******************************************************************************** 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/289/289.seqs.fa ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 12899 1.0000 500 1668 1.0000 500 1840 1.0000 500 20572 1.0000 500 21875 1.0000 500 22780 1.0000 500 23795 1.0000 500 25555 1.0000 500 260744 1.0000 500 263424 1.0000 500 263495 1.0000 500 263931 1.0000 500 269371 1.0000 500 27276 1.0000 500 29183 1.0000 500 32092 1.0000 500 3575 1.0000 500 37126 1.0000 500 38472 1.0000 500 38475 1.0000 500 41952 1.0000 500 42719 1.0000 500 42740 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/289/289.seqs.fa -oc motifs/289 -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 0.252 C 0.251 G 0.237 T 0.261 Background letter frequencies (from dataset with add-one prior applied): A 0.252 C 0.251 G 0.237 T 0.261 ******************************************************************************** ******************************************************************************** MOTIF 1 MEME width = 21 sites = 17 llr = 236 E-value = 2.6e-012 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A 521113::412:5635:14:4 pos.-specific C ::::::::1:::::1::2:14 probability G 1812911a3267416:56:93 matrix T 4:87169:272313:55161: bits 2.1 * 1.9 * 1.7 * 1.5 * * ** * Relative 1.2 * * ** * * Entropy 1.0 ** * ** * ** ** (20.1 bits) 0.8 **** ** * ****** ** 0.6 ******** *********** 0.4 ******** ************ 0.2 ********************* 0.0 --------------------- Multilevel AGTTGTTGATGGAAGTTGTGA consensus T A G ATGTAAG A C sequence T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 3575 183 9.11e-11 ATTGTTGATG AGTTGATGATGGAAGTTGAGA CGATACAGAT 12899 184 9.11e-11 ATTGTTGATG AGTTGATGATGGAAGTTGAGA CGATACAGAT 260744 63 2.44e-09 GAGTTTCTAC TGTTGTTGAAGTAAGTTGTGC TTGTTGTATC 269371 290 3.74e-09 GGTGTGATGG TGATGTTGGTGGAAGAGGAGG TTGCCATCGT 263424 399 3.74e-09 GGTGTGATGG TGATGTTGGTGGAAGAGGAGG TTGCCATCGT 37126 391 3.71e-08 GTAGTGTAGT AGTTGTTGTTAGGACAGGAGA GTGAGAGAGT 38475 78 9.20e-08 GTCCATTGTG AATTGTTGTTTTGTGATGTGG TTTTTGTTGT 38472 78 9.20e-08 GTCCATTGTG AATTGTTGTTTTGTGATGTGG TTTTTGTTGT 22780 328 1.47e-07 CCGAGGGAGG TGTGGTTGGTGGGTATTTTGA GGGAGGCGAA 23795 73 3.18e-07 TTCGCCTCGT TGTTGTTGGGTGGTGTTGTTC ATCATGGTTG 263931 294 5.53e-07 GAAGCTATCG AGTAGAGGGTGGAAAAGATGA AAATCACTTT 263495 198 6.43e-07 GATATGGTGA GATTGATGAAGGTAGTGGTGC TTGATAGGAT 20572 297 8.61e-07 TGGAGTGAAA TGTGGATGCGAGAAGTGCTGG CTTGGAGGAA 1668 48 1.69e-06 GCTGTTTCGC AGTGATTGATGGAAGATCACA TGATGCGACA 27276 346 3.12e-06 ACGTAATGTC TGGAGGTGATATAAATTATGC CTAGTGTTAT 32092 80 3.50e-06 CAGAGGGGAG AGTTTTTGTGATGTAAGCTGC TTCGGTTGTT 21875 464 3.50e-06 GTAAGAAAGT GGGTGGGGATGGGGATGGTGC TTTGGGTGAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 3575 9.1e-11 182_[+1]_297 12899 9.1e-11 183_[+1]_296 260744 2.4e-09 62_[+1]_417 269371 3.7e-09 289_[+1]_190 263424 3.7e-09 398_[+1]_81 37126 3.7e-08 390_[+1]_89 38475 9.2e-08 77_[+1]_402 38472 9.2e-08 77_[+1]_402 22780 1.5e-07 327_[+1]_152 23795 3.2e-07 