******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.8.1 (Release date: Tue Feb 7 14:03:40 EST 2012) 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= TF6_96h-IP_0.sub.10.weight ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ Mympn:249845-250045 0.6423 200 Mympn:261615-261815 0.7033 200 Mympn:420255-420455 0.7317 200 Mympn:469115-469315 0.5163 200 Mympn:481995-482195 0.5122 200 Mympn:482615-482815 0.4472 200 Mympn:548595-548795 0.4309 200 Mympn:604765-604965 0.5041 200 Mympn:656180-656380 0.5447 200 Mympn:799875-800075 1.0000 200 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme TF6_96h-IP_0.sub.10.weight -oc meme -dna -revcomp -mod oops -bfile ../markov_3_promo.txt -revcomp -nmotifs 10 -o TF6_96h-IP_0.sub.10.weight.mem model: mod= oops nmotifs= 10 evt= inf object function= E-value of product of p-values width: minw= 8 maxw= 50 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 10 maxsites= 10 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= 2000 N= 10 strands: + - sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.322 C 0.178 G 0.178 T 0.322 Background letter frequencies (from ../markov_3_promo.txt): A 0.312 C 0.188 G 0.188 T 0.312 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 8 sites = 10 llr = 82 E-value = 6.2e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :7:::::1 pos.-specific C 6312:169 probability G 1:9::9:: matrix T 3::8a:4: bits 2.4 2.2 1.9 * * * 1.7 * ** * Relative 1.4 * ** * Entropy 1.2 * **** (11.8 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAGTTGCC consensus TC C T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:261615-261815 + 88 7.13e-06 TCAAGTTAAT CAGTTGCC TCAAGACACG Mympn:799875-800075 - 187 1.14e-05 TGGATT CCGTTGCC AGACGGAACT Mympn:548595-548795 + 176 1.57e-05 TTTTAATATC CAGCTGCC AAATCGCATT Mympn:604765-604965 - 109 4.20e-05 ATTCTAAAAA TAGTTGCC AGCTTTACAA Mympn:420255-420455 + 92 4.20e-05 GTTTCACAAT TAGTTGCC GAAAAAACTG Mympn:481995-482195 - 73 4.91e-05 ATTAAATTTC CCGTTGTC GTTGAGGTAG Mympn:656180-656380 - 80 5.63e-05 ATAATACCTA CAGCTGTC GAAACAGCAG Mympn:469115-469315 + 76 1.73e-04 GCAACCGCCA CAGTTGCA TTTACTGCAG Mympn:249845-250045 + 189 5.51e-04 GAAAATGCGC GAGTTCTC TTAA Mympn:482615-482815 + 112 7.20e-04 GCCACTTCGC TACCTGTC CAATAACCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:261615-261815 7.1e-06 87_[+1]_105 Mympn:799875-800075 1.1e-05 186_[-1]_6 Mympn:548595-548795 1.6e-05 175_[+1]_17 Mympn:604765-604965 4.2e-05 108_[-1]_84 Mympn:420255-420455 4.2e-05 91_[+1]_101 Mympn:481995-482195 4.9e-05 72_[-1]_120 Mympn:656180-656380 5.6e-05 79_[-1]_113 Mympn:469115-469315 0.00017 75_[+1]_117 Mympn:249845-250045 0.00055 188_[+1]_4 Mympn:482615-482815 0.00072 111_[+1]_81 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=8 seqs=10 Mympn:261615-261815 ( 88) CAGTTGCC 0.703252 Mympn:799875-800075 ( 187) CCGTTGCC 1 Mympn:548595-548795 ( 176) CAGCTGCC 0.430894 Mympn:604765-604965 ( 109) TAGTTGCC 0.504065 Mympn:420255-420455 ( 92) TAGTTGCC 0.731707 Mympn:481995-482195 ( 73) CCGTTGTC 0.512195 Mympn:656180-656380 ( 80) CAGCTGTC 0.544715 Mympn:469115-469315 ( 76) CAGTTGCA 0.51626 Mympn:249845-250045 ( 189) GAGTTCTC 0.642276 Mympn:482615-482815 ( 112) TACCTGTC 0.447154 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 6.2e+002 -924 171 -82 -16 126 41 -924 -924 -924 -134 230 -924 -924 33 -924 129 -924 -924 -924 168 -924 -82 225 -924 -924 178 -924 19 -186 228 -924 -924 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 6.2e+002 0.000000 0.614555 0.106469 0.278976 0.749326 0.250674 0.000000 0.000000 0.000000 0.074124 0.925876 0.000000 0.000000 0.235849 0.000000 0.764151 0.000000 0.000000 0.000000 1.000000 0.000000 0.106469 0.893531 0.000000 0.000000 0.644205 0.000000 0.355795 0.085580 0.914420 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [CT][AC]G[TC]TG[CT]C -------------------------------------------------------------------------------- Time 0.10 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 8 sites = 10 llr = 78 E-value = 8.4e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A 79a:9:2: pos.