(7.00e-05)]_120_\ [+2(3.63e-05)]_81 32477 3.26e-02 311_[+1(5.19e-06)]_168 4330 1.41e-04 237_[+1(4.79e-05)]_45_\ [+2(3.63e-05)]_157_[+1(7.64e-07)]_3 5154 1.02e-03 177_[+1(2.29e-06)]_170_\ [+2(3.89e-05)]_116 5882 2.53e-05 142_[+2(1.44e-06)]_287_\ [+1(9.99e-07)]_34 6555 8.97e-08 12_[+1(9.99e-07)]_58_[+2(3.89e-05)]_\ 34_[+2(1.58e-09)]_282_[+2(7.00e-05)]_45 6607 9.37e-13 56_[+3(1.66e-09)]_106_\ [+1(7.29e-06)]_69_[+2(6.08e-06)]_137_[+1(1.35e-09)]_53 8157 3.51e-04 45_[+2(6.18e-05)]_402_\ [+1(6.97e-07)]_16 ThpsCp125 5.77e-01 500 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************