72_[+1]_407 263931 5.5e-07 293_[+1]_186 263495 6.4e-07 197_[+1]_282 20572 8.6e-07 296_[+1]_183 1668 1.7e-06 47_[+1]_432 27276 3.1e-06 345_[+1]_134 32092 3.5e-06 79_[+1]_400 21875 3.5e-06 463_[+1]_16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=21 seqs=17 3575 ( 183) AGTTGATGATGGAAGTTGAGA 1 12899 ( 184) AGTTGATGATGGAAGTTGAGA 1 260744 ( 63) TGTTGTTGAAGTAAGTTGTGC 1 269371 ( 290) TGATGTTGGTGGAAGAGGAGG 1 263424 ( 399) TGATGTTGGTGGAAGAGGAGG 1 37126 ( 391) AGTTGTTGTTAGGACAGGAGA 1 38475 ( 78) AATTGTTGTTTTGTGATGTGG 1 38472 ( 78) AATTGTTGTTTTGTGATGTGG 1 22780 ( 328) TGTGGTTGGTGGGTATTTTGA 1 23795 ( 73) TGTTGTTGGGTGGTGTTGTTC 1 263931 ( 294) AGTAGAGGGTGGAAAAGATGA 1 263495 ( 198) GATTGATGAAGGTAGTGGTGC 1 20572 ( 297) TGTGGATGCGAGAAGTGCTGG 1 1668 ( 48) AGTGATTGATGGAAGATCACA 1 27276 ( 346) TGGAGGTGATATAAATTATGC 1 32092 ( 80) AGTTTTTGTGATGTAAGCTGC 1 21875 ( 464) GGGTGGGGATGGGGATGGTGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 11040 bayes= 10.1364 E= 2.6e-012 90 -1073 -101 66 -51 -1073 180 -1073 -110 -1073 -101 155 -110 -1073 -42 144 -210 -1073 190 -214 22 -1073 -101 117 -1073 -1073 -101 176 -1073 -1073 208 -1073 71 -209 31 -15 -110 -1073 -42 144 -10 -1073 131 -56 -1073 -1073 158 17 107 -1073 80 -214 136 -1073 -201 17 22 -209 145 -1073 90 -1073 -1073 102 -1073 -1073 99 102 -110 -51 145 -214 49 -1073 -1073 131 -1073 -209 190 -214 49 49 31 -1073 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 17 E= 2.6e-012 0.470588 0.000000 0.117647 0.411765 0.176471 0.000000 0.823529 0.000000 0.117647 0.000000 0.117647 0.764706 0.117647 0.000000 0.176471 0.705882 0.058824 0.000000 0.882353 0.058824 0.294118 0.000000 0.117647 0.588235 0.000000 0.000000 0.117647 0.882353 0.000000 0.000000 1.000000 0.000000 0.411765 0.058824 0.294118 0.235294 0.117647 0.000000 0.176471 0.705882 0.235294 0.000000 0.588235 0.176471 0.000000 0.000000 0.705882 0.294118 0.529412 0.000000 0.411765 0.058824 0.647059 0.000000 0.058824 0.294118 0.294118 0.058824 0.647059 0.000000 0.470588 0.000000 0.000000 0.529412 0.000000 0.000000 0.470588 0.529412 0.117647 0.176471 0.647059 0.058824 0.352941 0.000000 0.000000 0.647059 0.000000 0.058824 0.882353 0.058824 0.352941 0.352941 0.294118 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [AT]GTTG[TA]TG[AGT]T[GA][GT][AG][AT][GA][TA][TG]G[TA]G[ACG] -------------------------------------------------------------------------------- Time 4.77 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 MEME width = 15 sites = 21 llr = 232 E-value = 2.5e-013 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 74:8::7::91:832 pos.