-specific C :::5::5: probability G 31:5:a1: matrix T ::::1:3a bits 2.4 * 2.2 * 1.9 * 1.7 * * * Relative 1.4 *** * * Entropy 1.2 ***** * (11.2 bits) 1.0 ****** * 0.7 ****** * 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AAAGAGCT consensus G C T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:420255-420455 - 72 1.96e-05 TGTGAAACAA AAAGAGCT TTTAAAATAT Mympn:469115-469315 - 96 3.93e-05 TGCAAAACCG AAACAGCT AACTGCAGTA Mympn:261615-261815 - 57 3.93e-05 AAAGGCTGGC AAACAGCT CGCCCAAGTA Mympn:249845-250045 + 20 3.93e-05 ATATATAAAA AAACAGCT AATTAAAGCT Mympn:799875-800075 - 100 9.56e-05 CGTTACCCGG AAAGAGTT TGAGGAATGC Mympn:481995-482195 + 33 1.28e-04 TGCAGAACTA AAACAGTT CTTACTCAAC Mympn:656180-656380 - 108 2.92e-04 CCCCATGAGG GAAGAGAT AAAGTAGAGA Mympn:604765-604965 + 162 3.59e-04 TGACCTCAAA GAACAGGT TTTTCAAACG Mympn:548595-548795 + 122 4.24e-04 ATCGCAACAC GAAGTGCT TTAGCAAATG Mympn:482615-482815 + 44 6.39e-04 TGGTGGACAG GGAGAGAT TCGAACTCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:420255-420455 2e-05 71_[-2]_121 Mympn:469115-469315 3.9e-05 95_[-2]_97 Mympn:261615-261815 3.9e-05 56_[-2]_136 Mympn:249845-250045 3.9e-05 19_[+2]_173 Mympn:799875-800075 9.6e-05 99_[-2]_93 Mympn:481995-482195 0.00013 32_[+2]_160 Mympn:656180-656380 0.00029 107_[-2]_85 Mympn:604765-604965 0.00036 161_[+2]_31 Mympn:548595-548795 0.00042 121_[+2]_71 Mympn:482615-482815 0.00064 43_[+2]_149 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=8 seqs=10 Mympn:420255-420455 ( 72) AAAGAGCT 0.731707 Mympn:469115-469315 ( 96) AAACAGCT 0.51626 Mympn:261615-261815 ( 57) AAACAGCT 0.703252 Mympn:249845-250045 ( 20) AAACAGCT 0.642276 Mympn:799875-800075 ( 100) AAAGAGTT 1 Mympn:481995-482195 ( 33) AAACAGTT 0.512195 Mympn:656180-656380 ( 108) GAAGAGAT 0.544715 Mympn:604765-604965 ( 162) GAACAGGT 0.504065 Mympn:548595-548795 ( 122) GAAGTGCT 0.430894 Mympn:482615-482815 ( 44) GGAGAGAT 0.447154 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 8.4e+004 112 -924 76 -924 157 -924 -134 -924 168 -924 -924 -924 -924 134 147 -924 157 -924 -924 -212 -924 -924 241 -924 -92 141 -117 -32 -924 -924 -924 168 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 8.4e+004 0.680593 0.000000 0.319407 0.000000 0.925876 0.000000 0.074124 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.477089 0.522911 0.000000 0.928571 0.000000 0.000000 0.071429 0.000000 0.000000 1.000000 0.000000 0.164420 0.501348 0.083558 0.250674 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [AG]AA[GC]AG[CT]T -------------------------------------------------------------------------------- Time 0.20 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 8 sites = 10 llr = 76 E-value = 5.7e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A 1:179::7 pos.-specific C 9:9::a52 probability G :2::1::: matrix T :8:3::52 bits 2.4 * 2.2 * 1.9 * * 1.7 * * * Relative 1.4 * * ** Entropy 1.2 *** ** (10.9 bits) 1.0 *** *** 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CTCAACTA consensus T C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:420255-420455 + 44 1.18e-05 TTATTTAGTG CTCAACCA TGCTTTTAAA Mympn:481995-482195 + 45 3.15e-05 ACAGTTCTTA CTCAACTA AATACTTGAA Mympn:261615-261815 + 104 4.57e-05 CCTCAAGACA CGCAACCA GTACTCCTTA Mympn:799875-800075 + 43 6.94e-05 TTTGAAGTCT CTCAACTC CGCTTCAATG Mympn:249845-250045 - 37 1.13e-04 AATCGCTTAG CTCTACTA GCTTTAATTA Mympn:469115-469315 + 171 1.32e-04 CCCTAGCCTT CTCAACTT TTAGTTAAAA Mympn:656180-656380 + 99 3.08e-04 AGGTATTATT CTCTACTT TATCTCTTCC Mympn:482615-482815 + 61 3.74e-04 TTCGAACTCC CGAAACCA TGAAGGTGTC Mympn:548595-548795 - 86 4.48e-04 CAAAAGTAAA CTATACCA AGATGACTTT Mympn:604765-604965 + 125 1.02e-03 TATTTTTAGA ATCAGCCA TGGATCAAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:420255-420455 1.2e-05 43_[+3]_149 Mympn:481995-482195 3.1e-05 44_[+3]_148 Mympn:261615-261815 4.6e-05 103_[+3]_89 Mympn:799875-800075 6.9e-05 42_[+3]_150 Mympn:249845-250045 0.00011 36_[-3]_156 Mympn:469115-469315 0.00013 170_[+3]_22 Mympn:656180-656380 0.00031 98_[+3]_94 Mympn:482615-482815 0.00037 60_[+3]_132 Mympn:548595-548795 0.00045 85_[-3]_107 Mympn:604765-604965 0.001 124_[+3]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=8 seqs=10 Mympn:420255-420455 ( 44) CTCAACCA 0.731707 Mympn:481995-482195 ( 45) CTCAACTA 0.512195 Mympn:261615-261815 ( 104) CGCAACCA 0.703252 Mympn:799875-800075 ( 43) CTCAACTC 1 Mympn:249845-250045 ( 37) CTCTACTA 0.642276 Mympn:469115-469315 ( 171) CTCAACTT 0.51626 Mympn:656180-656380 ( 99) CTCTACTT 0.544715 Mympn:482615-482815 ( 61) CGAAACCA 0.447154 Mympn:548595-548795 ( 86) CTATACCA 0.430894 Mympn:604765-604965 ( 125) ATCAGCCA 0.504065 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 5.7e+005 -189 228 -924 -924 -924 -924 2 137 -110 218 -924 -924 123 -924 -924 -22 155 -924 -117 -924 -924 241 -924 -924 -924 131 -924 77 108 -18 -924 -83 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 5.7e+005 0.083558 0.916442 0.000000 0.000000 0.000000 0.000000 0.190701 0.809299 0.145552 0.854448 0.000000 0.000000 0.731806 0.000000 0.000000 0.268194 0.916442 0.000000 0.083558 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.466981 0.000000 0.533019 0.658356 0.165768 0.000000 0.175876 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- CTC[AT]AC[TC]A -------------------------------------------------------------------------------- Time 0.27 secs. ******************************************************************************** ******************************************************************************** MOTIF 4 width = 8 sites = 10 llr = 70 E-value = 4.0e+008 ******************************************************************************** -------------------------------------------------------------------------------- Motif 4 Description -------------------------------------------------------------------------------- Simplified A 3:2:7:5: pos.-specific C :2:::8:a probability G 4::::25: matrix T 388a3::: bits 2.4 * 2.2 * 1.9 * 1.7 * * * Relative 1.4 * * * Entropy 1.2 * * * * (10.0 bits) 1.0 *** *** 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GTTTACGC consensus A A TGA sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:261615-261815 - 4 1.18e-05 AATTTAATTA GTTTACGC ATT Mympn:481995-482195 + 155 6.30e-05 AAAGGAGAAA ATTTACGC CAAATGTGTA Mympn:420255-420455 - 2 1.33e-04 TGGCGTGCGT GTATACGC G Mympn:249845-250045 + 168 1.33e-04 CGAAAAGGTT GTATACGC ATGGAAAATG Mympn:604765-604965 - 67 2.30e-04 TTATCCAGTA GCTTACAC ATTATTAGGG Mympn:799875-800075 + 133 5.13e-04 TGTTTTTGGC TTTTTCAC TTTTCGTTGG Mympn:656180-656380 - 133 5.33e-04 TCTTATCATT ACTTACAC CAATTACCCC Mympn:548595-548795 - 39 6.28e-04 TTACAAGACA ATTTAGAC ATTGTTTTTA Mympn:469115-469315 + 51 8.47e-04 TTTCGCCTTA TTTTTGGC AGCATTTGCA Mympn:482615-482815 + 172 1.01e-03 GATCTTAACA ATTTTGAC CCGGTAGGGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:261615-261815 1.2e-05 3_[-4]_189 Mympn:481995-482195 6.3e-05 154_[+4]_38 Mympn:420255-420455 0.00013 1_[-4]_191 Mympn:249845-250045 0.00013 167_[+4]_25 Mympn:604765-604965 0.00023 66_[-4]_126 Mympn:799875-800075 0.00051 132_[+4]_60 Mympn:656180-656380 0.00053 132_[-4]_60 Mympn:548595-548795 0.00063 38_[-4]_154 Mympn:469115-469315 0.00085 50_[+4]_142 Mympn:482615-482815 0.001 171_[+4]_21 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 4 width=8 seqs=10 Mympn:261615-261815 ( 4) GTTTACGC 0.703252 Mympn:481995-482195 ( 155) ATTTACGC 0.512195 Mympn:420255-420455 ( 2) GTATACGC 0.731707 Mympn:249845-250045 ( 168) GTATACGC 0.642276 Mympn:604765-604965 ( 67) GCTTACAC 0.504065 Mympn:799875-800075 ( 133) TTTTTCAC 1 Mympn:656180-656380 ( 133) ACTTACAC 0.544715 Mympn:548595-548795 ( 39) ATTTAGAC 0.430894 Mympn:469115-469315 ( 51) TTTTTGGC 0.51626 Mympn:482615-482815 ( 172) ATTTTGAC 0.447154 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 4.0e+008 4 -924 119 -31 -924 -11 -924 140 -45 -924 -924 131 -924 -924 -924 168 111 -924 -924 6 -924 203 30 -924 64 -924 145 -924 -924 241 -924 -924 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 4.0e+008 0.320755 0.000000 0.427898 0.251348 0.000000 0.173854 0.000000 0.826146 0.227763 0.000000 0.000000 0.772237 0.000000 0.000000 0.000000 1.000000 0.674528 0.000000 0.000000 0.325472 0.000000 0.768868 0.231132 0.000000 0.485175 0.000000 0.514825 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 regular expression -------------------------------------------------------------------------------- [GAT]T[TA]T[AT][CG][GA]C -------------------------------------------------------------------------------- Time 0.36 secs. ******************************************************************************** ******************************************************************************** MOTIF 5 width = 8 sites = 10 llr = 73 E-value = 1.4e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif 5 Description -------------------------------------------------------------------------------- Simplified A :::1:5:4 pos.