-specific C ::a12a:3a15a138 probability G 12::3:2:::2::3: matrix T 24::5:16::2:11: bits 2.1 * * * 1.9 * * * 1.7 * * * * 1.5 * * * * Relative 1.2 * * ** * * Entropy 1.0 ** * ** ** * (15.9 bits) 0.8 * ** ***** ** * 0.6 * ** ***** ** * 0.4 * ******** ** * 0.2 *************** 0.0 --------------- Multilevel AACATCATCACCACC consensus T G C G AA sequence C G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------- 42719 64 3.44e-08 GCTTCTAGAT AGCATCATCACCAAC TCTTGTTTGA 38475 468 5.02e-08 CTCCAACAAC AACAGCATCAGCAGC AACAGCAGCA 38472 468 5.02e-08 CTCCAACAAC AACAGCATCAGCAGC AACAGCAGCA 3575 28 4.45e-07 GATATCTGGG ATCACCGCCACCACC GCCGTTGGGT 12899 29 4.45e-07 GATATCTGGG ATCACCGCCACCACC GCCGTTGGGT 25555 140 1.27e-06 GAGGCAGTTC AACAGCATCAACACA ATATTGGCCG 1840 452 1.55e-06 GAGATCAACC ATCACCACCCCCACC CCCGTCCGTC 29183 354 1.73e-06 CTACCGCGGC AGCATCTTCACCATC CACGTCCCAA 269371 3 1.94e-06 TG AGCATCATCAGCTGC CGATGATGAG 263424 112 1.94e-06 GCAGAGGATG AGCATCATCAGCTGC CGATGATGAG 263931 459 2.34e-06 TGAATCCTCA AACCTCACCACCAAA CCCCCTCGTC 1668 379 2.34e-06 TGGAAAGCCG GACACCACCAGCACC AGACCCATCA 41952 391 3.76e-06 CATCATCGTC GTCATCATCATCATC GTCATGCACC 37126 486 4.46e-06 TCAGTTGAGA TACACCATCATCAAA 20572 402 5.73e-06 TGGATTCCCT TTCAGCGCCACCACA CAGACACACT 21875 299 7.95e-06 GTGCACATCT ACCAGCAGCACCAGC GTCGGCCACC 32092 468 1.24e-05 CCCACCACCC ATCATCATCCTCCAC GCCCTCCTTC 42740 113 1.44e-05 CTGCCGTGAG TACAGCATCGTCAAC TTTGGATGTT 23795 360 2.29e-05 CCACGACGCT ATCCTCTTAACCACC AACGCTACCG 27276 430 2.76e-05 TTCTTTCCTC TTCCTCTCCACCAAA CAACACCCCA 260744 221 5.88e-05 TGCATCTCCG AACGTCGTCAACCGC TGCCAACGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 42719 3.4e-08 63_[+2]_422 38475 5e-08 467_[+2]_18 38472 5e-08 467_[+2]_18 3575 4.4e-07 27_[+2]_458 12899 4.4e-07 28_[+2]_457 25555 1.3e-06 139_[+2]_346 1840 1.5e-06 451_[+2]_34 29183 1.7e-06 353_[+2]_132 269371 1.9e-06 2_[+2]_483 263424 1.9e-06 111_[+2]_374 263931 2.3e-06 458_[+2]_27 1668 2.3e-06 378_[+2]_107 41952 3.8e-06 390_[+2]_95 37126 4.5e-06 485_[+2] 20572 5.7e-06 401_[+2]_84 21875 8e-06 298_[+2]_187 32092 1.2e-05 467_[+2]_18 42740 1.4e-05 112_[+2]_373 23795 2.3e-05 359_[+2]_126 27276 2.8e-05 429_[+2]_56 260744 5.9e-05 220_[+2]_265 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=15 seqs=21 42719 ( 64) AGCATCATCACCAAC 1 38475 ( 468) AACAGCATCAGCAGC 1 38472 ( 468) AACAGCATCAGCAGC 1 3575 ( 28) ATCACCGCCACCACC 1 12899 ( 29) ATCACCGCCACCACC 1 25555 ( 140) AACAGCATCAACACA 1 1840 ( 452) ATCACCACCCCCACC 1 29183 ( 354) AGCATCTTCACCATC 1 269371 ( 3) AGCATCATCAGCTGC 1 263424 ( 112) AGCATCATCAGCTGC 1 263931 ( 459) AACCTCACCACCAAA 1 1668 ( 379) GACACCACCAGCACC 1 41952 ( 391) GTCATCATCATCATC 1 37126 ( 486) TACACCATCATCAAA 1 20572 ( 402) TTCAGCGCCACCACA 1 21875 ( 299) ACCAGCAGCACCAGC 1 32092 ( 468) ATCATCATCCTCCAC 1 42740 ( 113) TACAGCATCGTCAAC 1 23795 ( 360) ATCCTCTTAACCACC 1 27276 ( 430) TTCCTCTCCACCAAA 1 260744 ( 221) AACGTCGTCAACCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 11178 bayes= 10.041 E= 2.5e-013 150 -1104 -131 -45 60 -239 -31 55 -1104 200 -1104 -1104 168 -81 -231 -1104 -1104 -7 27 87 -1104 200 -1104 -1104 140 -1104 -31 -87 -1104 41 -231 125 -240 193 -1104 -1104 177 -139 -231 -1104 -140 93 1 -45 -1104 200 -1104 -1104 168 -139 -1104 -145 18 41 27 -145 -8 160 -1104 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 21 E= 2.5e-013 0.714286 0.000000 0.095238 0.190476 0.380952 0.047619 0.190476 0.380952 0.000000 1.000000 0.000000 0.000000 0.809524 