-specific C 11:::::6 probability G :::::55: matrix T 99a9a:5: bits 2.4 2.2 1.9 1.7 * * Relative 1.4 * * * Entropy 1.2 ***** * (10.5 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTTTTGGC consensus ATA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:799875-800075 + 125 1.96e-05 ACGTACTATG TTTTTGGC TTTTTCACTT Mympn:481995-482195 + 188 1.96e-05 AAAAGAGAAA TTTTTGGC GATTA Mympn:420255-420455 - 177 8.48e-05 TCCAACAACT TTTTTAGC GCAAATTAAG Mympn:469115-469315 + 13 1.72e-04 TACGACTGGC TTTTTATC TAAAACGAAA Mympn:656180-656380 + 166 2.92e-04 ATCATTGTCT TTTTTGTA CTAGCTTCAA Mympn:604765-604965 + 117 2.92e-04 CTGGCAACTA TTTTTAGA ATCAGCCATG Mympn:482615-482815 - 142 2.92e-04 TAACTGATAA TTTTTGTA AAATATCTTT Mympn:261615-261815 + 33 3.43e-04 AACGTCATTG TCTTTGTC TTGTTGTACT Mympn:548595-548795 - 72 5.44e-04 ACCAAGATGA CTTTTAGC GATCTTTTAA Mympn:249845-250045 - 11 1.28e-03 TAGCTGTTTT TTTATATA TGTTGCTTTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:799875-800075 2e-05 124_[+5]_68 Mympn:481995-482195 2e-05 187_[+5]_5 Mympn:420255-420455 8.5e-05 176_[-5]_16 Mympn:469115-469315 0.00017 12_[+5]_180 Mympn:656180-656380 0.00029 165_[+5]_27 Mympn:604765-604965 0.00029 116_[+5]_76 Mympn:482615-482815 0.00029 141_[-5]_51 Mympn:261615-261815 0.00034 32_[+5]_160 Mympn:548595-548795 0.00054 71_[-5]_121 Mympn:249845-250045 0.0013 10_[-5]_182 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 5 width=8 seqs=10 Mympn:799875-800075 ( 125) TTTTTGGC 1 Mympn:481995-482195 ( 188) TTTTTGGC 0.512195 Mympn:420255-420455 ( 177) TTTTTAGC 0.731707 Mympn:469115-469315 ( 13) TTTTTATC 0.51626 Mympn:656180-656380 ( 166) TTTTTGTA 0.544715 Mympn:604765-604965 ( 117) TTTTTAGA 0.504065 Mympn:482615-482815 ( 142) TTTTTGTA 0.447154 Mympn:261615-261815 ( 33) TCTTTGTC 0.703252 Mympn:548595-548795 ( 72) CTTTTAGC 0.430894 Mympn:249845-250045 ( 11) TTTATATA 0.642276 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 1.4e+007 -924 -139 -924 157 -924 -69 -924 150 -924 -924 -924 168 -155 -924 -924 152 -924 -924 -924 168 59 -924 150 -924 -924 -924 149 60 18 178 -924 -924 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.4e+007 0.000000 0.071429 0.000000 0.928571 0.000000 0.116577 0.000000 0.883423 0.000000 0.000000 0.000000 1.000000 0.106469 0.000000 0.000000 0.893531 0.000000 0.000000 0.000000 1.000000 0.468329 0.000000 0.531671 0.000000 0.000000 0.000000 0.526954 0.473046 0.354447 0.645553 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 regular expression -------------------------------------------------------------------------------- TTTTT[GA][GT][CA] -------------------------------------------------------------------------------- Time 0.43 secs. ******************************************************************************** ******************************************************************************** MOTIF 6 width = 8 sites = 10 llr = 72 E-value = 1.1e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif 6 Description -------------------------------------------------------------------------------- Simplified A 3:2:1::9 pos.