0.142857 0.047619 0.000000 0.000000 0.238095 0.285714 0.476190 0.000000 1.000000 0.000000 0.000000 0.666667 0.000000 0.190476 0.142857 0.000000 0.333333 0.047619 0.619048 0.047619 0.952381 0.000000 0.000000 0.857143 0.095238 0.047619 0.000000 0.095238 0.476190 0.238095 0.190476 0.000000 1.000000 0.000000 0.000000 0.809524 0.095238 0.000000 0.095238 0.285714 0.333333 0.285714 0.095238 0.238095 0.761905 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- A[AT]CA[TGC]CA[TC]CA[CG]CA[CAG][CA] -------------------------------------------------------------------------------- Time 9.41 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 MEME width = 21 sites = 12 llr = 181 E-value = 4.5e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :7:931:3224:433:663a: pos.-specific C ::2:3:::1:42:2::2:::: probability G a:71448338136389147:a matrix T :32::5245:16:2:12:::: bits 2.1 * ** 1.9 * ** 1.7 * * * ** 1.5 * * * * * ** Relative 1.2 * * * * ** ** Entropy 1.0 ** * * * * ** **** (21.8 bits) 0.8 **** * * * ** **** 0.6 **** ** * ** ** **** 0.4 ******** **** ******* 0.2 ************* ******* 0.0 --------------------- Multilevel GAGAGTGTTGATGAGGAAGAG consensus T CG GG CGAGA GA sequence A A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- 3575 332 1.91e-11 AAACACGCGT GAGAGTGTTGATGGGGAAAAG ATTGGAGGCA 12899 333 1.91e-11 AAACACGCGT GAGAGTGTTGATGGGGAAAAG ATTGGAGGCA 38475 45 6.86e-09 TTGTTCGGGT GTGAGGGAGGCTAGGGCAGAG GCGTCCATTG 38472 45 6.86e-09 TTGTTCGGGT GTGAGGGAGGCTAGGGCAGAG GCGTCCATTG 25555 206 1.39e-08 TCGAGCTTTT GATAATGATGCGGCGGAAGAG ACGTCTCTGG 22780 257 8.63e-08 CGTGATCGGG GAGACGTTTGTGATGGAAGAG GGCTTTGGTT 42740 174 1.39e-07 CGGGGGGAAA GAGGAGGTTACGAAGGAGGAG TTGGCGTGGT 269371 91 1.86e-07 CCACGTCCGT GTCACTGGAGACGAAGAGGAG TTTGCATCAC 263424 200 1.86e-07 CCACGTCCGT GTCACTGGAGACGAAGAGGAG TTTGCATCAC 21875 426 3.16e-07 GGTGGTCAAG GAGAAGGGCGGTGCGGTGAAG CAACCTCGTA 20572 74 5.95e-07 GGGATGAGTT GATACAGGTACTGAGGGAAAG CGATTGCCTT 1840 98 8.03e-07 GATTGCCGAT GAGAGTTTGGATATATTGGAG GAAAGAAGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 3575 1.9e-11 331_[+3]_148 12899 1.9e-11 332_[+3]_147 38475 6.9e-09 44_[+3]_435 38472 6.9e-09 44_[+3]_435 25555 1.4e-08 205_[+3]_274 22780 8.6e-08 256_[+3]_223 42740 1.4e-07 173_[+3]_306 269371 1.9e-07 90_[+3]_389 263424 1.9e-07 199_[+3]_280 21875 3.2e-07 425_[+3]_54 20572 5.9e-07 73_[+3]_406 1840 8e-07 97_[+3]_382 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=21 seqs=12 3575 ( 332) GAGAGTGTTGATGGGGAAAAG 1 12899 ( 333) GAGAGTGTTGATGGGGAAAAG 1 38475 ( 45) GTGAGGGAGGCTAGGGCAGAG 1 38472 ( 45) GTGAGGGAGGCTAGGGCAGAG 1 25555 ( 206) GATAATGATGCGGCGGAAGAG 1 22780 ( 257) GAGACGTTTGTGATGGAAGAG 1 42740 ( 174) GAGGAGGTTACGAAGGAGGAG 1 269371 ( 91) GTCACTGGAGACGAAGAGGAG 1 263424 ( 200) GTCACTGGAGACGAAGAGGAG 1 21875 ( 426) GAGAAGGGCGGTGCGGTGAAG 1 20572 ( 74) GATACAGGTACTGAGGGAAAG 1 1840 ( 98) GAGAGTTTGGATATATTGGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 11040 bayes= 10.2918 E= 4.5e-006 -1023 -1023 208 -1023 140 -1023 -1023 35 -1023 -59 149 -64 186 -1023 -150 -1023 -1 41 81 -1023 -159 -1023 81 94 -1023 -1023 181 -64 -1 -1023 49 68 -60 -159 8 94 -60 -1023 181 -1023 73 73 -150 -164 -1023 -59 8 116 73 -1023 130 -1023 40 -59 49 -64 -1 -1023 166 -1023 -1023 -1023 195 -164 121 -59 -150 -64 121 -1023 81 -1023 40 -1023 149 -1023 199 -1023 -1023 -1023 -1023 -1023 208 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 12 E= 4.5e-006 0.000000 0.000000 1.000000 0.000000 0.666667 0.000000 0.000000 0.333333 0.000000 0.166667 0.666667 0.166667 0.916667 0.000000 0.083333 0.000000 0.250000 0.333333 0.416667 0.000000 0.083333 0.000000 0.416667 0.500000 0.000000 0.000000 0.833333 0.166667 0.250000 0.000000 0.333333 0.416667 0.166667 0.083333 0.250000 0.500000 0.166667 0.000000 0.833333 0.000000 0.416667 0.416667 0.083333 0.083333 0.000000 0.166667 0.250000 0.583333 0.416667 0.000000 0.583333 0.000000 0.333333 0.166667 0.333333 0.166667 0.250000 0.000000 0.750000 0.000000 0.000000 0.000000 0.916667 0.083333 0.583333 0.166667 0.083333 0.166667 0.583333 0.000000 0.416667 0.000000 0.333333 0.000000 0.666667 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- G[AT]GA[GCA][TG]G[TGA][TG]G[AC][TG][GA][AG][GA]GA[AG][GA]AG -------------------------------------------------------------------------------- Time 13.97 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 12899 8.75e-17 28_[+2(4.45e-07)]_140_\ [+1(9.11e-11)]_128_[+3(1.91e-11)]_147 1668 2.70e-05 47_[+1(1.69e-06)]_310_\ [+2(2.34e-06)]_107 1840 8.64e-06 97_[+3(8.03e-07)]_333_\ [+2(1.55e-06)]_34 20572 8.57e-08 73_[+3(5.95e-07)]_202_\ [+1(8.61e-07)]_84_[+2(5.73e-06)]_84 21875 2.33e-07 298_[+2(7.95e-06)]_112_\ [+3(3.16e-07)]_17_[+1(3.50e-06)]_16 22780 4.27e-07 256_[+3(8.63e-08)]_50_\ [+1(1.47e-07)]_152 23795 1.15e-04 72_[+1(3.18e-07)]_266_\ [+2(2.29e-05)]_126 25555 4.54e-07 139_[+2(1.27e-06)]_51_\ [+3(1.39e-08)]_274 260744 9.91e-07 62_[+1(2.44e-09)]_137_\ [+2(5.88e-05)]_265 263424 7.01e-11 111_[+2(1.94e-06)]_73_\ [+3(1.86e-07)]_178_[+1(3.74e-09)]_81 263495 4.53e-04 176_[+1(8.05e-05)]_[+1(6.43e-07)]_\ 282 263931 3.00e-06 293_[+1(5.53e-07)]_144_\ [+2(2.34e-06)]_27 269371 7.01e-11 2_[+2(1.94e-06)]_73_[+3(1.86e-07)]_\ 178_[+1(3.74e-09)]_190 27276 7.32e-04 345_[+1(3.12e-06)]_63_\ [+2(2.76e-05)]_56 29183 1.58e-02 114_[+2(2.91e-05)]_159_\ [+2(6.81e-06)]_50_[+2(1.73e-06)]_132 32092 2.67e-04 79_[+1(3.50e-06)]_367_\ [+2(1.24e-05)]_18 3575 8.75e-17 27_[+2(4.45e-07)]_140_\ [+1(9.11e-11)]_128_[+3(1.91e-11)]_148 37126 5.85e-08 390_[+1(3.71e-08)]_74_\ [+2(4.46e-06)] 38472 2.09e-12 44_[+3(6.86e-09)]_12_[+1(9.20e-08)]_\ 369_[+2(5.02e-08)]_[+2(1.65e-05)]_3 38475 2.09e-12 44_[+3(6.86e-09)]_12_[+1(9.20e-08)]_\ 369_[+2(5.02e-08)]_[+2(1.65e-05)]_3 41952 2.95e-02 369_[+2(2.14e-05)]_6_[+2(3.76e-06)]_\ 95 42719 9.64e-04 63_[+2(3.44e-08)]_422 42740 1.02e-05 112_[+2(1.44e-05)]_46_\ [+3(1.39e-07)]_306 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: seaotter.hsd1.wa.comcast.net ********************************************************************************