-specific C 3:179:a: probability G 22:2:::: matrix T 2871:a:1 bits 2.4 * 2.2 * 1.9 * * 1.7 *** Relative 1.4 *** Entropy 1.2 ***** (10.4 bits) 1.0 * ***** 0.7 * ***** 0.5 ******* 0.2 ******** 0.0 -------- Multilevel ATTCCTCA consensus CGA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:420255-420455 + 115 1.18e-05 AACTGTAAAT CTTCCTCA TAATCCTCAG Mympn:261615-261815 + 192 1.18e-05 CAAAAGTTAG CTTCCTCA G Mympn:799875-800075 + 92 3.15e-05 ATGACCTTGC ATTCCTCA AACTCTTTCC Mympn:656180-656380 + 13 7.41e-05 ATTAGTAATA AGTCCTCA TTTTTTCTCT Mympn:481995-482195 + 63 7.41e-05 AATACTTGAA CTACCTCA ACGACAACGG Mympn:249845-250045 + 77 2.09e-04 TTAAATCTTA GTTGCTCA AGATTAAAAC Mympn:604765-604965 + 152 3.72e-04 AAATGATAAA TGACCTCA AAGAACAGGT Mympn:548595-548795 - 14 6.89e-04 TTAATGCCAA TGCCCTCA AAGAGCGGAT Mympn:469115-469315 - 34 1.95e-03 ATAAGGCGAA ATTTCTCT AAATTTCGTT Mympn:482615-482815 - 79 2.24e-03 GCTTCTGACT GTAGATCA GACACCTTCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:420255-420455 1.2e-05 114_[+6]_78 Mympn:261615-261815 1.2e-05 191_[+6]_1 Mympn:799875-800075 3.1e-05 91_[+6]_101 Mympn:656180-656380 7.4e-05 12_[+6]_180 Mympn:481995-482195 7.4e-05 62_[+6]_130 Mympn:249845-250045 0.00021 76_[+6]_116 Mympn:604765-604965 0.00037 151_[+6]_41 Mympn:548595-548795 0.00069 13_[-6]_179 Mympn:469115-469315 0.0019 33_[-6]_159 Mympn:482615-482815 0.0022 78_[-6]_114 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 6 width=8 seqs=10 Mympn:420255-420455 ( 115) CTTCCTCA 0.731707 Mympn:261615-261815 ( 192) CTTCCTCA 0.703252 Mympn:799875-800075 ( 92) ATTCCTCA 1 Mympn:656180-656380 ( 13) AGTCCTCA 0.544715 Mympn:481995-482195 ( 63) CTACCTCA 0.512195 Mympn:249845-250045 ( 77) GTTGCTCA 0.642276 Mympn:604765-604965 ( 152) TGACCTCA 0.504065 Mympn:548595-548795 ( 14) TGCCCTCA 0.430894 Mympn:469115-469315 ( 34) ATTTCTCT 0.51626 Mympn:482615-482815 ( 79) GTAGATCA 0.447154 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 1.1e+007 13 78 -6 -101 -924 -924 38 127 -36 -139 -924 114 -924 196 -6 -186 -207 230 -924 -924 -924 -924 -924 168 -924 241 -924 -924 155 -924 -924 -186 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.1e+007 0.341644 0.322776 0.180593 0.154987 0.000000 0.000000 0.245283 0.754717 0.242588 0.071429 0.000000 0.685984 0.000000 0.733828 0.180593 0.085580 0.074124 0.925876 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.914420 0.000000 0.000000 0.085580 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 regular expression -------------------------------------------------------------------------------- [AC][TG][TA]CCTCA -------------------------------------------------------------------------------- Time 0.50 secs. ******************************************************************************** ******************************************************************************** MOTIF 7 width = 8 sites = 10 llr = 65 E-value = 3.4e+010 ******************************************************************************** -------------------------------------------------------------------------------- Motif 7 Description -------------------------------------------------------------------------------- Simplified A ::7969:4 pos.-specific C ::3:21:: probability G ::::::7: matrix T aa:13:36 bits 2.4 2.2 1.9 1.7 ** Relative 1.4 ** Entropy 1.2 ** * ** (9.4 bits) 1.0 **** ** 0.7 **** *** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTAAAAGT consensus C T TA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:799875-800075 - 31 8.67e-05 GTTGAGAGAC TTCAAAGT AGAAGTTAGA Mympn:548595-548795 + 62 1.41e-04 TGTAACTTGG TTAAAAGA TCGCTAAAAG Mympn:249845-250045 - 58 1.41e-04 AAGATTTAAC TTAAAAGA AATAATCGCT Mympn:604765-604965 + 92 2.60e-04 TAATTTGCCA TTAACAGT TGTAAAGCTG Mympn:481995-482195 + 8 2.60e-04 ATCTTTT TTAATAGT TTAAAATTGC Mympn:261615-261815 + 20 5.74e-04 ACTAATTAAA TTAAACGT CATTGTCTTT Mympn:420255-420455 - 63 7.37e-04 AAAAGAGCTT TTAAAATA TTTTAAAAGC Mympn:469115-469315 - 141 1.13e-03 CACCATTTAT TTCATATT AAGATGGAAG Mympn:656180-656380 + 56 1.53e-03 GTGCTAAAAC TTCATATA TTGTGGCTGC Mympn:482615-482815 + 150 1.87e-03 TTTACAAAAA TTATCAGT TAATGATCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:799875-800075 8.7e-05 30_[-7]_162 Mympn:548595-548795 0.00014 61_[+7]_131 Mympn:249845-250045 0.00014 57_[-7]_135 Mympn:604765-604965 0.00026 91_[+7]_101 Mympn:481995-482195 0.00026 7_[+7]_185 Mympn:261615-261815 0.00057 19_[+7]_173 Mympn:420255-420455 0.00074 62_[-7]_130 Mympn:469115-469315 0.0011 140_[-7]_52 Mympn:656180-656380 0.0015 55_[+7]_137 Mympn:482615-482815 0.0019 149_[+7]_43 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 7 width=8 seqs=10 Mympn:799875-800075 ( 31) TTCAAAGT 1 Mympn:548595-548795 ( 62) TTAAAAGA 0.430894 Mympn:249845-250045 ( 58) TTAAAAGA 0.642276 Mympn:604765-604965 ( 92) TTAACAGT 0.504065 Mympn:481995-482195 ( 8) TTAATAGT 0.512195 Mympn:261615-261815 ( 20) TTAAACGT 0.703252 Mympn:420255-420455 ( 63) TTAAAATA 0.731707 Mympn:469115-469315 ( 141) TTCATATT 0.51626 Mympn:656180-656380 ( 56) TTCATATA 0.544715 Mympn:482615-482815 ( 150) TTATCAGT 0.447154 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 3.4e+010 -924 -924 -924 168 -924 -924 -924 168 108 86 -924 -924 157 -924 -924 -207 90 -25 -924 -26 150 -69 -924 -924 -924 -924 190 -7 32 -924 -924 97 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 3.4e+010 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.658356 0.341644 0.000000 0.000000 0.925876 0.000000 0.000000 0.074124 0.581536 0.157682 0.000000 0.260782 0.883423 0.116577 0.000000 0.000000 0.000000 0.000000 0.702830 0.297170 0.389488 0.000000 0.000000 0.610512 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 regular expression -------------------------------------------------------------------------------- TT[AC]A[AT]A[GT][TA] -------------------------------------------------------------------------------- Time 0.55 secs. ******************************************************************************** ******************************************************************************** MOTIF 8 width = 8 sites = 10 llr = 71 E-value = 2.1e+008 ******************************************************************************** -------------------------------------------------------------------------------- Motif 8 Description -------------------------------------------------------------------------------- Simplified A :::::7a6 pos.-specific C ::32a::3 probability G ::14:::: matrix T aa64:3:1 bits 2.4 * 2.2 * 1.9 * 1.7 ** * * Relative 1.4 ** * * Entropy 1.2 ** * * (10.2 bits) 1.0 ** * * 0.7 *** **** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTTGCAAA consensus CT T C sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:799875-800075 - 61 5.22e-05 TGATCGAAGG TTCGCAAA CATTGAAGCG Mympn:469115-469315 + 63 8.37e-05 TTTGGCAGCA TTTGCAAC CGCCACAGTT Mympn:261615-261815 + 178 1.36e-04 TGGCTAACTC TTTCCAAA AGTTAGCTTC Mympn:604765-604965 + 170 2.23e-04 AAGAACAGGT TTTTCAAA CGAATTTATT Mympn:249845-250045 + 128 2.23e-04 ATAAGGCGTT TTTTCAAA TCAAATTCAT Mympn:548595-548795 - 130 2.75e-04 TAGCAATCCA TTTGCTAA AGCACTTCGT Mympn:420255-420455 - 189 3.06e-04 AATG TTTCCAAC AACTTTTTTA Mympn:656180-656380 + 25 5.29e-04 TCCTCATTTT TTCTCTAA TAACTGTCAA Mympn:482615-482815 + 15 8.64e-04 GCCTTACCGC TTGGCTAC ATCCCAATAA Mympn:481995-482195 + 118 1.23e-03 TATAGTGTTC TTCTCTAT TTTAGATTTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:799875-800075 5.2e-05 60_[-8]_132 Mympn:469115-469315 8.4e-05 62_[+8]_130 Mympn:261615-261815 0.00014 177_[+8]_15 Mympn:604765-604965 0.00022 169_[+8]_23 Mympn:249845-250045 0.00022 127_[+8]_65 Mympn:548595-548795 0.00027 129_[-8]_63 Mympn:420255-420455 0.00031 188_[-8]_4 Mympn:656180-656380 0.00053 24_[+8]_168 Mympn:482615-482815 0.00086 14_[+8]_178 Mympn:481995-482195 0.0012 117_[+8]_75 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 8 width=8 seqs=10 Mympn:799875-800075 ( 61) TTCGCAAA 1 Mympn:469115-469315 ( 63) TTTGCAAC 0.51626 Mympn:261615-261815 ( 178) TTTCCAAA 0.703252 Mympn:604765-604965 ( 170) TTTTCAAA 0.504065 Mympn:249845-250045 ( 128) TTTTCAAA 0.642276 Mympn:548595-548795 ( 130) TTTGCTAA 0.430894 Mympn:420255-420455 ( 189) TTTCCAAC 0.731707 Mympn:656180-656380 ( 25) TTCTCTAA 0.544715 Mympn:482615-482815 ( 15) TTGGCTAC 0.447154 Mympn:481995-482195 ( 118) TTCTCTAT 0.512195 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 2.1e+008 -924 -924 -924 168 -924 -924 -924 168 -924 86 -134 91 -924 34 108 23 -924 241 -924 -924 112 -924 -924 4 168 -924 -924 -924 102 58 -924 -187 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 2.1e+008 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.340970 0.074124 0.584906 0.000000 0.237871 0.396900 0.365229 0.000000 1.000000 0.000000 0.000000 0.679245 0.000000 0.000000 0.320755 1.000000 0.000000 0.000000 0.000000 0.634097 0.280997 0.000000 0.084906 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 regular expression -------------------------------------------------------------------------------- TT[TC][GTC]C[AT]A[AC] -------------------------------------------------------------------------------- Time 0.61 secs. ******************************************************************************** ******************************************************************************** MOTIF 9 width = 10 sites = 10 llr = 76 E-value = 1.0e+008 ******************************************************************************** -------------------------------------------------------------------------------- Motif 9 Description -------------------------------------------------------------------------------- Simplified A :469113:3: pos.-specific C :::1::3::: probability G :34::92161 matrix T a3::9:2919 bits 2.4 2.2 1.9 1.7 * * Relative 1.4 * * * * Entropy 1.2 * *** * * (11.0 bits) 1.0 * **** * * 0.7 * **** *** 0.5 * **** *** 0.2 ****** *** 0.0 ---------- Multilevel TAAATGATGT consensus TG C A sequence G G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ---------- Mympn:249845-250045 + 104 1.85e-06 CGCACTAAAT TGAATGCTGT TGTAATAAGG Mympn:261615-261815 - 153 9.82e-06 AGCCATCTTT TGGATGATGT TGACAAAGAC Mympn:469115-469315 + 150 1.29e-05 TAATATGAAA TAAATGGTGT TCCCTAGCCT Mympn:656180-656380 + 67 8.35e-05 TCATATATTG TGGCTGCTGT TTCGACAGCT Mympn:482615-482815 + 30 1.31e-04 TACATCCCAA TAAATGGTGG ACAGGGAGAG Mympn:799875-800075 - 166 1.64e-04 GACGGAACTT TTGATGTTAT AATTAAGGAA Mympn:604765-604965 + 31 2.26e-04 AAATGGACGT TAAATGGTTT AAGTGTATTG Mympn:420255-420455 - 31 2.84e-04 GGTTGAGCAC TAAATAATGT ACAATTCCAC Mympn:548595-548795 - 186 4.09e-04 CTTAA TTAATGCGAT TTGGCAGCTG Mympn:481995-482195 + 101 6.07e-04 TGAACACCTA TTAAAGATAT AGTGTTCTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:249845-250045 1.8e-06 103_[+9]_87 Mympn:261615-261815 9.8e-06 152_[-9]_38 Mympn:469115-469315 1.3e-05 149_[+9]_41 Mympn:656180-656380 8.4e-05 66_[+9]_124 Mympn:482615-482815 0.00013 29_[+9]_161 Mympn:799875-800075 0.00016 165_[-9]_25 Mympn:604765-604965 0.00023 30_[+9]_160 Mympn:420255-420455 0.00028 30_[-9]_160 Mympn:548595-548795 0.00041 185_[-9]_5 Mympn:481995-482195 0.00061 100_[+9]_90 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 9 width=10 seqs=10 Mympn:249845-250045 ( 104) TGAATGCTGT 0.642276 Mympn:261615-261815 ( 153) TGGATGATGT 0.703252 Mympn:469115-469315 ( 150) TAAATGGTGT 0.51626 Mympn:656180-656380 ( 67) TGGCTGCTGT 0.544715 Mympn:482615-482815 ( 30) TAAATGGTGG 0.447154 Mympn:799875-800075 ( 166) TTGATGTTAT 1 Mympn:604765-604965 ( 31) TAAATGGTTT 0.504065 Mympn:420255-420455 ( 31) TAAATAATGT 0.731707 Mympn:548595-548795 ( 186) TTAATGCGAT 0.430894 Mympn:481995-482195 ( 101) TTAAAGATAT 0.512195 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 1116 bayes= 6.91017 E= 1.0e+008 -924 -924 -924 168 22 -924 74 5 101 -924 99 -924 154 -106 -924 -924 -187 -924 -924 155 -136 -924 222 -924 5 51 37 -91 -924 -924 -139 157 5 -924 166 -189 -924 -924 -134 157 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 10 E= 1.0e+008 0.000000 0.000000 0.000000 1.000000 0.364555 0.000000 0.313342 0.322102 0.627358 0.000000 0.372642 0.000000 0.909704 0.090296 0.000000 0.000000 0.084906 0.000000 0.000000 0.915094 0.121294 0.000000 0.878706 0.000000 0.322776 0.268194 0.243261 0.165768 0.000000 0.000000 0.071429 0.928571 0.322102 0.000000 0.594340 0.083558 0.000000 0.000000 0.074124 0.925876 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 regular expression -------------------------------------------------------------------------------- T[ATG][AG]ATG[ACG]T[GA]T -------------------------------------------------------------------------------- Time 0.67 secs. ******************************************************************************** ******************************************************************************** MOTIF 10 width = 8 sites = 10 llr = 70 E-value = 5.7e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif 10 Description -------------------------------------------------------------------------------- Simplified A :a8::532 pos.-specific C ::::1312 probability G ::2a9:4: matrix T a::::226 bits 2.4 * 2.2 * 1.9 ** 1.7 ** ** Relative 1.4 ** ** Entropy 1.2 ***** (10.1 bits) 1.0 ***** 0.7 ***** 0.5 ****** * 0.2 ******** 0.0 -------- Multilevel TAAGGAGT consensus CAA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------- Mympn:249845-250045 + 119 1.18e-05 GCTGTTGTAA TAAGGCGT TTTTTCAAAT Mympn:420255-420455 - 163 3.15e-05 TAGCGCAAAT TAAGGAGT TCTTTTTAAA Mympn:261615-261815 - 114 3.15e-05 AGTACCCGTT TAAGGAGT ACTGGTTGCG Mympn:469115-469315 - 43 8.19e-05 CTGCCAAAAA TAAGGCGA AATTTCTCTA Mympn:799875-800075 - 155 3.12e-04 ATGTTATAAT TAAGGAAC GTTGCCAACG Mympn:482615-482815 - 3 3.12e-04 AGCCAAGCGG TAAGGCAA TA Mympn:481995-482195 - 138 7.02e-04 TTTTCTCCTT TAGGGATT ACTAAATCTA Mympn:656180-656380 - 148 7.97e-04 AGACAATGAT TAAGGTCT TATCATTACT Mympn:548595-548795 + 146 9.93e-04 AATGGATTGC TAAGCCAT CATTGCGCTT Mympn:604765-604965 - 54 1.50e-03 TACACATTAT TAGGGTTA TTTCAATACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:249845-250045 1.2e-05 118_[+10]_74 Mympn:420255-420455 3.1e-05 162_[-10]_30 Mympn:261615-261815 3.1e-05 113_[-10]_79 Mympn:469115-469315 8.2e-05 42_[-10]_150 Mympn:799875-800075 0.00031 154_[-10]_38 Mympn:482615-482815 0.00031 2_[-10]_190 Mympn:481995-482195 0.0007 137_[-10]_55 Mympn:656180-656380 0.0008 147_[-10]_45 Mympn:548595-548795 0.00099 145_[+10]_47 Mympn:604765-604965 0.0015 53_[-10]_139 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 10 width=8 seqs=10 Mympn:249845-250045 ( 119) TAAGGCGT 0.642276 Mympn:420255-420455 ( 163) TAAGGAGT 0.731707 Mympn:261615-261815 ( 114) TAAGGAGT 0.703252 Mympn:469115-469315 ( 43) TAAGGCGA 0.51626 Mympn:799875-800075 ( 155) TAAGGAAC 1 Mympn:482615-482815 ( 3) TAAGGCAA 0.447154 Mympn:481995-482195 ( 138) TAGGGATT 0.512195 Mympn:656180-656380 ( 148) TAAGGTCT 0.544715 Mympn:548595-548795 ( 146) TAAGCCAT 0.430894 Mympn:604765-604965 ( 54) TAGGGTTA 0.504065 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1136 bayes= 6.936 E= 5.7e+007 -924 -924 -924 168 168 -924 -924 -924 141 -924 -16 -924 -924 -924 241 -924 -924 -139 230 -924 65 84 -924 -84 0 -106 119 -89 -36 -18 -924 92 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 5.7e+007 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.831536 0.000000 0.168464 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.071429 0.928571 0.000000 0.488545 0.337601 0.000000 0.173854 0.311321 0.090296 0.429919 0.168464 0.243261 0.165768 0.000000 0.590970 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 regular expression -------------------------------------------------------------------------------- TAAGG[AC][GA][TA] -------------------------------------------------------------------------------- Time 0.72 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Mympn:249845-250045 2.71e-07 19_[+2(3.93e-05)]_76_[+9(1.85e-06)]_5_[+10(1.18e-05)]_74 Mympn:261615-261815 1.12e-09 3_[-4(1.18e-05)]_45_[-2(3.93e-05)]_23_[+1(7.13e-06)]_8_[+3(4.57e-05)]_2_[-10(3.15e-05)]_31_[-9(9.82e-06)]_10_[-2(9.56e-05)]_11_[+6(1.18e-05)]_1 Mympn:420255-420455 5.82e-08 43_[+3(1.18e-05)]_20_[-2(1.96e-05)]_12_[+1(4.20e-05)]_15_[+6(1.18e-05)]_40_[-10(3.15e-05)]_6_[-5(8.48e-05)]_16 Mympn:469115-469315 7.07e-06 42_[-10(8.19e-05)]_[+5(1.96e-05)]_4_[+8(8.37e-05)]_25_[-2(3.93e-05)]_4_[+8(8.37e-05)]_34_[+9(1.29e-05)]_41 Mympn:481995-482195 7.43e-06 44_[+3(3.15e-05)]_10_[+6(7.41e-05)]_2_[-1(4.91e-05)]_74_[+4(6.30e-05)]_25_[+5(1.96e-05)]_5 Mympn:482615-482815 3.08e-02 200 Mympn:548595-548795 1.70e-03 175_[+1(1.57e-05)]_17 Mympn:604765-604965 1.35e-03 108_[-1(4.20e-05)]_84 Mympn:656180-656380 7.83e-04 12_[+6(7.41e-05)]_46_[+9(8.35e-05)]_3_[-1(5.63e-05)]_113 Mympn:799875-800075 7.56e-08 9_[+7(5.41e-05)]_13_[-7(8.67e-05)]_4_[+3(6.94e-05)]_10_[-8(5.22e-05)]_23_[+6(3.15e-05)]_[-2(9.56e-05)]_17_[+5(1.96e-05)]_54_[-1(1.14e-05)]_6 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 10 reached. ******************************************************************************** CPU: vesuvio.crg.es ********************************************************************************